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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Cnvs_onlysig.41.3771/CNV2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Cnvs_onlysig.41.3771/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/301247/all_lesions.conf_99.cnv.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/CESC-TP/2330179/1.GDAC_clinicalDataPicker.Finished/CESC-TP.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=CESC-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=CESC-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=32, in cluster file=114, common to both=26
[1] "Reduce the number of clustering variables from 48 to 43."
[1] 43 26
[1] "Amp Peak  1(1q21.3) mutation analysis"
[1] 3
  AMP PEAK  1(1Q21.3) MUTATED AMP PEAK  1(1Q21.3) WILD-TYPE 
                           18                             8 
  AMP PEAK  1(1Q21.3) MUTATED AMP PEAK  1(1Q21.3) WILD-TYPE 
                           18                             8 
[1] "Amp Peak  2(2p24.3) mutation analysis"
[1] 3
  AMP PEAK  2(2P24.3) MUTATED AMP PEAK  2(2P24.3) WILD-TYPE 
                            8                            18 
  AMP PEAK  2(2P24.3) MUTATED AMP PEAK  2(2P24.3) WILD-TYPE 
                            8                            18 
[1] "Amp Peak  3(3q26.2) mutation analysis"
[1] 3
  AMP PEAK  3(3Q26.2) MUTATED AMP PEAK  3(3Q26.2) WILD-TYPE 
                           20                             6 
  AMP PEAK  3(3Q26.2) MUTATED AMP PEAK  3(3Q26.2) WILD-TYPE 
                           20                             6 
[1] "Amp Peak  4(3q28) mutation analysis"
[1] 3
  AMP PEAK  4(3Q28) MUTATED AMP PEAK  4(3Q28) WILD-TYPE 
                         20                           6 
  AMP PEAK  4(3Q28) MUTATED AMP PEAK  4(3Q28) WILD-TYPE 
                         20                           6 
[1] "Amp Peak  5(4q12) mutation analysis"
[1] 3
  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                          3                          23 
  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                          3                          23 
[1] "Amp Peak  6(5p15.33) mutation analysis"
[1] 3
  AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE 
                            13                             13 
  AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE 
                            13                             13 
[1] "Amp Peak  7(6q12) mutation analysis"
[1] 3
  AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE 
                          3                          23 
  AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE 
                          3                          23 
[1] "Amp Peak  8(7p11.2) mutation analysis"
[1] 3
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                            5                            21 
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                            5                            21 
[1] "Amp Peak  9(8q24.21) mutation analysis"
[1] 3
  AMP PEAK  9(8Q24.21) MUTATED AMP PEAK  9(8Q24.21) WILD-TYPE 
                            11                             15 
  AMP PEAK  9(8Q24.21) MUTATED AMP PEAK  9(8Q24.21) WILD-TYPE 
                            11                             15 
[1] "Amp Peak 10(9p24.1) mutation analysis"
[1] 3
  AMP PEAK 10(9P24.1) MUTATED AMP PEAK 10(9P24.1) WILD-TYPE 
                            6                            20 
  AMP PEAK 10(9P24.1) MUTATED AMP PEAK 10(9P24.1) WILD-TYPE 
                            6                            20 
[1] "Amp Peak 13(11q22.1) mutation analysis"
[1] 3
  AMP PEAK 13(11Q22.1) MUTATED AMP PEAK 13(11Q22.1) WILD-TYPE 
                             4                             22 
  AMP PEAK 13(11Q22.1) MUTATED AMP PEAK 13(11Q22.1) WILD-TYPE 
                             4                             22 
[1] "Amp Peak 14(13q22.1) mutation analysis"
[1] 3
  AMP PEAK 14(13Q22.1) MUTATED AMP PEAK 14(13Q22.1) WILD-TYPE 
                             3                             23 
  AMP PEAK 14(13Q22.1) MUTATED AMP PEAK 14(13Q22.1) WILD-TYPE 
                             3                             23 
[1] "Amp Peak 15(14q24.1) mutation analysis"
[1] 3
  AMP PEAK 15(14Q24.1) MUTATED AMP PEAK 15(14Q24.1) WILD-TYPE 
                             6                             20 
  AMP PEAK 15(14Q24.1) MUTATED AMP PEAK 15(14Q24.1) WILD-TYPE 
                             6                             20 
[1] "Amp Peak 16(15q26.3) mutation analysis"
[1] 3
  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                             8                             18 
  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                             8                             18 
[1] "Amp Peak 17(16p13.13) mutation analysis"
[1] 3
  AMP PEAK 17(16P13.13) MUTATED AMP PEAK 17(16P13.13) WILD-TYPE 
                              8                              18 
  AMP PEAK 17(16P13.13) MUTATED AMP PEAK 17(16P13.13) WILD-TYPE 
                              8                              18 
[1] "Amp Peak 18(17q12) mutation analysis"
[1] 3
  AMP PEAK 18(17Q12) MUTATED AMP PEAK 18(17Q12) WILD-TYPE 
                           4                           22 
  AMP PEAK 18(17Q12) MUTATED AMP PEAK 18(17Q12) WILD-TYPE 
                           4                           22 
[1] "Amp Peak 19(17q25.1) mutation analysis"
[1] 3
  AMP PEAK 19(17Q25.1) MUTATED AMP PEAK 19(17Q25.1) WILD-TYPE 
                             8                             18 
  AMP PEAK 19(17Q25.1) MUTATED AMP PEAK 19(17Q25.1) WILD-TYPE 
                             8                             18 
[1] "Amp Peak 20(19q13.31) mutation analysis"
[1] 3
  AMP PEAK 20(19Q13.31) MUTATED AMP PEAK 20(19Q13.31) WILD-TYPE 
                              6                              20 
  AMP PEAK 20(19Q13.31) MUTATED AMP PEAK 20(19Q13.31) WILD-TYPE 
                              6                              20 
[1] "Amp Peak 21(20q11.21) mutation analysis"
[1] 3
  AMP PEAK 21(20Q11.21) MUTATED AMP PEAK 21(20Q11.21) WILD-TYPE 
                             16                              10 
  AMP PEAK 21(20Q11.21) MUTATED AMP PEAK 21(20Q11.21) WILD-TYPE 
                             16                              10 
[1] "Amp Peak 22(Xq28) mutation analysis"
[1] 3
  AMP PEAK 22(XQ28) MUTATED AMP PEAK 22(XQ28) WILD-TYPE 
                          5                          21 
  AMP PEAK 22(XQ28) MUTATED AMP PEAK 22(XQ28) WILD-TYPE 
                          5                          21 
[1] "Del Peak  1(1p36.22) mutation analysis"
[1] 3
  DEL PEAK  1(1P36.22) MUTATED DEL PEAK  1(1P36.22) WILD-TYPE 
                             4                             22 
  DEL PEAK  1(1P36.22) MUTATED DEL PEAK  1(1P36.22) WILD-TYPE 
                             4                             22 
[1] "Del Peak  2(2q22.1) mutation analysis"
[1] 3
  DEL PEAK  2(2Q22.1) MUTATED DEL PEAK  2(2Q22.1) WILD-TYPE 
                            3                            23 
  DEL PEAK  2(2Q22.1) MUTATED DEL PEAK  2(2Q22.1) WILD-TYPE 
                            3                            23 
[1] "Del Peak  3(2q37.1) mutation analysis"
[1] 3
  DEL PEAK  3(2Q37.1) MUTATED DEL PEAK  3(2Q37.1) WILD-TYPE 
                           11                            15 
  DEL PEAK  3(2Q37.1) MUTATED DEL PEAK  3(2Q37.1) WILD-TYPE 
                           11                            15 
[1] "Del Peak  4(3p11.2) mutation analysis"
[1] 3
  DEL PEAK  4(3P11.2) MUTATED DEL PEAK  4(3P11.2) WILD-TYPE 
                           13                            13 
  DEL PEAK  4(3P11.2) MUTATED DEL PEAK  4(3P11.2) WILD-TYPE 
                           13                            13 
[1] "Del Peak  5(4q22.1) mutation analysis"
[1] 3
  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                            6                            20 
  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                            6                            20 
[1] "Del Peak  6(4q35.2) mutation analysis"
[1] 3
  DEL PEAK  6(4Q35.2) MUTATED DEL PEAK  6(4Q35.2) WILD-TYPE 
                            8                            18 
  DEL PEAK  6(4Q35.2) MUTATED DEL PEAK  6(4Q35.2) WILD-TYPE 
                            8                            18 
[1] "Del Peak  7(5q15) mutation analysis"
[1] 3
  DEL PEAK  7(5Q15) MUTATED DEL PEAK  7(5Q15) WILD-TYPE 
                         12                          14 
  DEL PEAK  7(5Q15) MUTATED DEL PEAK  7(5Q15) WILD-TYPE 
                         12                          14 
[1] "Del Peak  8(6p24.3) mutation analysis"
[1] 3
  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                            6                            20 
  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                            6                            20 
[1] "Del Peak 10(6q26) mutation analysis"
[1] 3
  DEL PEAK 10(6Q26) MUTATED DEL PEAK 10(6Q26) WILD-TYPE 
                          7                          19 
  DEL PEAK 10(6Q26) MUTATED DEL PEAK 10(6Q26) WILD-TYPE 
                          7                          19 
[1] "Del Peak 11(7q34) mutation analysis"
[1] 3
  DEL PEAK 11(7Q34) MUTATED DEL PEAK 11(7Q34) WILD-TYPE 
                          3                          23 
  DEL PEAK 11(7Q34) MUTATED DEL PEAK 11(7Q34) WILD-TYPE 
                          3                          23 
[1] "Del Peak 12(10q23.31) mutation analysis"
[1] 3
  DEL PEAK 12(10Q23.31) MUTATED DEL PEAK 12(10Q23.31) WILD-TYPE 
                              6                              20 
  DEL PEAK 12(10Q23.31) MUTATED DEL PEAK 12(10Q23.31) WILD-TYPE 
                              6                              20 
[1] "Del Peak 13(11q25) mutation analysis"
[1] 3
  DEL PEAK 13(11Q25) MUTATED DEL PEAK 13(11Q25) WILD-TYPE 
                          16                           10 
  DEL PEAK 13(11Q25) MUTATED DEL PEAK 13(11Q25) WILD-TYPE 
                          16                           10 
[1] "Del Peak 14(13q12.12) mutation analysis"
[1] 3
  DEL PEAK 14(13Q12.12) MUTATED DEL PEAK 14(13Q12.12) WILD-TYPE 
                             11                              15 
  DEL PEAK 14(13Q12.12) MUTATED DEL PEAK 14(13Q12.12) WILD-TYPE 
                             11                              15 
[1] "Del Peak 15(13q13.3) mutation analysis"
[1] 3
  DEL PEAK 15(13Q13.3) MUTATED DEL PEAK 15(13Q13.3) WILD-TYPE 
                            11                             15 
  DEL PEAK 15(13Q13.3) MUTATED DEL PEAK 15(13Q13.3) WILD-TYPE 
                            11                             15 
[1] "Del Peak 18(16q11.2) mutation analysis"
[1] 3
  DEL PEAK 18(16Q11.2) MUTATED DEL PEAK 18(16Q11.2) WILD-TYPE 
                             3                             23 
  DEL PEAK 18(16Q11.2) MUTATED DEL PEAK 18(16Q11.2) WILD-TYPE 
                             3                             23 
[1] "Del Peak 19(16q23.1) mutation analysis"
[1] 3
  DEL PEAK 19(16Q23.1) MUTATED DEL PEAK 19(16Q23.1) WILD-TYPE 
                             3                             23 
  DEL PEAK 19(16Q23.1) MUTATED DEL PEAK 19(16Q23.1) WILD-TYPE 
                             3                             23 
[1] "Del Peak 20(17p12) mutation analysis"
[1] 3
  DEL PEAK 20(17P12) MUTATED DEL PEAK 20(17P12) WILD-TYPE 
                           9                           17 
  DEL PEAK 20(17P12) MUTATED DEL PEAK 20(17P12) WILD-TYPE 
                           9                           17 
[1] "Del Peak 21(17q25.3) mutation analysis"
[1] 3
  DEL PEAK 21(17Q25.3) MUTATED DEL PEAK 21(17Q25.3) WILD-TYPE 
                             6                             20 
  DEL PEAK 21(17Q25.3) MUTATED DEL PEAK 21(17Q25.3) WILD-TYPE 
                             6                             20 
[1] "Del Peak 22(19p13.3) mutation analysis"
[1] 3
  DEL PEAK 22(19P13.3) MUTATED DEL PEAK 22(19P13.3) WILD-TYPE 
                             5                             21 
  DEL PEAK 22(19P13.3) MUTATED DEL PEAK 22(19P13.3) WILD-TYPE 
                             5                             21 
[1] "Del Peak 23(20p12.1) mutation analysis"
[1] 3
  DEL PEAK 23(20P12.1) MUTATED DEL PEAK 23(20P12.1) WILD-TYPE 
                             5                             21 
  DEL PEAK 23(20P12.1) MUTATED DEL PEAK 23(20P12.1) WILD-TYPE 
                             5                             21 
[1] "Del Peak 24(21q21.1) mutation analysis"
[1] 3
  DEL PEAK 24(21Q21.1) MUTATED DEL PEAK 24(21Q21.1) WILD-TYPE 
                             9                             17 
  DEL PEAK 24(21Q21.1) MUTATED DEL PEAK 24(21Q21.1) WILD-TYPE 
                             9                             17 
[1] "Del Peak 25(Xp11.3) mutation analysis"
[1] 3
  DEL PEAK 25(XP11.3) MUTATED DEL PEAK 25(XP11.3) WILD-TYPE 
                            9                            17 
  DEL PEAK 25(XP11.3) MUTATED DEL PEAK 25(XP11.3) WILD-TYPE 
                            9                            17 
[1] "Del Peak 26(Xq21.33) mutation analysis"
[1] 3
  DEL PEAK 26(XQ21.33) MUTATED DEL PEAK 26(XQ21.33) WILD-TYPE 
                             6                             20 
  DEL PEAK 26(XQ21.33) MUTATED DEL PEAK 26(XQ21.33) WILD-TYPE 
                             6                             20 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "HISTOLOGICALTYPE"                      
[10] "RADIATIONS.RADIATION.REGIMENINDICATION"
[11] "NUMBERPACKYEARSSMOKED"                 
[12] "STOPPEDSMOKINGYEAR"                    
[13] "TOBACCOSMOKINGHISTORYINDICATOR"        
[14] "BATCHNUMBER"                           

Input Data has 14 rows and 26 columns.

