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

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> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/ACC-TP/8278649/transformed.cor.cli.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/ACC-TP/8142726/ACC-TP.merged_data.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=ACC-TP", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"        "-oT=ACC-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/ACC-TP/8142726/ACC-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/ACC-TP/8278649/transformed.cor.cli.txt"

nPatients in clinical file=34, in cluster file=90, common to both=33
[1] "Reduce the number of clustering variables from 45 to 42."
[1] 42 33
[1] "AMP PEAK  1(1Q22) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE 
                          6                          27 
  AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE 
                          6                          27 
[1] "AMP PEAK  2(4P16.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE 
                           16                            17 
  AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE 
                           16                            17 
[1] "AMP PEAK  3(4Q35.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE 
                           12                            21 
  AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE 
                           12                            21 
[1] "AMP PEAK  4(5P15.33) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE 
                            23                             10 
  AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE 
                            23                             10 
[1] "AMP PEAK  5(5Q35.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE 
                           23                            10 
  AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE 
                           23                            10 
[1] "AMP PEAK  6(6P21.31) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE 
                             5                             28 
  AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE 
                             5                             28 
[1] "AMP PEAK  7(6Q24.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE 
                            7                            26 
  AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE 
                            7                            26 
[1] "AMP PEAK  8(7P22.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE 
                           18                            15 
  AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE 
                           18                            15 
[1] "AMP PEAK  9(9Q31.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE 
                            9                            24 
  AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE 
                            9                            24 
[1] "AMP PEAK 10(12Q14.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE 
                            25                              8 
  AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE 
                            25                              8 
[1] "AMP PEAK 11(14Q11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE 
                             7                             26 
  AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE 
                             7                             26 
[1] "AMP PEAK 12(16P13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE 
                            19                             14 
  AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE 
                            19                             14 
[1] "AMP PEAK 13(16Q22.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE 
                            17                             16 
  AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE 
                            17                             16 
[1] "AMP PEAK 14(16Q24.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE 
                            17                             16 
  AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE 
                            17                             16 
[1] "AMP PEAK 15(17Q25.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE 
                             5                             28 
  AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE 
                             5                             28 
[1] "AMP PEAK 16(19P13.12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE 
                             19                              14 
  AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE 
                             19                              14 
[1] "AMP PEAK 17(19Q12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE 
                          18                           15 
  AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE 
                          18                           15 
[1] "AMP PEAK 18(XP11.22) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE 
                            12                             21 
  AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE 
                            12                             21 
[1] "AMP PEAK 19(XQ28) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE 
                         13                          20 
  AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE 
                         13                          20 
[1] "DEL PEAK  1(1P36.23) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE 
                            17                             16 
  DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE 
                            17                             16 
[1] "DEL PEAK  2(1Q43) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE 
                          9                          24 
  DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE 
                          9                          24 
[1] "DEL PEAK  3(2Q22.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE 
                           12                            21 
  DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE 
                           12                            21 
[1] "DEL PEAK  4(2Q37.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                           12                            21 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                           12                            21 
[1] "DEL PEAK  5(3Q13.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE 
                            10                             23 
  DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE 
                            10                             23 
[1] "DEL PEAK  6(4Q34.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                           11                            22 
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                           11                            22 
[1] "DEL PEAK  7(4Q35.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE 
                           12                            21 
  DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE 
                           12                            21 
[1] "DEL PEAK  8(6P24.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                            6                            27 
  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                            6                            27 
[1] "DEL PEAK  9(6Q26) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                         10                          23 
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                         10                          23 
[1] "DEL PEAK 10(7Q32.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE 
                            4                            29 
  DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE 
                            4                            29 
[1] "DEL PEAK 11(9P23) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                         10                          23 
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                         10                          23 
[1] "DEL PEAK 12(9P21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                           13                            20 
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                           13                            20 
[1] "DEL PEAK 13(10Q23.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE 
                             7                             26 
  DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE 
                             7                             26 
[1] "DEL PEAK 14(11P15.5) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE 
                            16                             17 
  DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE 
                            16                             17 
[1] "DEL PEAK 15(11Q14.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE 
                            15                             18 
  DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE 
                            15                             18 
[1] "DEL PEAK 17(13Q14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE 
                            19                             14 
  DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE 
                            19                             14 
[1] "DEL PEAK 18(14Q21.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE 
                             5                             28 
  DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE 
                             5                             28 
[1] "DEL PEAK 21(17Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE 
                            13                             20 
  DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE 
                            13                             20 
[1] "DEL PEAK 22(17Q21.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE 
                             12                              21 
  DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE 
                             12                              21 
[1] "DEL PEAK 23(17Q24.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE 
                            13                             20 
  DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE 
                            13                             20 
[1] "DEL PEAK 24(18Q21.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE 
                            17                             16 
  DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE 
                            17                             16 
[1] "DEL PEAK 25(20P12.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE 
                             7                             26 
  DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE 
                             7                             26 
[1] "DEL PEAK 26(22Q12.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE 
                            18                             15 
  DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE 
                            18                             15 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "NEOPLASM.DISEASESTAGE"                 
 [6] "PATHOLOGY.T.STAGE"                     
 [7] "PATHOLOGY.N.STAGE"                     
 [8] "PATHOLOGY.M.STAGE"                     
 [9] "DCCUPLOADDATE"                         
[10] "GENDER"                                
[11] "RADIATIONTHERAPY"                      
[12] "RADIATIONS.RADIATION.REGIMENINDICATION"
[13] "GLEASON_SCORE"                         
[14] "PSA_VALUE"                             
[15] "DAYS_TO_PSA"                           
[16] "BATCHNUMBER"                           

Input Data has 16 rows and 33 columns.