[1] "Batch" "14"   
[1] "Last Follow UP"
TCGA-BI-A0VR TCGA-BI-A0VS TCGA-DR-A0ZL TCGA-DR-A0ZM TCGA-DS-A0VK TCGA-DS-A0VL 
        1505          925         2155         1289           NA           81 
TCGA-DS-A0VM TCGA-DS-A0VN TCGA-DS-A3LQ TCGA-EA-A1QT TCGA-EA-A3HQ TCGA-EA-A3HR 
        2127         2892          183            8           53           40 
TCGA-EA-A3HS TCGA-EA-A3HT TCGA-EK-A2PI TCGA-EX-A1H5 TCGA-EX-A3L1 TCGA-FU-A23K 
          25           19           NA          178          211           37 
TCGA-FU-A23L TCGA-FU-A2QG TCGA-FU-A3EO TCGA-FU-A3HY TCGA-FU-A3HZ TCGA-FU-A3NI 
          37           30           66            2           31           44 
TCGA-HG-A2PA TCGA-HM-A3JK 
         773          168 
Variable 1:'AGE':	nDistinctValues=20,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=24,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=TRUE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=9,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'HISTOLOGICAL.TYPE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'NUMBERPACKYEARSSMOKED':	nDistinctValues=5,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 12:'STOPPEDSMOKINGYEAR':	nDistinctValues=4,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 13:'TOBACCOSMOKINGHISTORYINDICATOR':	nDistinctValues=4,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 14:'BATCH.NUMBER':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                                   
[2] "RADIATIONS.RADIATION.REGIMENINDICATION"
[3] "NUMBERPACKYEARSSMOKED"                 
[4] "STOPPEDSMOKINGYEAR"                    
[5] "TOBACCOSMOKINGHISTORYINDICATOR"        
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 26 columns, 1 survival variables, and 5 non-survival variables.
AGE, nv=20, binary=FALSE, numeric=TRUE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
NUMBERPACKYEARSSMOKED, nv=5, binary=FALSE, numeric=TRUE
STOPPEDSMOKINGYEAR, nv=4, binary=FALSE, numeric=TRUE
TOBACCOSMOKINGHISTORYINDICATOR, nv=4, binary=FALSE, numeric=TRUE

Clustering(1) Variable = Amp Peak  1(1q21.3) mutation analysis
D1V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"AMP PEAK  1(1Q21.3) WILD-TYPE"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  1(1Q21.3) WILD-TYPE"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"AMP PEAK  1(1Q21.3) WILD-TYPE"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  1(1Q21.3) WILD-TYPE"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"AMP PEAK  1(1Q21.3) WILD-TYPE"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
  "AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  1(1Q21.3) WILD-TYPE"   "AMP PEAK  1(1Q21.3) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "AMP PEAK  1(1Q21.3) MUTATED"   "AMP PEAK  1(1Q21.3) MUTATED" 
[1] "hr="     "2.6e+09"
D1V2, continuous
D1V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1Q21.3) MUTATED     16    2
  AMP PEAK  1(1Q21.3) WILD-TYPE    6    2
     clus
vv    AMP PEAK  1(1Q21.3) MUTATED AMP PEAK  1(1Q21.3) WILD-TYPE
  NO                            2                             2
  YES                          16                             6
D1V4, continuous
D1V5, continuous
[1] "Remove cluster labels:"        "AMP PEAK  1(1Q21.3) WILD-TYPE"
clus
  AMP PEAK  1(1Q21.3) MUTATED AMP PEAK  1(1Q21.3) WILD-TYPE 
                            3                             1 
                 TCGA-BI-A0VR                  TCGA-DS-A3LQ 
"AMP PEAK  1(1Q21.3) MUTATED" "AMP PEAK  1(1Q21.3) MUTATED" 
                 TCGA-HM-A3JK 
"AMP PEAK  1(1Q21.3) MUTATED" 
D1V6, continuous

Clustering(2) Variable = Amp Peak  2(2p24.3) mutation analysis
D2V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"AMP PEAK  2(2P24.3) WILD-TYPE"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  2(2P24.3) MUTATED" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"AMP PEAK  2(2P24.3) WILD-TYPE"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "AMP PEAK  2(2P24.3) MUTATED" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  2(2P24.3) MUTATED" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  2(2P24.3) MUTATED"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK  2(2P24.3) WILD-TYPE"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"AMP PEAK  2(2P24.3) WILD-TYPE"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  2(2P24.3) MUTATED" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"AMP PEAK  2(2P24.3) WILD-TYPE"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "AMP PEAK  2(2P24.3) MUTATED" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  2(2P24.3) MUTATED" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  2(2P24.3) MUTATED"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK  2(2P24.3) WILD-TYPE"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"AMP PEAK  2(2P24.3) WILD-TYPE"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  2(2P24.3) MUTATED" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"AMP PEAK  2(2P24.3) WILD-TYPE"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "AMP PEAK  2(2P24.3) MUTATED" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  2(2P24.3) MUTATED" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  2(2P24.3) MUTATED"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK  2(2P24.3) WILD-TYPE"   "AMP PEAK  2(2P24.3) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
[1] "hr="   "7e+08"
D2V2, continuous
D2V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(2P24.3) MUTATED      7    1
  AMP PEAK  2(2P24.3) WILD-TYPE   15    3
     clus
vv    AMP PEAK  2(2P24.3) MUTATED AMP PEAK  2(2P24.3) WILD-TYPE
  NO                            1                             3
  YES                           7                            15
D2V4, continuous
[1] "Remove cluster labels:"      "AMP PEAK  2(2P24.3) MUTATED"
clus
  AMP PEAK  2(2P24.3) MUTATED AMP PEAK  2(2P24.3) WILD-TYPE 
                            2                             4 
                   TCGA-BI-A0VR                    TCGA-DR-A0ZM 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
                   TCGA-EX-A1H5                    TCGA-FU-A3EO 
"AMP PEAK  2(2P24.3) WILD-TYPE" "AMP PEAK  2(2P24.3) WILD-TYPE" 
D2V5, continuous
[1] "Remove cluster labels:"        "AMP PEAK  2(2P24.3) MUTATED"  
[3] "AMP PEAK  2(2P24.3) WILD-TYPE"
clus
  AMP PEAK  2(2P24.3) MUTATED AMP PEAK  2(2P24.3) WILD-TYPE 
                            2                             2 
named character(0)
D2V6, continuous

Clustering(3) Variable = Amp Peak  3(3q26.2) mutation analysis
D3V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "AMP PEAK  3(3Q26.2) MUTATED" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  3(3Q26.2) MUTATED" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  3(3Q26.2) MUTATED" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK  3(3Q26.2) WILD-TYPE" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  3(3Q26.2) WILD-TYPE"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "AMP PEAK  3(3Q26.2) MUTATED" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  3(3Q26.2) MUTATED" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  3(3Q26.2) MUTATED" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK  3(3Q26.2) WILD-TYPE" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  3(3Q26.2) WILD-TYPE"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "AMP PEAK  3(3Q26.2) MUTATED" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  3(3Q26.2) MUTATED" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  3(3Q26.2) MUTATED" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK  3(3Q26.2) WILD-TYPE" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  3(3Q26.2) WILD-TYPE"   "AMP PEAK  3(3Q26.2) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "AMP PEAK  3(3Q26.2) MUTATED"   "AMP PEAK  3(3Q26.2) MUTATED" 
[1] "hr=" "1"  
D3V2, continuous
D3V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(3Q26.2) MUTATED     16    4
  AMP PEAK  3(3Q26.2) WILD-TYPE    6    0
     clus
vv    AMP PEAK  3(3Q26.2) MUTATED AMP PEAK  3(3Q26.2) WILD-TYPE
  NO                            4                             0
  YES                          16                             6
D3V4, continuous
[1] "Remove cluster labels:"      "AMP PEAK  3(3Q26.2) MUTATED"
clus
  AMP PEAK  3(3Q26.2) MUTATED AMP PEAK  3(3Q26.2) WILD-TYPE 
                            2                             4 
                   TCGA-DR-A0ZM                    TCGA-FU-A2QG 
"AMP PEAK  3(3Q26.2) WILD-TYPE" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK  3(3Q26.2) WILD-TYPE" "AMP PEAK  3(3Q26.2) WILD-TYPE" 
D3V5, continuous
[1] "Remove cluster labels:"        "AMP PEAK  3(3Q26.2) WILD-TYPE"
clus
  AMP PEAK  3(3Q26.2) MUTATED AMP PEAK  3(3Q26.2) WILD-TYPE 
                            3                             1 
                 TCGA-BI-A0VR                  TCGA-DS-A3LQ 
"AMP PEAK  3(3Q26.2) MUTATED" "AMP PEAK  3(3Q26.2) MUTATED" 
                 TCGA-HM-A3JK 
"AMP PEAK  3(3Q26.2) MUTATED" 
D3V6, continuous

Clustering(4) Variable = Amp Peak  4(3q28) mutation analysis
D4V1, survival
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
  "AMP PEAK  4(3Q28) MUTATED" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
  "AMP PEAK  4(3Q28) MUTATED" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "AMP PEAK  4(3Q28) MUTATED" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK  4(3Q28) WILD-TYPE" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK  4(3Q28) WILD-TYPE"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
  "AMP PEAK  4(3Q28) MUTATED" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
  "AMP PEAK  4(3Q28) MUTATED" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "AMP PEAK  4(3Q28) MUTATED" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK  4(3Q28) WILD-TYPE" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK  4(3Q28) WILD-TYPE"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
  "AMP PEAK  4(3Q28) MUTATED" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
  "AMP PEAK  4(3Q28) MUTATED" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "AMP PEAK  4(3Q28) MUTATED" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK  4(3Q28) WILD-TYPE" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK  4(3Q28) WILD-TYPE"   "AMP PEAK  4(3Q28) MUTATED" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
  "AMP PEAK  4(3Q28) MUTATED"   "AMP PEAK  4(3Q28) MUTATED" 
[1] "hr=" "1"  
D4V2, continuous
D4V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  4(3Q28) MUTATED     16    4
  AMP PEAK  4(3Q28) WILD-TYPE    6    0
     clus
vv    AMP PEAK  4(3Q28) MUTATED AMP PEAK  4(3Q28) WILD-TYPE
  NO                          4                           0
  YES                        16                           6
D4V4, continuous
[1] "Remove cluster labels:"    "AMP PEAK  4(3Q28) MUTATED"
clus
  AMP PEAK  4(3Q28) MUTATED AMP PEAK  4(3Q28) WILD-TYPE 
                          2                           4 
                 TCGA-DR-A0ZM                  TCGA-FU-A2QG 
"AMP PEAK  4(3Q28) WILD-TYPE" "AMP PEAK  4(3Q28) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK  4(3Q28) WILD-TYPE" "AMP PEAK  4(3Q28) WILD-TYPE" 
D4V5, continuous
[1] "Remove cluster labels:"      "AMP PEAK  4(3Q28) WILD-TYPE"
clus
  AMP PEAK  4(3Q28) MUTATED AMP PEAK  4(3Q28) WILD-TYPE 
                          3                           1 
               TCGA-BI-A0VR                TCGA-DS-A3LQ 
"AMP PEAK  4(3Q28) MUTATED" "AMP PEAK  4(3Q28) MUTATED" 
               TCGA-HM-A3JK 
"AMP PEAK  4(3Q28) MUTATED" 
D4V6, continuous

Clustering(5) Variable = Amp Peak  5(4q12) mutation analysis
D5V1, survival
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
[1] "hr="   "7e+08"
D5V2, continuous
D5V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  5(4Q12) MUTATED      2    1
  AMP PEAK  5(4Q12) WILD-TYPE   20    3
     clus
vv    AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE
  NO                          1                           3
  YES                         2                          20
D5V4, continuous
D5V5, continuous
[1] "Remove cluster labels:"    "AMP PEAK  5(4Q12) MUTATED"
clus
  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                          1                           3 
                 TCGA-BI-A0VR                  TCGA-FU-A2QG 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-HM-A3JK 
"AMP PEAK  5(4Q12) WILD-TYPE" 
D5V6, continuous
[1] "Remove cluster labels:"    "AMP PEAK  5(4Q12) MUTATED"
clus
  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                          2                          23 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EA-A1QT                  TCGA-EA-A3HQ 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EA-A3HR                  TCGA-EA-A3HS 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EA-A3HT                  TCGA-EX-A1H5 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23L 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FU-A2QG                  TCGA-FU-A3EO 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FU-A3HY                  TCGA-FU-A3HZ 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FU-A3NI                  TCGA-HG-A2PA 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-HM-A3JK 
"AMP PEAK  5(4Q12) WILD-TYPE" 

Clustering(6) Variable = Amp Peak  6(5p15.33) mutation analysis
D6V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
[1] "hr="     "1.1e+09"
D6V2, continuous
D6V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  6(5P15.33) MUTATED     11    2
  AMP PEAK  6(5P15.33) WILD-TYPE   11    2
     clus
vv    AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE
  NO                             2                              2
  YES                           11                             11
D6V4, continuous
D6V5, continuous
[1] "Remove cluster labels:"         "AMP PEAK  6(5P15.33) MUTATED"  
[3] "AMP PEAK  6(5P15.33) WILD-TYPE"
clus
  AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE 
                             2                              2 
named character(0)
D6V6, continuous

Clustering(7) Variable = Amp Peak  7(6q12) mutation analysis
D7V1, survival
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"AMP PEAK  7(6Q12) WILD-TYPE"   "AMP PEAK  7(6Q12) MUTATED" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK  7(6Q12) MUTATED" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "AMP PEAK  7(6Q12) MUTATED" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"AMP PEAK  7(6Q12) WILD-TYPE"   "AMP PEAK  7(6Q12) MUTATED" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK  7(6Q12) MUTATED" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "AMP PEAK  7(6Q12) MUTATED" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"AMP PEAK  7(6Q12) WILD-TYPE"   "AMP PEAK  7(6Q12) MUTATED" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK  7(6Q12) MUTATED" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "AMP PEAK  7(6Q12) MUTATED" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
[1] "hr=" "1"  
D7V2, continuous
D7V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  7(6Q12) MUTATED      2    1
  AMP PEAK  7(6Q12) WILD-TYPE   20    3
     clus
vv    AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE
  NO                          1                           3
  YES                         2                          20
D7V4, continuous
D7V5, continuous
[1] "Remove cluster labels:"    "AMP PEAK  7(6Q12) MUTATED"
clus
  AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE 
                          1                           3 
                 TCGA-BI-A0VR                  TCGA-FU-A2QG 
"AMP PEAK  7(6Q12) WILD-TYPE" "AMP PEAK  7(6Q12) WILD-TYPE" 
                 TCGA-HM-A3JK 
"AMP PEAK  7(6Q12) WILD-TYPE" 
D7V6, continuous

Clustering(8) Variable = Amp Peak  8(7p11.2) mutation analysis
D8V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
[1] "hr="     "2.6e+09"
D8V2, continuous
D8V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  8(7P11.2) MUTATED      4    1
  AMP PEAK  8(7P11.2) WILD-TYPE   18    3
     clus
vv    AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  NO                            1                             3
  YES                           4                            18
D8V4, continuous
D8V5, continuous
[1] "Remove cluster labels:"      "AMP PEAK  8(7P11.2) MUTATED"
clus
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                            1                             3 
                   TCGA-BI-A0VR                    TCGA-FU-A2QG 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-HM-A3JK 
"AMP PEAK  8(7P11.2) WILD-TYPE" 
D8V6, continuous

Clustering(9) Variable = Amp Peak  9(8q24.21) mutation analysis
D9V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "AMP PEAK  9(8Q24.21) MUTATED"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "AMP PEAK  9(8Q24.21) MUTATED"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "AMP PEAK  9(8Q24.21) MUTATED"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "AMP PEAK  9(8Q24.21) MUTATED" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK  9(8Q24.21) WILD-TYPE"   "AMP PEAK  9(8Q24.21) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
[1] "hr="     "1.1e+09"
D9V2, continuous
D9V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  9(8Q24.21) MUTATED     10    1
  AMP PEAK  9(8Q24.21) WILD-TYPE   12    3
     clus
vv    AMP PEAK  9(8Q24.21) MUTATED AMP PEAK  9(8Q24.21) WILD-TYPE
  NO                             1                              3
  YES                           10                             12
D9V4, continuous
[1] "Remove cluster labels:"       "AMP PEAK  9(8Q24.21) MUTATED"
clus
  AMP PEAK  9(8Q24.21) MUTATED AMP PEAK  9(8Q24.21) WILD-TYPE 
                             1                              5 
                    TCGA-BI-A0VR                     TCGA-DR-A0ZM 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-EX-A1H5                     TCGA-FU-A2QG 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-FU-A3EO 
"AMP PEAK  9(8Q24.21) WILD-TYPE" 
D9V5, continuous
[1] "Remove cluster labels:"       "AMP PEAK  9(8Q24.21) MUTATED"
clus
  AMP PEAK  9(8Q24.21) MUTATED AMP PEAK  9(8Q24.21) WILD-TYPE 
                             1                              3 
                    TCGA-BI-A0VR                     TCGA-FU-A2QG 
"AMP PEAK  9(8Q24.21) WILD-TYPE" "AMP PEAK  9(8Q24.21) WILD-TYPE" 
                    TCGA-HM-A3JK 
"AMP PEAK  9(8Q24.21) WILD-TYPE" 
D9V6, continuous

Clustering(10) Variable = Amp Peak 10(9p24.1) mutation analysis
D10V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "AMP PEAK 10(9P24.1) MUTATED" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "AMP PEAK 10(9P24.1) MUTATED" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK 10(9P24.1) MUTATED"   "AMP PEAK 10(9P24.1) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK 10(9P24.1) MUTATED"   "AMP PEAK 10(9P24.1) MUTATED" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "AMP PEAK 10(9P24.1) MUTATED" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "AMP PEAK 10(9P24.1) MUTATED" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK 10(9P24.1) MUTATED"   "AMP PEAK 10(9P24.1) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK 10(9P24.1) MUTATED"   "AMP PEAK 10(9P24.1) MUTATED" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "AMP PEAK 10(9P24.1) MUTATED" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "AMP PEAK 10(9P24.1) MUTATED" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "AMP PEAK 10(9P24.1) MUTATED"   "AMP PEAK 10(9P24.1) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "AMP PEAK 10(9P24.1) MUTATED"   "AMP PEAK 10(9P24.1) MUTATED" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
[1] "hr="   "7e+08"
D10V2, continuous
D10V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 10(9P24.1) MUTATED      5    1
  AMP PEAK 10(9P24.1) WILD-TYPE   17    3
     clus
vv    AMP PEAK 10(9P24.1) MUTATED AMP PEAK 10(9P24.1) WILD-TYPE
  NO                            1                             3
  YES                           5                            17
D10V4, continuous
[1] "Remove cluster labels:"      "AMP PEAK 10(9P24.1) MUTATED"
clus
  AMP PEAK 10(9P24.1) MUTATED AMP PEAK 10(9P24.1) WILD-TYPE 
                            1                             5 
                   TCGA-DR-A0ZM                    TCGA-EX-A1H5 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-FU-A2QG                    TCGA-FU-A3EO 
"AMP PEAK 10(9P24.1) WILD-TYPE" "AMP PEAK 10(9P24.1) WILD-TYPE" 
                   TCGA-FU-A3HY 
"AMP PEAK 10(9P24.1) WILD-TYPE" 
D10V5, continuous
[1] "Remove cluster labels:"        "AMP PEAK 10(9P24.1) MUTATED"  
[3] "AMP PEAK 10(9P24.1) WILD-TYPE"
clus
  AMP PEAK 10(9P24.1) MUTATED AMP PEAK 10(9P24.1) WILD-TYPE 
                            2                             2 
named character(0)
D10V6, continuous

Clustering(11) Variable = Amp Peak 13(11q22.1) mutation analysis
D11V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "AMP PEAK 13(11Q22.1) MUTATED" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "AMP PEAK 13(11Q22.1) MUTATED"   "AMP PEAK 13(11Q22.1) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 13(11Q22.1) MUTATED" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "AMP PEAK 13(11Q22.1) MUTATED" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "AMP PEAK 13(11Q22.1) MUTATED"   "AMP PEAK 13(11Q22.1) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 13(11Q22.1) MUTATED" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "AMP PEAK 13(11Q22.1) MUTATED" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "AMP PEAK 13(11Q22.1) MUTATED"   "AMP PEAK 13(11Q22.1) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 13(11Q22.1) MUTATED" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 13(11Q22.1) WILD-TYPE" "AMP PEAK 13(11Q22.1) WILD-TYPE" 
[1] "hr="     "2.6e+09"
D11V2, continuous
D11V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(11Q22.1) MUTATED      4    0
  AMP PEAK 13(11Q22.1) WILD-TYPE   18    4
     clus
vv    AMP PEAK 13(11Q22.1) MUTATED AMP PEAK 13(11Q22.1) WILD-TYPE
  NO                             0                              4
  YES                            4                             18
D11V4, continuous
D11V5, continuous
D11V6, continuous

Clustering(12) Variable = Amp Peak 14(13q22.1) mutation analysis
D12V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "AMP PEAK 14(13Q22.1) MUTATED" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 14(13Q22.1) WILD-TYPE"   "AMP PEAK 14(13Q22.1) MUTATED" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 14(13Q22.1) WILD-TYPE"   "AMP PEAK 14(13Q22.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "AMP PEAK 14(13Q22.1) MUTATED" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 14(13Q22.1) WILD-TYPE"   "AMP PEAK 14(13Q22.1) MUTATED" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 14(13Q22.1) WILD-TYPE"   "AMP PEAK 14(13Q22.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "AMP PEAK 14(13Q22.1) MUTATED" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 14(13Q22.1) WILD-TYPE"   "AMP PEAK 14(13Q22.1) MUTATED" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 14(13Q22.1) WILD-TYPE"   "AMP PEAK 14(13Q22.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
[1] "hr="   "7e+08"
D12V2, continuous
D12V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(13Q22.1) MUTATED      3    0
  AMP PEAK 14(13Q22.1) WILD-TYPE   19    4
     clus
vv    AMP PEAK 14(13Q22.1) MUTATED AMP PEAK 14(13Q22.1) WILD-TYPE
  NO                             0                              4
  YES                            3                             19
D12V4, continuous
[1] "Remove cluster labels:"       "AMP PEAK 14(13Q22.1) MUTATED"
clus
  AMP PEAK 14(13Q22.1) MUTATED AMP PEAK 14(13Q22.1) WILD-TYPE 
                             1                              5 
                    TCGA-BI-A0VR                     TCGA-DR-A0ZM 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-EX-A1H5                     TCGA-FU-A2QG 
"AMP PEAK 14(13Q22.1) WILD-TYPE" "AMP PEAK 14(13Q22.1) WILD-TYPE" 
                    TCGA-FU-A3EO 
"AMP PEAK 14(13Q22.1) WILD-TYPE" 
D12V5, continuous
D12V6, continuous

Clustering(13) Variable = Amp Peak 15(14q24.1) mutation analysis
D13V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 15(14Q24.1) WILD-TYPE"   "AMP PEAK 15(14Q24.1) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK 15(14Q24.1) MUTATED" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK 15(14Q24.1) MUTATED" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 15(14Q24.1) MUTATED" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 15(14Q24.1) WILD-TYPE"   "AMP PEAK 15(14Q24.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 15(14Q24.1) WILD-TYPE"   "AMP PEAK 15(14Q24.1) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 15(14Q24.1) WILD-TYPE"   "AMP PEAK 15(14Q24.1) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK 15(14Q24.1) MUTATED" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK 15(14Q24.1) MUTATED" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 15(14Q24.1) MUTATED" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 15(14Q24.1) WILD-TYPE"   "AMP PEAK 15(14Q24.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 15(14Q24.1) WILD-TYPE"   "AMP PEAK 15(14Q24.1) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 15(14Q24.1) WILD-TYPE"   "AMP PEAK 15(14Q24.1) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK 15(14Q24.1) MUTATED" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK 15(14Q24.1) MUTATED" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 15(14Q24.1) MUTATED" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 15(14Q24.1) WILD-TYPE"   "AMP PEAK 15(14Q24.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 15(14Q24.1) WILD-TYPE"   "AMP PEAK 15(14Q24.1) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
[1] "hr="   "7e+08"
D13V2, continuous
D13V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 15(14Q24.1) MUTATED      6    0
  AMP PEAK 15(14Q24.1) WILD-TYPE   16    4
     clus
vv    AMP PEAK 15(14Q24.1) MUTATED AMP PEAK 15(14Q24.1) WILD-TYPE
  NO                             0                              4
  YES                            6                             16
D13V4, continuous
[1] "Remove cluster labels:"       "AMP PEAK 15(14Q24.1) MUTATED"
clus
  AMP PEAK 15(14Q24.1) MUTATED AMP PEAK 15(14Q24.1) WILD-TYPE 
                             1                              5 
                    TCGA-BI-A0VR                     TCGA-DR-A0ZM 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-EX-A1H5                     TCGA-FU-A2QG 
"AMP PEAK 15(14Q24.1) WILD-TYPE" "AMP PEAK 15(14Q24.1) WILD-TYPE" 
                    TCGA-FU-A3EO 
"AMP PEAK 15(14Q24.1) WILD-TYPE" 
D13V5, continuous
D13V6, continuous

Clustering(14) Variable = Amp Peak 16(15q26.3) mutation analysis
D14V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
[1] "hr="   "7e+08"
D14V2, continuous
D14V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(15Q26.3) MUTATED      7    1
  AMP PEAK 16(15Q26.3) WILD-TYPE   15    3
     clus
vv    AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE
  NO                             1                              3
  YES                            7                             15
D14V4, continuous
[1] "Remove cluster labels:"       "AMP PEAK 16(15Q26.3) MUTATED"
clus
  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                             1                              5 
                    TCGA-DR-A0ZM                     TCGA-EX-A1H5 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A2QG                     TCGA-FU-A3EO 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FU-A3HY 
"AMP PEAK 16(15Q26.3) WILD-TYPE" 
D14V5, continuous
[1] "Remove cluster labels:"         "AMP PEAK 16(15Q26.3) MUTATED"  
[3] "AMP PEAK 16(15Q26.3) WILD-TYPE"
clus
  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                             2                              2 
named character(0)
D14V6, continuous

Clustering(15) Variable = Amp Peak 17(16p13.13) mutation analysis
D15V1, survival
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
"AMP PEAK 17(16P13.13) WILD-TYPE"   "AMP PEAK 17(16P13.13) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"AMP PEAK 17(16P13.13) WILD-TYPE"   "AMP PEAK 17(16P13.13) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
"AMP PEAK 17(16P13.13) WILD-TYPE"   "AMP PEAK 17(16P13.13) MUTATED" 
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
"AMP PEAK 17(16P13.13) WILD-TYPE"   "AMP PEAK 17(16P13.13) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"AMP PEAK 17(16P13.13) WILD-TYPE"   "AMP PEAK 17(16P13.13) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
"AMP PEAK 17(16P13.13) WILD-TYPE"   "AMP PEAK 17(16P13.13) MUTATED" 
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
"AMP PEAK 17(16P13.13) WILD-TYPE"   "AMP PEAK 17(16P13.13) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
  "AMP PEAK 17(16P13.13) MUTATED" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"AMP PEAK 17(16P13.13) WILD-TYPE"   "AMP PEAK 17(16P13.13) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
"AMP PEAK 17(16P13.13) WILD-TYPE"   "AMP PEAK 17(16P13.13) MUTATED" 
[1] "hr="   "7e+08"
D15V2, continuous
D15V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 17(16P13.13) MUTATED      6    2
  AMP PEAK 17(16P13.13) WILD-TYPE   16    2
     clus
vv    AMP PEAK 17(16P13.13) MUTATED AMP PEAK 17(16P13.13) WILD-TYPE
  NO                              2                               2
  YES                             6                              16
D15V4, continuous
[1] "Remove cluster labels:"        "AMP PEAK 17(16P13.13) MUTATED"
clus
  AMP PEAK 17(16P13.13) MUTATED AMP PEAK 17(16P13.13) WILD-TYPE 
                              1                               5 
                     TCGA-BI-A0VR                      TCGA-DR-A0ZM 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-EX-A1H5                      TCGA-FU-A2QG 
"AMP PEAK 17(16P13.13) WILD-TYPE" "AMP PEAK 17(16P13.13) WILD-TYPE" 
                     TCGA-FU-A3HY 
"AMP PEAK 17(16P13.13) WILD-TYPE" 
D15V5, continuous
[1] "Remove cluster labels:"          "AMP PEAK 17(16P13.13) MUTATED"  
[3] "AMP PEAK 17(16P13.13) WILD-TYPE"
clus
  AMP PEAK 17(16P13.13) MUTATED AMP PEAK 17(16P13.13) WILD-TYPE 
                              2                               2 
named character(0)
D15V6, continuous

Clustering(16) Variable = Amp Peak 18(17q12) mutation analysis
D16V1, survival
                  TCGA-BI-A0VR                   TCGA-BI-A0VS 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DR-A0ZL                   TCGA-DR-A0ZM 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DS-A0VK                   TCGA-DS-A0VL 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DS-A0VM                   TCGA-DS-A0VN 
  "AMP PEAK 18(17Q12) MUTATED" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DS-A3LQ                   TCGA-EA-A1QT 
  "AMP PEAK 18(17Q12) MUTATED" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-EA-A3HQ                   TCGA-EA-A3HR 
"AMP PEAK 18(17Q12) WILD-TYPE"   "AMP PEAK 18(17Q12) MUTATED" 
                  TCGA-EA-A3HS                   TCGA-EA-A3HT 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-EK-A2PI                   TCGA-EX-A1H5 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-EX-A3L1                   TCGA-FU-A23K 
  "AMP PEAK 18(17Q12) MUTATED" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-FU-A23L                   TCGA-FU-A2QG 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-FU-A3EO                   TCGA-FU-A3HY 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-FU-A3HZ                   TCGA-FU-A3NI 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-HG-A2PA                   TCGA-HM-A3JK 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-BI-A0VR                   TCGA-BI-A0VS 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DR-A0ZL                   TCGA-DR-A0ZM 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DS-A0VK                   TCGA-DS-A0VL 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DS-A0VM                   TCGA-DS-A0VN 
  "AMP PEAK 18(17Q12) MUTATED" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DS-A3LQ                   TCGA-EA-A1QT 
  "AMP PEAK 18(17Q12) MUTATED" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-EA-A3HQ                   TCGA-EA-A3HR 
"AMP PEAK 18(17Q12) WILD-TYPE"   "AMP PEAK 18(17Q12) MUTATED" 
                  TCGA-EA-A3HS                   TCGA-EA-A3HT 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-EK-A2PI                   TCGA-EX-A1H5 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-EX-A3L1                   TCGA-FU-A23K 
  "AMP PEAK 18(17Q12) MUTATED" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-FU-A23L                   TCGA-FU-A2QG 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-FU-A3EO                   TCGA-FU-A3HY 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-FU-A3HZ                   TCGA-FU-A3NI 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-HG-A2PA                   TCGA-HM-A3JK 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-BI-A0VR                   TCGA-BI-A0VS 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DR-A0ZL                   TCGA-DR-A0ZM 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DS-A0VK                   TCGA-DS-A0VL 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DS-A0VM                   TCGA-DS-A0VN 
  "AMP PEAK 18(17Q12) MUTATED" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-DS-A3LQ                   TCGA-EA-A1QT 
  "AMP PEAK 18(17Q12) MUTATED" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-EA-A3HQ                   TCGA-EA-A3HR 
"AMP PEAK 18(17Q12) WILD-TYPE"   "AMP PEAK 18(17Q12) MUTATED" 
                  TCGA-EA-A3HS                   TCGA-EA-A3HT 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-EK-A2PI                   TCGA-EX-A1H5 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-EX-A3L1                   TCGA-FU-A23K 
  "AMP PEAK 18(17Q12) MUTATED" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-FU-A23L                   TCGA-FU-A2QG 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-FU-A3EO                   TCGA-FU-A3HY 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-FU-A3HZ                   TCGA-FU-A3NI 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-HG-A2PA                   TCGA-HM-A3JK 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
[1] "hr="   "7e+08"
D16V2, continuous
D16V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 18(17Q12) MUTATED      3    1
  AMP PEAK 18(17Q12) WILD-TYPE   19    3
     clus
vv    AMP PEAK 18(17Q12) MUTATED AMP PEAK 18(17Q12) WILD-TYPE
  NO                           1                            3
  YES                          3                           19
D16V4, continuous
D16V5, continuous
[1] "Remove cluster labels:"     "AMP PEAK 18(17Q12) MUTATED"
clus
  AMP PEAK 18(17Q12) MUTATED AMP PEAK 18(17Q12) WILD-TYPE 
                           1                            3 
                  TCGA-BI-A0VR                   TCGA-FU-A2QG 
"AMP PEAK 18(17Q12) WILD-TYPE" "AMP PEAK 18(17Q12) WILD-TYPE" 
                  TCGA-HM-A3JK 
"AMP PEAK 18(17Q12) WILD-TYPE" 
D16V6, continuous

Clustering(17) Variable = Amp Peak 19(17q25.1) mutation analysis
D17V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK 19(17Q25.1) MUTATED"   "AMP PEAK 19(17Q25.1) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 19(17Q25.1) WILD-TYPE"   "AMP PEAK 19(17Q25.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 19(17Q25.1) WILD-TYPE"   "AMP PEAK 19(17Q25.1) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK 19(17Q25.1) MUTATED"   "AMP PEAK 19(17Q25.1) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 19(17Q25.1) WILD-TYPE"   "AMP PEAK 19(17Q25.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 19(17Q25.1) WILD-TYPE"   "AMP PEAK 19(17Q25.1) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
  "AMP PEAK 19(17Q25.1) MUTATED"   "AMP PEAK 19(17Q25.1) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "AMP PEAK 19(17Q25.1) MUTATED" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"AMP PEAK 19(17Q25.1) WILD-TYPE"   "AMP PEAK 19(17Q25.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"AMP PEAK 19(17Q25.1) WILD-TYPE"   "AMP PEAK 19(17Q25.1) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
[1] "hr="     "2.6e+09"
D17V2, continuous
D17V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 19(17Q25.1) MUTATED      7    1
  AMP PEAK 19(17Q25.1) WILD-TYPE   15    3
     clus
vv    AMP PEAK 19(17Q25.1) MUTATED AMP PEAK 19(17Q25.1) WILD-TYPE
  NO                             1                              3
  YES                            7                             15
D17V4, continuous
[1] "Remove cluster labels:"       "AMP PEAK 19(17Q25.1) MUTATED"
clus
  AMP PEAK 19(17Q25.1) MUTATED AMP PEAK 19(17Q25.1) WILD-TYPE 
                             1                              5 
                    TCGA-BI-A0VR                     TCGA-DR-A0ZM 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-EX-A1H5                     TCGA-FU-A2QG 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-FU-A3EO 
"AMP PEAK 19(17Q25.1) WILD-TYPE" 
D17V5, continuous
[1] "Remove cluster labels:"       "AMP PEAK 19(17Q25.1) MUTATED"
clus
  AMP PEAK 19(17Q25.1) MUTATED AMP PEAK 19(17Q25.1) WILD-TYPE 
                             1                              3 
                    TCGA-BI-A0VR                     TCGA-FU-A2QG 
"AMP PEAK 19(17Q25.1) WILD-TYPE" "AMP PEAK 19(17Q25.1) WILD-TYPE" 
                    TCGA-HM-A3JK 
"AMP PEAK 19(17Q25.1) WILD-TYPE" 
D17V6, continuous

Clustering(18) Variable = Amp Peak 20(19q13.31) mutation analysis
D18V1, survival
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
  "AMP PEAK 20(19Q13.31) MUTATED" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "AMP PEAK 20(19Q13.31) MUTATED" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
  "AMP PEAK 20(19Q13.31) MUTATED" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "AMP PEAK 20(19Q13.31) MUTATED" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
  "AMP PEAK 20(19Q13.31) MUTATED" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "AMP PEAK 20(19Q13.31) MUTATED" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"AMP PEAK 20(19Q13.31) WILD-TYPE" "AMP PEAK 20(19Q13.31) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
"AMP PEAK 20(19Q13.31) WILD-TYPE"   "AMP PEAK 20(19Q13.31) MUTATED" 
[1] "hr=" NA   
D18V2, continuous
D18V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 20(19Q13.31) MUTATED      4    2
  AMP PEAK 20(19Q13.31) WILD-TYPE   18    2
     clus
vv    AMP PEAK 20(19Q13.31) MUTATED AMP PEAK 20(19Q13.31) WILD-TYPE
  NO                              2                               2
  YES                             4                              18
D18V4, continuous
D18V5, continuous
[1] "Remove cluster labels:"          "AMP PEAK 20(19Q13.31) MUTATED"  
[3] "AMP PEAK 20(19Q13.31) WILD-TYPE"
clus
  AMP PEAK 20(19Q13.31) MUTATED AMP PEAK 20(19Q13.31) WILD-TYPE 
                              2                               2 
named character(0)
D18V6, continuous

Clustering(19) Variable = Amp Peak 21(20q11.21) mutation analysis
D19V1, survival
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"AMP PEAK 21(20Q11.21) WILD-TYPE" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"AMP PEAK 21(20Q11.21) WILD-TYPE" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"AMP PEAK 21(20Q11.21) WILD-TYPE"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"AMP PEAK 21(20Q11.21) WILD-TYPE"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"AMP PEAK 21(20Q11.21) WILD-TYPE" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"AMP PEAK 21(20Q11.21) WILD-TYPE" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"AMP PEAK 21(20Q11.21) WILD-TYPE"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"AMP PEAK 21(20Q11.21) WILD-TYPE"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"AMP PEAK 21(20Q11.21) WILD-TYPE" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"AMP PEAK 21(20Q11.21) WILD-TYPE" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"AMP PEAK 21(20Q11.21) WILD-TYPE"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"AMP PEAK 21(20Q11.21) WILD-TYPE"   "AMP PEAK 21(20Q11.21) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
  "AMP PEAK 21(20Q11.21) MUTATED"   "AMP PEAK 21(20Q11.21) MUTATED" 
[1] "hr="     "2.6e+09"
D19V2, continuous
D19V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 21(20Q11.21) MUTATED     14    2
  AMP PEAK 21(20Q11.21) WILD-TYPE    8    2
     clus
vv    AMP PEAK 21(20Q11.21) MUTATED AMP PEAK 21(20Q11.21) WILD-TYPE
  NO                              2                               2
  YES                            14                               8
D19V4, continuous
D19V5, continuous
[1] "Remove cluster labels:"          "AMP PEAK 21(20Q11.21) WILD-TYPE"
clus
  AMP PEAK 21(20Q11.21) MUTATED AMP PEAK 21(20Q11.21) WILD-TYPE 
                              3                               1 
                   TCGA-BI-A0VR                    TCGA-DS-A3LQ 
"AMP PEAK 21(20Q11.21) MUTATED" "AMP PEAK 21(20Q11.21) MUTATED" 
                   TCGA-HM-A3JK 
"AMP PEAK 21(20Q11.21) MUTATED" 
D19V6, continuous

Clustering(20) Variable = Amp Peak 22(Xq28) mutation analysis
D20V1, survival
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"AMP PEAK 22(XQ28) WILD-TYPE"   "AMP PEAK 22(XQ28) MUTATED" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK 22(XQ28) MUTATED" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
  "AMP PEAK 22(XQ28) MUTATED" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "AMP PEAK 22(XQ28) MUTATED" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK 22(XQ28) WILD-TYPE"   "AMP PEAK 22(XQ28) MUTATED" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"AMP PEAK 22(XQ28) WILD-TYPE"   "AMP PEAK 22(XQ28) MUTATED" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK 22(XQ28) MUTATED" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
  "AMP PEAK 22(XQ28) MUTATED" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "AMP PEAK 22(XQ28) MUTATED" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK 22(XQ28) WILD-TYPE"   "AMP PEAK 22(XQ28) MUTATED" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"AMP PEAK 22(XQ28) WILD-TYPE"   "AMP PEAK 22(XQ28) MUTATED" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
  "AMP PEAK 22(XQ28) MUTATED" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
  "AMP PEAK 22(XQ28) MUTATED" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "AMP PEAK 22(XQ28) MUTATED" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"AMP PEAK 22(XQ28) WILD-TYPE"   "AMP PEAK 22(XQ28) MUTATED" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
[1] "hr=" "1"  
D20V2, continuous
D20V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 22(XQ28) MUTATED      4    1
  AMP PEAK 22(XQ28) WILD-TYPE   18    3
     clus
vv    AMP PEAK 22(XQ28) MUTATED AMP PEAK 22(XQ28) WILD-TYPE
  NO                          1                           3
  YES                         4                          18
D20V4, continuous
D20V5, continuous
[1] "Remove cluster labels:"    "AMP PEAK 22(XQ28) MUTATED"
clus
  AMP PEAK 22(XQ28) MUTATED AMP PEAK 22(XQ28) WILD-TYPE 
                          1                           3 
                 TCGA-BI-A0VR                  TCGA-FU-A2QG 
"AMP PEAK 22(XQ28) WILD-TYPE" "AMP PEAK 22(XQ28) WILD-TYPE" 
                 TCGA-HM-A3JK 
"AMP PEAK 22(XQ28) WILD-TYPE" 
D20V6, continuous

Clustering(21) Variable = Del Peak  1(1p36.22) mutation analysis
D21V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "DEL PEAK  1(1P36.22) MUTATED" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK  1(1P36.22) WILD-TYPE"   "DEL PEAK  1(1P36.22) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK  1(1P36.22) MUTATED" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
  "DEL PEAK  1(1P36.22) MUTATED" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "DEL PEAK  1(1P36.22) MUTATED" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK  1(1P36.22) WILD-TYPE"   "DEL PEAK  1(1P36.22) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK  1(1P36.22) MUTATED" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
  "DEL PEAK  1(1P36.22) MUTATED" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "DEL PEAK  1(1P36.22) MUTATED" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK  1(1P36.22) WILD-TYPE"   "DEL PEAK  1(1P36.22) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK  1(1P36.22) MUTATED" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
  "DEL PEAK  1(1P36.22) MUTATED" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
[1] "hr="     "1.1e+09"
D21V2, continuous
D21V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.22) MUTATED      4    0
  DEL PEAK  1(1P36.22) WILD-TYPE   18    4
     clus
vv    DEL PEAK  1(1P36.22) MUTATED DEL PEAK  1(1P36.22) WILD-TYPE
  NO                             0                              4
  YES                            4                             18
D21V4, continuous
[1] "Remove cluster labels:"       "DEL PEAK  1(1P36.22) MUTATED"
clus
  DEL PEAK  1(1P36.22) MUTATED DEL PEAK  1(1P36.22) WILD-TYPE 
                             1                              5 
                    TCGA-BI-A0VR                     TCGA-DR-A0ZM 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-EX-A1H5                     TCGA-FU-A2QG 
"DEL PEAK  1(1P36.22) WILD-TYPE" "DEL PEAK  1(1P36.22) WILD-TYPE" 
                    TCGA-FU-A3HY 
"DEL PEAK  1(1P36.22) WILD-TYPE" 
D21V5, continuous
D21V6, continuous

Clustering(22) Variable = Del Peak  2(2q22.1) mutation analysis
D22V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK  2(2Q22.1) WILD-TYPE"   "DEL PEAK  2(2Q22.1) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "DEL PEAK  2(2Q22.1) MUTATED" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  2(2Q22.1) WILD-TYPE"   "DEL PEAK  2(2Q22.1) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK  2(2Q22.1) WILD-TYPE"   "DEL PEAK  2(2Q22.1) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "DEL PEAK  2(2Q22.1) MUTATED" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  2(2Q22.1) WILD-TYPE"   "DEL PEAK  2(2Q22.1) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK  2(2Q22.1) WILD-TYPE"   "DEL PEAK  2(2Q22.1) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "DEL PEAK  2(2Q22.1) MUTATED" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  2(2Q22.1) WILD-TYPE"   "DEL PEAK  2(2Q22.1) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
[1] "hr="   "7e+08"
D22V2, continuous
D22V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(2Q22.1) MUTATED      1    2
  DEL PEAK  2(2Q22.1) WILD-TYPE   21    2
     clus
vv    DEL PEAK  2(2Q22.1) MUTATED DEL PEAK  2(2Q22.1) WILD-TYPE
  NO                            2                             2
  YES                           1                            21
D22V4, continuous
D22V5, continuous
[1] "Remove cluster labels:"      "DEL PEAK  2(2Q22.1) MUTATED"
clus
  DEL PEAK  2(2Q22.1) MUTATED DEL PEAK  2(2Q22.1) WILD-TYPE 
                            1                             3 
                   TCGA-BI-A0VR                    TCGA-FU-A2QG 
"DEL PEAK  2(2Q22.1) WILD-TYPE" "DEL PEAK  2(2Q22.1) WILD-TYPE" 
                   TCGA-HM-A3JK 
"DEL PEAK  2(2Q22.1) WILD-TYPE" 
D22V6, continuous

Clustering(23) Variable = Del Peak  3(2q37.1) mutation analysis
D23V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  3(2Q37.1) MUTATED" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "DEL PEAK  3(2Q37.1) MUTATED"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "DEL PEAK  3(2Q37.1) MUTATED" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  3(2Q37.1) MUTATED" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "DEL PEAK  3(2Q37.1) MUTATED"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "DEL PEAK  3(2Q37.1) MUTATED" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  3(2Q37.1) MUTATED" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "DEL PEAK  3(2Q37.1) MUTATED"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "DEL PEAK  3(2Q37.1) MUTATED" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  3(2Q37.1) WILD-TYPE"   "DEL PEAK  3(2Q37.1) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
[1] "hr="     "2.8e+10"
D23V2, continuous
D23V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q37.1) MUTATED     10    1
  DEL PEAK  3(2Q37.1) WILD-TYPE   12    3
     clus
vv    DEL PEAK  3(2Q37.1) MUTATED DEL PEAK  3(2Q37.1) WILD-TYPE
  NO                            1                             3
  YES                          10                            12
D23V4, continuous
[1] "Remove cluster labels:"      "DEL PEAK  3(2Q37.1) MUTATED"
clus
  DEL PEAK  3(2Q37.1) MUTATED DEL PEAK  3(2Q37.1) WILD-TYPE 
                            2                             4 
                   TCGA-BI-A0VR                    TCGA-DR-A0ZM 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-EX-A1H5                    TCGA-FU-A3EO 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
D23V5, continuous
[1] "Remove cluster labels:"      "DEL PEAK  3(2Q37.1) MUTATED"
clus
  DEL PEAK  3(2Q37.1) MUTATED DEL PEAK  3(2Q37.1) WILD-TYPE 
                            1                             3 
                   TCGA-BI-A0VR                    TCGA-DS-A3LQ 
"DEL PEAK  3(2Q37.1) WILD-TYPE" "DEL PEAK  3(2Q37.1) WILD-TYPE" 
                   TCGA-HM-A3JK 
"DEL PEAK  3(2Q37.1) WILD-TYPE" 
D23V6, continuous

Clustering(24) Variable = Del Peak  4(3p11.2) mutation analysis
D24V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "DEL PEAK  4(3P11.2) MUTATED"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  4(3P11.2) WILD-TYPE"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  4(3P11.2) WILD-TYPE" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "DEL PEAK  4(3P11.2) MUTATED"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  4(3P11.2) WILD-TYPE" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  4(3P11.2) WILD-TYPE"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  4(3P11.2) WILD-TYPE"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "DEL PEAK  4(3P11.2) MUTATED"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  4(3P11.2) WILD-TYPE"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  4(3P11.2) WILD-TYPE" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "DEL PEAK  4(3P11.2) MUTATED"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  4(3P11.2) WILD-TYPE" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  4(3P11.2) WILD-TYPE"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  4(3P11.2) WILD-TYPE"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "DEL PEAK  4(3P11.2) MUTATED"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  4(3P11.2) WILD-TYPE"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  4(3P11.2) WILD-TYPE" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "DEL PEAK  4(3P11.2) MUTATED"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  4(3P11.2) WILD-TYPE" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  4(3P11.2) WILD-TYPE"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  4(3P11.2) WILD-TYPE"   "DEL PEAK  4(3P11.2) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "DEL PEAK  4(3P11.2) MUTATED" "DEL PEAK  4(3P11.2) WILD-TYPE" 
[1] "hr=" "1"  
D24V2, continuous
D24V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(3P11.2) MUTATED     11    2
  DEL PEAK  4(3P11.2) WILD-TYPE   11    2
     clus
vv    DEL PEAK  4(3P11.2) MUTATED DEL PEAK  4(3P11.2) WILD-TYPE
  NO                            2                             2
  YES                          11                            11
D24V4, continuous
D24V5, continuous
[1] "Remove cluster labels:"      "DEL PEAK  4(3P11.2) MUTATED"
clus
  DEL PEAK  4(3P11.2) MUTATED DEL PEAK  4(3P11.2) WILD-TYPE 
                            1                             3 
                   TCGA-DS-A3LQ                    TCGA-FU-A2QG 
"DEL PEAK  4(3P11.2) WILD-TYPE" "DEL PEAK  4(3P11.2) WILD-TYPE" 
                   TCGA-HM-A3JK 
"DEL PEAK  4(3P11.2) WILD-TYPE" 
D24V6, continuous

Clustering(25) Variable = Del Peak  5(4q22.1) mutation analysis
D25V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
[1] "hr="   "7e+08"
D25V2, continuous
D25V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(4Q22.1) MUTATED      5    1
  DEL PEAK  5(4Q22.1) WILD-TYPE   17    3
     clus
vv    DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE
  NO                            1                             3
  YES                           5                            17
D25V4, continuous
[1] "Remove cluster labels:"      "DEL PEAK  5(4Q22.1) MUTATED"
clus
  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                            2                             4 
                   TCGA-DR-A0ZM                    TCGA-FU-A2QG 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
D25V5, continuous
[1] "Remove cluster labels:"      "DEL PEAK  5(4Q22.1) MUTATED"
clus
  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                            1                             3 
                   TCGA-DS-A3LQ                    TCGA-FU-A2QG 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-HM-A3JK 
"DEL PEAK  5(4Q22.1) WILD-TYPE" 
D25V6, continuous

Clustering(26) Variable = Del Peak  6(4q35.2) mutation analysis
D26V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  6(4Q35.2) MUTATED" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "DEL PEAK  6(4Q35.2) MUTATED" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  6(4Q35.2) MUTATED" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "DEL PEAK  6(4Q35.2) MUTATED" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
  "DEL PEAK  6(4Q35.2) MUTATED" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
  "DEL PEAK  6(4Q35.2) MUTATED" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  6(4Q35.2) WILD-TYPE"   "DEL PEAK  6(4Q35.2) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
[1] "hr="   "7e+08"
D26V2, continuous
D26V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q35.2) MUTATED      7    1
  DEL PEAK  6(4Q35.2) WILD-TYPE   15    3
     clus
vv    DEL PEAK  6(4Q35.2) MUTATED DEL PEAK  6(4Q35.2) WILD-TYPE
  NO                            1                             3
  YES                           7                            15
D26V4, continuous
[1] "Remove cluster labels:"      "DEL PEAK  6(4Q35.2) MUTATED"
clus
  DEL PEAK  6(4Q35.2) MUTATED DEL PEAK  6(4Q35.2) WILD-TYPE 
                            2                             4 
                   TCGA-BI-A0VR                    TCGA-DR-A0ZM 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
D26V5, continuous
[1] "Remove cluster labels:"      "DEL PEAK  6(4Q35.2) MUTATED"
clus
  DEL PEAK  6(4Q35.2) MUTATED DEL PEAK  6(4Q35.2) WILD-TYPE 
                            1                             3 
                   TCGA-BI-A0VR                    TCGA-DS-A3LQ 
"DEL PEAK  6(4Q35.2) WILD-TYPE" "DEL PEAK  6(4Q35.2) WILD-TYPE" 
                   TCGA-HM-A3JK 
"DEL PEAK  6(4Q35.2) WILD-TYPE" 
D26V6, continuous

Clustering(27) Variable = Del Peak  7(5q15) mutation analysis
D27V1, survival
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"DEL PEAK  7(5Q15) WILD-TYPE" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
  "DEL PEAK  7(5Q15) MUTATED" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
  "DEL PEAK  7(5Q15) MUTATED"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
  "DEL PEAK  7(5Q15) MUTATED" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"DEL PEAK  7(5Q15) WILD-TYPE" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"DEL PEAK  7(5Q15) WILD-TYPE" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "DEL PEAK  7(5Q15) MUTATED"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
  "DEL PEAK  7(5Q15) MUTATED" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"DEL PEAK  7(5Q15) WILD-TYPE" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
  "DEL PEAK  7(5Q15) MUTATED" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
  "DEL PEAK  7(5Q15) MUTATED"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
  "DEL PEAK  7(5Q15) MUTATED" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"DEL PEAK  7(5Q15) WILD-TYPE" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"DEL PEAK  7(5Q15) WILD-TYPE" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "DEL PEAK  7(5Q15) MUTATED"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
  "DEL PEAK  7(5Q15) MUTATED" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"DEL PEAK  7(5Q15) WILD-TYPE" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
  "DEL PEAK  7(5Q15) MUTATED" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
  "DEL PEAK  7(5Q15) MUTATED"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
  "DEL PEAK  7(5Q15) MUTATED" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"DEL PEAK  7(5Q15) WILD-TYPE" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"DEL PEAK  7(5Q15) WILD-TYPE" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "DEL PEAK  7(5Q15) MUTATED"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"DEL PEAK  7(5Q15) WILD-TYPE"   "DEL PEAK  7(5Q15) MUTATED" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
  "DEL PEAK  7(5Q15) MUTATED" "DEL PEAK  7(5Q15) WILD-TYPE" 
[1] "hr="     "1.1e+09"
D27V2, continuous
D27V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  7(5Q15) MUTATED     11    1
  DEL PEAK  7(5Q15) WILD-TYPE   11    3
     clus
vv    DEL PEAK  7(5Q15) MUTATED DEL PEAK  7(5Q15) WILD-TYPE
  NO                          1                           3
  YES                        11                          11
D27V4, continuous
D27V5, continuous
[1] "Remove cluster labels:"    "DEL PEAK  7(5Q15) MUTATED"
clus
  DEL PEAK  7(5Q15) MUTATED DEL PEAK  7(5Q15) WILD-TYPE 
                          1                           3 
                 TCGA-BI-A0VR                  TCGA-DS-A3LQ 
"DEL PEAK  7(5Q15) WILD-TYPE" "DEL PEAK  7(5Q15) WILD-TYPE" 
                 TCGA-HM-A3JK 
"DEL PEAK  7(5Q15) WILD-TYPE" 
D27V6, continuous

Clustering(28) Variable = Del Peak  8(6p24.3) mutation analysis
D28V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
[1] "hr="     "1.1e+09"
D28V2, continuous
D28V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(6P24.3) MUTATED      5    1
  DEL PEAK  8(6P24.3) WILD-TYPE   17    3
     clus
vv    DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE
  NO                            1                             3
  YES                           5                            17
D28V4, continuous
[1] "Remove cluster labels:"      "DEL PEAK  8(6P24.3) MUTATED"
clus
  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                            1                             5 
                   TCGA-BI-A0VR                    TCGA-DR-A0ZM 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-EX-A1H5                    TCGA-FU-A2QG 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-FU-A3EO 
"DEL PEAK  8(6P24.3) WILD-TYPE" 
D28V5, continuous
[1] "Remove cluster labels:"      "DEL PEAK  8(6P24.3) MUTATED"
clus
  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                            1                             3 
                   TCGA-BI-A0VR                    TCGA-FU-A2QG 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-HM-A3JK 
"DEL PEAK  8(6P24.3) WILD-TYPE" 
D28V6, continuous

Clustering(29) Variable = Del Peak 10(6q26) mutation analysis
D29V1, survival
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
"DEL PEAK 10(6Q26) WILD-TYPE"   "DEL PEAK 10(6Q26) MUTATED" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"DEL PEAK 10(6Q26) WILD-TYPE"   "DEL PEAK 10(6Q26) MUTATED" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"DEL PEAK 10(6Q26) WILD-TYPE"   "DEL PEAK 10(6Q26) MUTATED" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
"DEL PEAK 10(6Q26) WILD-TYPE"   "DEL PEAK 10(6Q26) MUTATED" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"DEL PEAK 10(6Q26) WILD-TYPE"   "DEL PEAK 10(6Q26) MUTATED" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"DEL PEAK 10(6Q26) WILD-TYPE"   "DEL PEAK 10(6Q26) MUTATED" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
"DEL PEAK 10(6Q26) WILD-TYPE"   "DEL PEAK 10(6Q26) MUTATED" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
  "DEL PEAK 10(6Q26) MUTATED" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"DEL PEAK 10(6Q26) WILD-TYPE"   "DEL PEAK 10(6Q26) MUTATED" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"DEL PEAK 10(6Q26) WILD-TYPE"   "DEL PEAK 10(6Q26) MUTATED" 
[1] "hr="     "1.1e+09"
D29V2, continuous
D29V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 10(6Q26) MUTATED      6    1
  DEL PEAK 10(6Q26) WILD-TYPE   16    3
     clus
vv    DEL PEAK 10(6Q26) MUTATED DEL PEAK 10(6Q26) WILD-TYPE
  NO                          1                           3
  YES                         6                          16
D29V4, continuous
[1] "Remove cluster labels:"    "DEL PEAK 10(6Q26) MUTATED"
clus
  DEL PEAK 10(6Q26) MUTATED DEL PEAK 10(6Q26) WILD-TYPE 
                          2                           4 
                 TCGA-DR-A0ZM                  TCGA-EX-A1H5 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
                 TCGA-FU-A2QG                  TCGA-FU-A3EO 
"DEL PEAK 10(6Q26) WILD-TYPE" "DEL PEAK 10(6Q26) WILD-TYPE" 
D29V5, continuous
[1] "Remove cluster labels:"      "DEL PEAK 10(6Q26) MUTATED"  
[3] "DEL PEAK 10(6Q26) WILD-TYPE"
clus
  DEL PEAK 10(6Q26) MUTATED DEL PEAK 10(6Q26) WILD-TYPE 
                          2                           2 
named character(0)
D29V6, continuous

Clustering(30) Variable = Del Peak 11(7q34) mutation analysis
D30V1, survival
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"DEL PEAK 11(7Q34) WILD-TYPE"   "DEL PEAK 11(7Q34) MUTATED" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"DEL PEAK 11(7Q34) WILD-TYPE"   "DEL PEAK 11(7Q34) MUTATED" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
"DEL PEAK 11(7Q34) WILD-TYPE"   "DEL PEAK 11(7Q34) MUTATED" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"DEL PEAK 11(7Q34) WILD-TYPE"   "DEL PEAK 11(7Q34) MUTATED" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"DEL PEAK 11(7Q34) WILD-TYPE"   "DEL PEAK 11(7Q34) MUTATED" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
"DEL PEAK 11(7Q34) WILD-TYPE"   "DEL PEAK 11(7Q34) MUTATED" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-BI-A0VR                  TCGA-BI-A0VS 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DR-A0ZL                  TCGA-DR-A0ZM 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DS-A0VK                  TCGA-DS-A0VL 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DS-A0VM                  TCGA-DS-A0VN 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DS-A3LQ                  TCGA-EA-A1QT 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EA-A3HQ                  TCGA-EA-A3HR 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EA-A3HS                  TCGA-EA-A3HT 
"DEL PEAK 11(7Q34) WILD-TYPE"   "DEL PEAK 11(7Q34) MUTATED" 
                 TCGA-EK-A2PI                  TCGA-EX-A1H5 
"DEL PEAK 11(7Q34) WILD-TYPE"   "DEL PEAK 11(7Q34) MUTATED" 
                 TCGA-EX-A3L1                  TCGA-FU-A23K 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FU-A23L                  TCGA-FU-A2QG 
"DEL PEAK 11(7Q34) WILD-TYPE"   "DEL PEAK 11(7Q34) MUTATED" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FU-A3HZ                  TCGA-FU-A3NI 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-HG-A2PA                  TCGA-HM-A3JK 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
[1] "hr=" "1"  
D30V2, continuous
D30V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 11(7Q34) MUTATED      2    1
  DEL PEAK 11(7Q34) WILD-TYPE   20    3
     clus
vv    DEL PEAK 11(7Q34) MUTATED DEL PEAK 11(7Q34) WILD-TYPE
  NO                          1                           3
  YES                         2                          20
D30V4, continuous
[1] "Remove cluster labels:"    "DEL PEAK 11(7Q34) MUTATED"
clus
  DEL PEAK 11(7Q34) MUTATED DEL PEAK 11(7Q34) WILD-TYPE 
                          2                           4 
                 TCGA-BI-A0VR                  TCGA-DR-A0ZM 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FU-A3EO                  TCGA-FU-A3HY 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
D30V5, continuous
[1] "Remove cluster labels:"    "DEL PEAK 11(7Q34) MUTATED"
clus
  DEL PEAK 11(7Q34) MUTATED DEL PEAK 11(7Q34) WILD-TYPE 
                          1                           3 
                 TCGA-BI-A0VR                  TCGA-DS-A3LQ 
"DEL PEAK 11(7Q34) WILD-TYPE" "DEL PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-HM-A3JK 
"DEL PEAK 11(7Q34) WILD-TYPE" 
D30V6, continuous

Clustering(31) Variable = Del Peak 12(10q23.31) mutation analysis
D31V1, survival
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
"DEL PEAK 12(10Q23.31) WILD-TYPE"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
  "DEL PEAK 12(10Q23.31) MUTATED" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "DEL PEAK 12(10Q23.31) MUTATED"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
"DEL PEAK 12(10Q23.31) WILD-TYPE"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
"DEL PEAK 12(10Q23.31) WILD-TYPE"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
"DEL PEAK 12(10Q23.31) WILD-TYPE"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
  "DEL PEAK 12(10Q23.31) MUTATED" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "DEL PEAK 12(10Q23.31) MUTATED"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
"DEL PEAK 12(10Q23.31) WILD-TYPE"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
"DEL PEAK 12(10Q23.31) WILD-TYPE"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
"DEL PEAK 12(10Q23.31) WILD-TYPE"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
  "DEL PEAK 12(10Q23.31) MUTATED" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "DEL PEAK 12(10Q23.31) MUTATED"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
"DEL PEAK 12(10Q23.31) WILD-TYPE"   "DEL PEAK 12(10Q23.31) MUTATED" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
"DEL PEAK 12(10Q23.31) WILD-TYPE"   "DEL PEAK 12(10Q23.31) MUTATED" 
[1] "hr="     "2.6e+09"
D31V2, continuous
D31V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 12(10Q23.31) MUTATED      4    2
  DEL PEAK 12(10Q23.31) WILD-TYPE   18    2
     clus
vv    DEL PEAK 12(10Q23.31) MUTATED DEL PEAK 12(10Q23.31) WILD-TYPE
  NO                              2                               2
  YES                             4                              18
D31V4, continuous
[1] "Remove cluster labels:"        "DEL PEAK 12(10Q23.31) MUTATED"
clus
  DEL PEAK 12(10Q23.31) MUTATED DEL PEAK 12(10Q23.31) WILD-TYPE 
                              2                               4 
                     TCGA-BI-A0VR                      TCGA-DR-A0ZM 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"DEL PEAK 12(10Q23.31) WILD-TYPE" "DEL PEAK 12(10Q23.31) WILD-TYPE" 
D31V5, continuous
[1] "Remove cluster labels:"          "DEL PEAK 12(10Q23.31) MUTATED"  
[3] "DEL PEAK 12(10Q23.31) WILD-TYPE"
clus
  DEL PEAK 12(10Q23.31) MUTATED DEL PEAK 12(10Q23.31) WILD-TYPE 
                              2                               2 
named character(0)
D31V6, continuous

Clustering(32) Variable = Del Peak 13(11q25) mutation analysis
D32V1, survival
                  TCGA-BI-A0VR                   TCGA-BI-A0VS 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-DR-A0ZL                   TCGA-DR-A0ZM 
  "DEL PEAK 13(11Q25) MUTATED" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-DS-A0VK                   TCGA-DS-A0VL 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-DS-A0VM                   TCGA-DS-A0VN 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-DS-A3LQ                   TCGA-EA-A1QT 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-EA-A3HQ                   TCGA-EA-A3HR 
"DEL PEAK 13(11Q25) WILD-TYPE"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-EA-A3HS                   TCGA-EA-A3HT 
"DEL PEAK 13(11Q25) WILD-TYPE" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-EK-A2PI                   TCGA-EX-A1H5 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-EX-A3L1                   TCGA-FU-A23K 
  "DEL PEAK 13(11Q25) MUTATED" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-FU-A23L                   TCGA-FU-A2QG 
  "DEL PEAK 13(11Q25) MUTATED" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-FU-A3EO                   TCGA-FU-A3HY 
"DEL PEAK 13(11Q25) WILD-TYPE"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-FU-A3HZ                   TCGA-FU-A3NI 
"DEL PEAK 13(11Q25) WILD-TYPE"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-HG-A2PA                   TCGA-HM-A3JK 
"DEL PEAK 13(11Q25) WILD-TYPE" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-BI-A0VR                   TCGA-BI-A0VS 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-DR-A0ZL                   TCGA-DR-A0ZM 
  "DEL PEAK 13(11Q25) MUTATED" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-DS-A0VK                   TCGA-DS-A0VL 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-DS-A0VM                   TCGA-DS-A0VN 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-DS-A3LQ                   TCGA-EA-A1QT 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-EA-A3HQ                   TCGA-EA-A3HR 
"DEL PEAK 13(11Q25) WILD-TYPE"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-EA-A3HS                   TCGA-EA-A3HT 
"DEL PEAK 13(11Q25) WILD-TYPE" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-EK-A2PI                   TCGA-EX-A1H5 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-EX-A3L1                   TCGA-FU-A23K 
  "DEL PEAK 13(11Q25) MUTATED" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-FU-A23L                   TCGA-FU-A2QG 
  "DEL PEAK 13(11Q25) MUTATED" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-FU-A3EO                   TCGA-FU-A3HY 
"DEL PEAK 13(11Q25) WILD-TYPE"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-FU-A3HZ                   TCGA-FU-A3NI 
"DEL PEAK 13(11Q25) WILD-TYPE"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-HG-A2PA                   TCGA-HM-A3JK 
"DEL PEAK 13(11Q25) WILD-TYPE" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-BI-A0VR                   TCGA-BI-A0VS 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-DR-A0ZL                   TCGA-DR-A0ZM 
  "DEL PEAK 13(11Q25) MUTATED" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-DS-A0VK                   TCGA-DS-A0VL 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-DS-A0VM                   TCGA-DS-A0VN 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-DS-A3LQ                   TCGA-EA-A1QT 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-EA-A3HQ                   TCGA-EA-A3HR 
"DEL PEAK 13(11Q25) WILD-TYPE"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-EA-A3HS                   TCGA-EA-A3HT 
"DEL PEAK 13(11Q25) WILD-TYPE" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-EK-A2PI                   TCGA-EX-A1H5 
  "DEL PEAK 13(11Q25) MUTATED"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-EX-A3L1                   TCGA-FU-A23K 
  "DEL PEAK 13(11Q25) MUTATED" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-FU-A23L                   TCGA-FU-A2QG 
  "DEL PEAK 13(11Q25) MUTATED" "DEL PEAK 13(11Q25) WILD-TYPE" 
                  TCGA-FU-A3EO                   TCGA-FU-A3HY 
"DEL PEAK 13(11Q25) WILD-TYPE"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-FU-A3HZ                   TCGA-FU-A3NI 
"DEL PEAK 13(11Q25) WILD-TYPE"   "DEL PEAK 13(11Q25) MUTATED" 
                  TCGA-HG-A2PA                   TCGA-HM-A3JK 
"DEL PEAK 13(11Q25) WILD-TYPE" "DEL PEAK 13(11Q25) WILD-TYPE" 
[1] "hr=" NA   
D32V2, continuous
D32V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 13(11Q25) MUTATED     13    3
  DEL PEAK 13(11Q25) WILD-TYPE    9    1
     clus
vv    DEL PEAK 13(11Q25) MUTATED DEL PEAK 13(11Q25) WILD-TYPE
  NO                           3                            1
  YES                         13                            9
D32V4, continuous
D32V5, continuous
[1] "Remove cluster labels:"       "DEL PEAK 13(11Q25) MUTATED"  
[3] "DEL PEAK 13(11Q25) WILD-TYPE"
clus
  DEL PEAK 13(11Q25) MUTATED DEL PEAK 13(11Q25) WILD-TYPE 
                           2                            2 
named character(0)
D32V6, continuous

Clustering(33) Variable = Del Peak 14(13q12.12) mutation analysis
D33V1, survival
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
  "DEL PEAK 14(13Q12.12) MUTATED"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
  "DEL PEAK 14(13Q12.12) MUTATED" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
  "DEL PEAK 14(13Q12.12) MUTATED"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
"DEL PEAK 14(13Q12.12) WILD-TYPE"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "DEL PEAK 14(13Q12.12) MUTATED"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "DEL PEAK 14(13Q12.12) MUTATED" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"DEL PEAK 14(13Q12.12) WILD-TYPE"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
  "DEL PEAK 14(13Q12.12) MUTATED" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
  "DEL PEAK 14(13Q12.12) MUTATED"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
  "DEL PEAK 14(13Q12.12) MUTATED" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
  "DEL PEAK 14(13Q12.12) MUTATED"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
"DEL PEAK 14(13Q12.12) WILD-TYPE"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "DEL PEAK 14(13Q12.12) MUTATED"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "DEL PEAK 14(13Q12.12) MUTATED" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"DEL PEAK 14(13Q12.12) WILD-TYPE"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
  "DEL PEAK 14(13Q12.12) MUTATED" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-BI-A0VR                      TCGA-BI-A0VS 
  "DEL PEAK 14(13Q12.12) MUTATED"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-DR-A0ZL                      TCGA-DR-A0ZM 
  "DEL PEAK 14(13Q12.12) MUTATED" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-DS-A0VK                      TCGA-DS-A0VL 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-DS-A0VM                      TCGA-DS-A0VN 
  "DEL PEAK 14(13Q12.12) MUTATED"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-DS-A3LQ                      TCGA-EA-A1QT 
"DEL PEAK 14(13Q12.12) WILD-TYPE"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-EA-A3HQ                      TCGA-EA-A3HR 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-EA-A3HS                      TCGA-EA-A3HT 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-EK-A2PI                      TCGA-EX-A1H5 
  "DEL PEAK 14(13Q12.12) MUTATED"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-EX-A3L1                      TCGA-FU-A23K 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-FU-A23L                      TCGA-FU-A2QG 
  "DEL PEAK 14(13Q12.12) MUTATED" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-FU-A3HZ                      TCGA-FU-A3NI 
"DEL PEAK 14(13Q12.12) WILD-TYPE"   "DEL PEAK 14(13Q12.12) MUTATED" 
                     TCGA-HG-A2PA                      TCGA-HM-A3JK 
  "DEL PEAK 14(13Q12.12) MUTATED" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
[1] "hr="     "2.8e+10"
D33V2, continuous
D33V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 14(13Q12.12) MUTATED      9    2
  DEL PEAK 14(13Q12.12) WILD-TYPE   13    2
     clus
vv    DEL PEAK 14(13Q12.12) MUTATED DEL PEAK 14(13Q12.12) WILD-TYPE
  NO                              2                               2
  YES                             9                              13
D33V4, continuous
[1] "Remove cluster labels:"        "DEL PEAK 14(13Q12.12) MUTATED"
clus
  DEL PEAK 14(13Q12.12) MUTATED DEL PEAK 14(13Q12.12) WILD-TYPE 
                              2                               4 
                     TCGA-DR-A0ZM                      TCGA-FU-A2QG 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-FU-A3EO                      TCGA-FU-A3HY 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
D33V5, continuous
[1] "Remove cluster labels:"        "DEL PEAK 14(13Q12.12) MUTATED"
clus
  DEL PEAK 14(13Q12.12) MUTATED DEL PEAK 14(13Q12.12) WILD-TYPE 
                              1                               3 
                     TCGA-DS-A3LQ                      TCGA-FU-A2QG 
"DEL PEAK 14(13Q12.12) WILD-TYPE" "DEL PEAK 14(13Q12.12) WILD-TYPE" 
                     TCGA-HM-A3JK 
"DEL PEAK 14(13Q12.12) WILD-TYPE" 
D33V6, continuous

Clustering(34) Variable = Del Peak 15(13q13.3) mutation analysis
D34V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "DEL PEAK 15(13Q13.3) MUTATED"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "DEL PEAK 15(13Q13.3) MUTATED" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "DEL PEAK 15(13Q13.3) MUTATED"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 15(13Q13.3) WILD-TYPE"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 15(13Q13.3) MUTATED"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "DEL PEAK 15(13Q13.3) MUTATED" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 15(13Q13.3) WILD-TYPE"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
  "DEL PEAK 15(13Q13.3) MUTATED" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "DEL PEAK 15(13Q13.3) MUTATED"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "DEL PEAK 15(13Q13.3) MUTATED" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "DEL PEAK 15(13Q13.3) MUTATED"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 15(13Q13.3) WILD-TYPE"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 15(13Q13.3) MUTATED"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "DEL PEAK 15(13Q13.3) MUTATED" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 15(13Q13.3) WILD-TYPE"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
  "DEL PEAK 15(13Q13.3) MUTATED" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "DEL PEAK 15(13Q13.3) MUTATED"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "DEL PEAK 15(13Q13.3) MUTATED" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "DEL PEAK 15(13Q13.3) MUTATED"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 15(13Q13.3) WILD-TYPE"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 15(13Q13.3) MUTATED"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "DEL PEAK 15(13Q13.3) MUTATED" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 15(13Q13.3) WILD-TYPE"   "DEL PEAK 15(13Q13.3) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
  "DEL PEAK 15(13Q13.3) MUTATED" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
[1] "hr="     "2.8e+10"
D34V2, continuous
D34V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(13Q13.3) MUTATED      9    2
  DEL PEAK 15(13Q13.3) WILD-TYPE   13    2
     clus
vv    DEL PEAK 15(13Q13.3) MUTATED DEL PEAK 15(13Q13.3) WILD-TYPE
  NO                             2                              2
  YES                            9                             13
D34V4, continuous
[1] "Remove cluster labels:"       "DEL PEAK 15(13Q13.3) MUTATED"
clus
  DEL PEAK 15(13Q13.3) MUTATED DEL PEAK 15(13Q13.3) WILD-TYPE 
                             2                              4 
                    TCGA-DR-A0ZM                     TCGA-FU-A2QG 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
D34V5, continuous
[1] "Remove cluster labels:"       "DEL PEAK 15(13Q13.3) MUTATED"
clus
  DEL PEAK 15(13Q13.3) MUTATED DEL PEAK 15(13Q13.3) WILD-TYPE 
                             1                              3 
                    TCGA-DS-A3LQ                     TCGA-FU-A2QG 
"DEL PEAK 15(13Q13.3) WILD-TYPE" "DEL PEAK 15(13Q13.3) WILD-TYPE" 
                    TCGA-HM-A3JK 
"DEL PEAK 15(13Q13.3) WILD-TYPE" 
D34V6, continuous

Clustering(35) Variable = Del Peak 18(16q11.2) mutation analysis
D35V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 18(16Q11.2) WILD-TYPE"   "DEL PEAK 18(16Q11.2) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 18(16Q11.2) WILD-TYPE"   "DEL PEAK 18(16Q11.2) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 18(16Q11.2) MUTATED" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 18(16Q11.2) WILD-TYPE"   "DEL PEAK 18(16Q11.2) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 18(16Q11.2) WILD-TYPE"   "DEL PEAK 18(16Q11.2) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 18(16Q11.2) MUTATED" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 18(16Q11.2) WILD-TYPE"   "DEL PEAK 18(16Q11.2) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 18(16Q11.2) WILD-TYPE"   "DEL PEAK 18(16Q11.2) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 18(16Q11.2) MUTATED" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
[1] "hr="   "7e+08"
D35V2, continuous
D35V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(16Q11.2) MUTATED      3    0
  DEL PEAK 18(16Q11.2) WILD-TYPE   19    4
     clus
vv    DEL PEAK 18(16Q11.2) MUTATED DEL PEAK 18(16Q11.2) WILD-TYPE
  NO                             0                              4
  YES                            3                             19
D35V4, continuous
D35V5, continuous
D35V6, continuous
[1] "Remove cluster labels:"       "DEL PEAK 18(16Q11.2) MUTATED"
clus
  DEL PEAK 18(16Q11.2) MUTATED DEL PEAK 18(16Q11.2) WILD-TYPE 
                             2                             23 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A3HQ 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-EX-A1H5                     TCGA-EX-A3L1 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A23K                     TCGA-FU-A23L 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A2QG                     TCGA-FU-A3EO 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A3HY                     TCGA-FU-A3HZ 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-FU-A3NI                     TCGA-HG-A2PA 
"DEL PEAK 18(16Q11.2) WILD-TYPE" "DEL PEAK 18(16Q11.2) WILD-TYPE" 
                    TCGA-HM-A3JK 
"DEL PEAK 18(16Q11.2) WILD-TYPE" 

Clustering(36) Variable = Del Peak 19(16q23.1) mutation analysis
D36V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "DEL PEAK 19(16Q23.1) MUTATED" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 19(16Q23.1) MUTATED" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
  "DEL PEAK 19(16Q23.1) MUTATED" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "DEL PEAK 19(16Q23.1) MUTATED" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 19(16Q23.1) MUTATED" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
  "DEL PEAK 19(16Q23.1) MUTATED" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
  "DEL PEAK 19(16Q23.1) MUTATED" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 19(16Q23.1) MUTATED" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
  "DEL PEAK 19(16Q23.1) MUTATED" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
[1] "hr="   "7e+08"
D36V2, continuous
D36V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(16Q23.1) MUTATED      2    1
  DEL PEAK 19(16Q23.1) WILD-TYPE   20    3
     clus
vv    DEL PEAK 19(16Q23.1) MUTATED DEL PEAK 19(16Q23.1) WILD-TYPE
  NO                             1                              3
  YES                            2                             20
D36V4, continuous
[1] "Remove cluster labels:"       "DEL PEAK 19(16Q23.1) MUTATED"
clus
  DEL PEAK 19(16Q23.1) MUTATED DEL PEAK 19(16Q23.1) WILD-TYPE 
                             1                              5 
                    TCGA-BI-A0VR                     TCGA-DR-A0ZM 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EX-A1H5                     TCGA-FU-A2QG 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A3HY 
"DEL PEAK 19(16Q23.1) WILD-TYPE" 
D36V5, continuous
[1] "Remove cluster labels:"       "DEL PEAK 19(16Q23.1) MUTATED"
clus
  DEL PEAK 19(16Q23.1) MUTATED DEL PEAK 19(16Q23.1) WILD-TYPE 
                             1                              3 
                    TCGA-BI-A0VR                     TCGA-FU-A2QG 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-HM-A3JK 
"DEL PEAK 19(16Q23.1) WILD-TYPE" 
D36V6, continuous
[1] "Remove cluster labels:"       "DEL PEAK 19(16Q23.1) MUTATED"
clus
  DEL PEAK 19(16Q23.1) MUTATED DEL PEAK 19(16Q23.1) WILD-TYPE 
                             2                             23 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EA-A1QT                     TCGA-EA-A3HQ 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EA-A3HR                     TCGA-EA-A3HS 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EA-A3HT                     TCGA-EX-A1H5 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A3HY                     TCGA-FU-A3HZ 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-FU-A3NI                     TCGA-HG-A2PA 
"DEL PEAK 19(16Q23.1) WILD-TYPE" "DEL PEAK 19(16Q23.1) WILD-TYPE" 
                    TCGA-HM-A3JK 
"DEL PEAK 19(16Q23.1) WILD-TYPE" 

Clustering(37) Variable = Del Peak 20(17p12) mutation analysis
D37V1, survival
                  TCGA-BI-A0VR                   TCGA-BI-A0VS 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-DR-A0ZL                   TCGA-DR-A0ZM 
  "DEL PEAK 20(17P12) MUTATED" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-DS-A0VK                   TCGA-DS-A0VL 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-DS-A0VM                   TCGA-DS-A0VN 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-DS-A3LQ                   TCGA-EA-A1QT 
  "DEL PEAK 20(17P12) MUTATED"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-EA-A3HQ                   TCGA-EA-A3HR 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-EA-A3HS                   TCGA-EA-A3HT 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-EK-A2PI                   TCGA-EX-A1H5 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-EX-A3L1                   TCGA-FU-A23K 
  "DEL PEAK 20(17P12) MUTATED" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-FU-A23L                   TCGA-FU-A2QG 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-FU-A3EO                   TCGA-FU-A3HY 
  "DEL PEAK 20(17P12) MUTATED" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-FU-A3HZ                   TCGA-FU-A3NI 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-HG-A2PA                   TCGA-HM-A3JK 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-BI-A0VR                   TCGA-BI-A0VS 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-DR-A0ZL                   TCGA-DR-A0ZM 
  "DEL PEAK 20(17P12) MUTATED" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-DS-A0VK                   TCGA-DS-A0VL 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-DS-A0VM                   TCGA-DS-A0VN 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-DS-A3LQ                   TCGA-EA-A1QT 
  "DEL PEAK 20(17P12) MUTATED"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-EA-A3HQ                   TCGA-EA-A3HR 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-EA-A3HS                   TCGA-EA-A3HT 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-EK-A2PI                   TCGA-EX-A1H5 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-EX-A3L1                   TCGA-FU-A23K 
  "DEL PEAK 20(17P12) MUTATED" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-FU-A23L                   TCGA-FU-A2QG 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-FU-A3EO                   TCGA-FU-A3HY 
  "DEL PEAK 20(17P12) MUTATED" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-FU-A3HZ                   TCGA-FU-A3NI 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-HG-A2PA                   TCGA-HM-A3JK 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-BI-A0VR                   TCGA-BI-A0VS 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-DR-A0ZL                   TCGA-DR-A0ZM 
  "DEL PEAK 20(17P12) MUTATED" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-DS-A0VK                   TCGA-DS-A0VL 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-DS-A0VM                   TCGA-DS-A0VN 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-DS-A3LQ                   TCGA-EA-A1QT 
  "DEL PEAK 20(17P12) MUTATED"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-EA-A3HQ                   TCGA-EA-A3HR 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-EA-A3HS                   TCGA-EA-A3HT 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-EK-A2PI                   TCGA-EX-A1H5 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-EX-A3L1                   TCGA-FU-A23K 
  "DEL PEAK 20(17P12) MUTATED" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-FU-A23L                   TCGA-FU-A2QG 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-FU-A3EO                   TCGA-FU-A3HY 
  "DEL PEAK 20(17P12) MUTATED" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-FU-A3HZ                   TCGA-FU-A3NI 
"DEL PEAK 20(17P12) WILD-TYPE"   "DEL PEAK 20(17P12) MUTATED" 
                  TCGA-HG-A2PA                   TCGA-HM-A3JK 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
[1] "hr="     "1.1e+09"
D37V2, continuous
D37V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 20(17P12) MUTATED      6    3
  DEL PEAK 20(17P12) WILD-TYPE   16    1
     clus
vv    DEL PEAK 20(17P12) MUTATED DEL PEAK 20(17P12) WILD-TYPE
  NO                           3                            1
  YES                          6                           16
D37V4, continuous
[1] "Remove cluster labels:"     "DEL PEAK 20(17P12) MUTATED"
clus
  DEL PEAK 20(17P12) MUTATED DEL PEAK 20(17P12) WILD-TYPE 
                           2                            4 
                  TCGA-BI-A0VR                   TCGA-DR-A0ZM 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-FU-A2QG                   TCGA-FU-A3HY 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
D37V5, continuous
[1] "Remove cluster labels:"     "DEL PEAK 20(17P12) MUTATED"
clus
  DEL PEAK 20(17P12) MUTATED DEL PEAK 20(17P12) WILD-TYPE 
                           1                            3 
                  TCGA-BI-A0VR                   TCGA-FU-A2QG 
"DEL PEAK 20(17P12) WILD-TYPE" "DEL PEAK 20(17P12) WILD-TYPE" 
                  TCGA-HM-A3JK 
"DEL PEAK 20(17P12) WILD-TYPE" 
D37V6, continuous

Clustering(38) Variable = Del Peak 21(17q25.3) mutation analysis
D38V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "DEL PEAK 21(17Q25.3) MUTATED" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "DEL PEAK 21(17Q25.3) MUTATED" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "DEL PEAK 21(17Q25.3) MUTATED" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "DEL PEAK 21(17Q25.3) MUTATED" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "DEL PEAK 21(17Q25.3) MUTATED" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "DEL PEAK 21(17Q25.3) MUTATED" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 21(17Q25.3) WILD-TYPE"   "DEL PEAK 21(17Q25.3) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
[1] "hr="     "1.1e+09"
D38V2, continuous
D38V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(17Q25.3) MUTATED      5    1
  DEL PEAK 21(17Q25.3) WILD-TYPE   17    3
     clus
vv    DEL PEAK 21(17Q25.3) MUTATED DEL PEAK 21(17Q25.3) WILD-TYPE
  NO                             1                              3
  YES                            5                             17
D38V4, continuous
[1] "Remove cluster labels:"       "DEL PEAK 21(17Q25.3) MUTATED"
clus
  DEL PEAK 21(17Q25.3) MUTATED DEL PEAK 21(17Q25.3) WILD-TYPE 
                             1                              5 
                    TCGA-BI-A0VR                     TCGA-DR-A0ZM 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-EX-A1H5                     TCGA-FU-A2QG 
"DEL PEAK 21(17Q25.3) WILD-TYPE" "DEL PEAK 21(17Q25.3) WILD-TYPE" 
                    TCGA-FU-A3EO 
"DEL PEAK 21(17Q25.3) WILD-TYPE" 
D38V5, continuous
D38V6, continuous

Clustering(39) Variable = Del Peak 22(19p13.3) mutation analysis
D39V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "DEL PEAK 22(19P13.3) MUTATED"   "DEL PEAK 22(19P13.3) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 22(19P13.3) WILD-TYPE"   "DEL PEAK 22(19P13.3) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 22(19P13.3) MUTATED" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "DEL PEAK 22(19P13.3) MUTATED" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "DEL PEAK 22(19P13.3) MUTATED"   "DEL PEAK 22(19P13.3) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 22(19P13.3) WILD-TYPE"   "DEL PEAK 22(19P13.3) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 22(19P13.3) MUTATED" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "DEL PEAK 22(19P13.3) MUTATED" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
  "DEL PEAK 22(19P13.3) MUTATED"   "DEL PEAK 22(19P13.3) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 22(19P13.3) WILD-TYPE"   "DEL PEAK 22(19P13.3) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 22(19P13.3) MUTATED" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "DEL PEAK 22(19P13.3) MUTATED" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 22(19P13.3) WILD-TYPE" "DEL PEAK 22(19P13.3) WILD-TYPE" 
[1] "hr="     "2.6e+09"
D39V2, continuous
D39V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(19P13.3) MUTATED      4    1
  DEL PEAK 22(19P13.3) WILD-TYPE   18    3
     clus
vv    DEL PEAK 22(19P13.3) MUTATED DEL PEAK 22(19P13.3) WILD-TYPE
  NO                             1                              3
  YES                            4                             18
D39V4, continuous
D39V5, continuous
D39V6, continuous

Clustering(40) Variable = Del Peak 23(20p12.1) mutation analysis
D40V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "DEL PEAK 23(20P12.1) MUTATED" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 23(20P12.1) WILD-TYPE"   "DEL PEAK 23(20P12.1) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 23(20P12.1) MUTATED" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
  "DEL PEAK 23(20P12.1) MUTATED"   "DEL PEAK 23(20P12.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "DEL PEAK 23(20P12.1) MUTATED" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 23(20P12.1) WILD-TYPE"   "DEL PEAK 23(20P12.1) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 23(20P12.1) MUTATED" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
  "DEL PEAK 23(20P12.1) MUTATED"   "DEL PEAK 23(20P12.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
  "DEL PEAK 23(20P12.1) MUTATED" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 23(20P12.1) WILD-TYPE"   "DEL PEAK 23(20P12.1) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
  "DEL PEAK 23(20P12.1) MUTATED" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
  "DEL PEAK 23(20P12.1) MUTATED"   "DEL PEAK 23(20P12.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
[1] "hr="   "7e+08"
D40V2, continuous
D40V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(20P12.1) MUTATED      5    0
  DEL PEAK 23(20P12.1) WILD-TYPE   17    4
     clus
vv    DEL PEAK 23(20P12.1) MUTATED DEL PEAK 23(20P12.1) WILD-TYPE
  NO                             0                              4
  YES                            5                             17
D40V4, continuous
D40V5, continuous
[1] "Remove cluster labels:"       "DEL PEAK 23(20P12.1) MUTATED"
clus
  DEL PEAK 23(20P12.1) MUTATED DEL PEAK 23(20P12.1) WILD-TYPE 
                             1                              3 
                    TCGA-DS-A3LQ                     TCGA-FU-A2QG 
"DEL PEAK 23(20P12.1) WILD-TYPE" "DEL PEAK 23(20P12.1) WILD-TYPE" 
                    TCGA-HM-A3JK 
"DEL PEAK 23(20P12.1) WILD-TYPE" 
D40V6, continuous

Clustering(41) Variable = Del Peak 24(21q21.1) mutation analysis
D41V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "DEL PEAK 24(21Q21.1) MUTATED" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "DEL PEAK 24(21Q21.1) MUTATED" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "DEL PEAK 24(21Q21.1) MUTATED" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "DEL PEAK 24(21Q21.1) MUTATED" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "DEL PEAK 24(21Q21.1) MUTATED" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "DEL PEAK 24(21Q21.1) MUTATED" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
  "DEL PEAK 24(21Q21.1) MUTATED" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
  "DEL PEAK 24(21Q21.1) MUTATED" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
  "DEL PEAK 24(21Q21.1) MUTATED" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 24(21Q21.1) WILD-TYPE"   "DEL PEAK 24(21Q21.1) MUTATED" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
[1] "hr="   "7e+08"
D41V2, continuous
D41V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(21Q21.1) MUTATED      9    0
  DEL PEAK 24(21Q21.1) WILD-TYPE   13    4
     clus
vv    DEL PEAK 24(21Q21.1) MUTATED DEL PEAK 24(21Q21.1) WILD-TYPE
  NO                             0                              4
  YES                            9                             13
D41V4, continuous
[1] "Remove cluster labels:"       "DEL PEAK 24(21Q21.1) MUTATED"
clus
  DEL PEAK 24(21Q21.1) MUTATED DEL PEAK 24(21Q21.1) WILD-TYPE 
                             1                              5 
                    TCGA-BI-A0VR                     TCGA-DR-A0ZM 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-EX-A1H5                     TCGA-FU-A2QG 
"DEL PEAK 24(21Q21.1) WILD-TYPE" "DEL PEAK 24(21Q21.1) WILD-TYPE" 
                    TCGA-FU-A3EO 
"DEL PEAK 24(21Q21.1) WILD-TYPE" 
D41V5, continuous
D41V6, continuous

Clustering(42) Variable = Del Peak 25(Xp11.3) mutation analysis
D42V1, survival
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "DEL PEAK 25(XP11.3) MUTATED"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "DEL PEAK 25(XP11.3) MUTATED"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-BI-A0VR                    TCGA-BI-A0VS 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-DR-A0ZL                    TCGA-DR-A0ZM 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-DS-A0VK                    TCGA-DS-A0VL 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-DS-A0VM                    TCGA-DS-A0VN 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-DS-A3LQ                    TCGA-EA-A1QT 
  "DEL PEAK 25(XP11.3) MUTATED"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-EA-A3HQ                    TCGA-EA-A3HR 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-EA-A3HS                    TCGA-EA-A3HT 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-EK-A2PI                    TCGA-EX-A1H5 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-EX-A3L1                    TCGA-FU-A23K 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
                   TCGA-FU-A23L                    TCGA-FU-A2QG 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-FU-A3EO                    TCGA-FU-A3HY 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-FU-A3HZ                    TCGA-FU-A3NI 
"DEL PEAK 25(XP11.3) WILD-TYPE"   "DEL PEAK 25(XP11.3) MUTATED" 
                   TCGA-HG-A2PA                    TCGA-HM-A3JK 
"DEL PEAK 25(XP11.3) WILD-TYPE" "DEL PEAK 25(XP11.3) WILD-TYPE" 
[1] "hr="   "7e+08"
D42V2, continuous
D42V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 25(XP11.3) MUTATED      6    3
  DEL PEAK 25(XP11.3) WILD-TYPE   16    1
     clus
vv    DEL PEAK 25(XP11.3) MUTATED DEL PEAK 25(XP11.3) WILD-TYPE
  NO                            3                             1
  YES                           6                            16
D42V4, continuous
D42V5, continuous
[1] "Remove cluster labels:"        "DEL PEAK 25(XP11.3) MUTATED"  
[3] "DEL PEAK 25(XP11.3) WILD-TYPE"
clus
  DEL PEAK 25(XP11.3) MUTATED DEL PEAK 25(XP11.3) WILD-TYPE 
                            2                             2 
named character(0)
D42V6, continuous

Clustering(43) Variable = Del Peak 26(Xq21.33) mutation analysis
D43V1, survival
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "DEL PEAK 26(XQ21.33) MUTATED" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "DEL PEAK 26(XQ21.33) MUTATED" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-BI-A0VR                     TCGA-BI-A0VS 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-DR-A0ZL                     TCGA-DR-A0ZM 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-DS-A0VK                     TCGA-DS-A0VL 
  "DEL PEAK 26(XQ21.33) MUTATED" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-DS-A0VM                     TCGA-DS-A0VN 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-DS-A3LQ                     TCGA-EA-A1QT 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-EA-A3HQ                     TCGA-EA-A3HR 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-EA-A3HS                     TCGA-EA-A3HT 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-EK-A2PI                     TCGA-EX-A1H5 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-EX-A3L1                     TCGA-FU-A23K 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-FU-A23L                     TCGA-FU-A2QG 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-FU-A3EO                     TCGA-FU-A3HY 
"DEL PEAK 26(XQ21.33) WILD-TYPE"   "DEL PEAK 26(XQ21.33) MUTATED" 
                    TCGA-FU-A3HZ                     TCGA-FU-A3NI 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-HG-A2PA                     TCGA-HM-A3JK 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
[1] "hr="     "2.6e+09"
D43V2, continuous
D43V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(XQ21.33) MUTATED      4    2
  DEL PEAK 26(XQ21.33) WILD-TYPE   18    2
     clus
vv    DEL PEAK 26(XQ21.33) MUTATED DEL PEAK 26(XQ21.33) WILD-TYPE
  NO                             2                              2
  YES                            4                             18
D43V4, continuous
D43V5, continuous
[1] "Remove cluster labels:"       "DEL PEAK 26(XQ21.33) MUTATED"
clus
  DEL PEAK 26(XQ21.33) MUTATED DEL PEAK 26(XQ21.33) WILD-TYPE 
                             1                              3 
                    TCGA-BI-A0VR                     TCGA-DS-A3LQ 
"DEL PEAK 26(XQ21.33) WILD-TYPE" "DEL PEAK 26(XQ21.33) WILD-TYPE" 
                    TCGA-HM-A3JK 
"DEL PEAK 26(XQ21.33) WILD-TYPE" 
D43V6, continuous
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                      V4 
                 "NUMBERPACKYEARSSMOKED" 
                                      V5 
                    "STOPPEDSMOKINGYEAR" 
                                      V6 
        "TOBACCOSMOKINGHISTORYINDICATOR" 
> q(save="no")