[1] "Batch" "16"   
[1] "Last Follow UP"
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
          NA           NA           NA         1259           NA         1424 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
         309         1255          670           NA          889          674 
TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX 
        3688          383          488         1541         1924          950 
TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 
          NA          211         1029         2723           NA         2842 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI 
         528          253         1130           NA         2222          709 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
         307          830         1293 
Variable 1:'AGE':	nDistinctValues=25,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=8,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=25,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'NEOPLASM.DISEASESTAGE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'PATHOLOGY.T.STAGE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY.N.STAGE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY.M.STAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 13:'GLEASON_SCORE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 14:'PSA_VALUE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 15:'DAYS_TO_PSA':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 16:'BATCH.NUMBER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                   "NEOPLASM.DISEASESTAGE" "PATHOLOGY.T.STAGE"    
[4] "PATHOLOGY.N.STAGE"     "GENDER"               
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "3"          
[1] "PATHOLOGY.N" "4"          
Output Data has 33 columns, 1 survival variables, and 5 non-survival variables.
AGE, nv=25, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=4, binary=FALSE, numeric=FALSE
PATHOLOGY.T.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
T1 T2 T3 T4 
 4 14  2  9 
[1] "table(vv)"
vv
   T1 T2+T3    T4 
    4    16     9 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
T1 T2 T3 T4 
 4 14  2  9 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


   T1 T2+T3    T4 
    4    16     9 
PATHOLOGY.N.STAGE, nv=2, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = AMP PEAK  1(1Q22) MUTATION ANALYSIS
D1V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  1(1Q22) MUTATED    4  2
  AMP PEAK  1(1Q22) WILD-TYPE 21  6
  AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE 
                          6                          27 
  AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE 
                          2                           6 
$`AMP PEAK  1(1Q22) MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JK TCGA-OR-A5JV TCGA-OR-A5K0 TCGA-OR-A5K5 TCGA-OR-A5K9 
       18.12        41.26        50.66        33.83         8.32        11.31 

$`AMP PEAK  1(1Q22) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       22.03        18.48        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 
       16.04        63.25        31.23        18.15         6.94        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI 
       32.68        93.44        17.36        37.15        73.05        23.31 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE 
                       8.32                        6.94 
  AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE 
                      50.66                      121.25 
  AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE 
                     25.975                      29.230 
[1] "8.3 - 50.7 (26.0)"  "6.9 - 121.2 (29.2)"
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
  "AMP PEAK  1(1Q22) MUTATED" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-PK-A5HB 
"AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
  "AMP PEAK  1(1Q22) MUTATED" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-PK-A5HB 
"AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
  "AMP PEAK  1(1Q22) MUTATED" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"AMP PEAK  1(1Q22) WILD-TYPE"   "AMP PEAK  1(1Q22) MUTATED" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"AMP PEAK  1(1Q22) WILD-TYPE" "AMP PEAK  1(1Q22) WILD-TYPE" 
                 TCGA-PK-A5HB 
"AMP PEAK  1(1Q22) WILD-TYPE" 
[1] "hr=" "2"  
D1V2, continuous
                             vv
clus                          STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  1(1Q22) MUTATED         0        3         1        2
  AMP PEAK  1(1Q22) WILD-TYPE       4       10         3        6
D1V3, multiclass
           clus
vv          AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE
  STAGE I                           0                           4
  STAGE II                          3                          10
  STAGE III                         1                           3
  STAGE IV                          2                           6
                             vv
clus                          T1 T2+T3 T4
  AMP PEAK  1(1Q22) MUTATED    0     4  2
  AMP PEAK  1(1Q22) WILD-TYPE  4    12  7
D1V4, multiclass
       clus
vv      AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE
  T1                            0                           4
  T2+T3                         4                          12
  T4                            2                           7
D1V5, binary
                             cls
clus                           0  1
  AMP PEAK  1(1Q22) MUTATED    6  0
  AMP PEAK  1(1Q22) WILD-TYPE 20  4
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  1(1Q22) MUTATED      6    0
  AMP PEAK  1(1Q22) WILD-TYPE   20    4
   clus
vv  AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE
  0                         6                          20
  1                         0                           4
D1V6, binary
                             cls
clus                           0  1
  AMP PEAK  1(1Q22) MUTATED    3  3
  AMP PEAK  1(1Q22) WILD-TYPE 14 13
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  1(1Q22) MUTATED      3    3
  AMP PEAK  1(1Q22) WILD-TYPE   14   13
        clus
vv       AMP PEAK  1(1Q22) MUTATED AMP PEAK  1(1Q22) WILD-TYPE
  FEMALE                         3                          14
  MALE                           3                          13

Clustering(2) Variable = AMP PEAK  2(4P16.3) MUTATION ANALYSIS
D2V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  2(4P16.3) MUTATED   14  2
  AMP PEAK  2(4P16.3) WILD-TYPE 11  6
  AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE 
                           16                            17 
  AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE 
                            2                             6 
$`AMP PEAK  2(4P16.3) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       30.31        57.53        41.39        46.82        10.16        41.26 
TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5K3 
       22.03        22.16       121.25        16.04        50.66        93.44 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5LK TCGA-OU-A5PI 
       17.36         8.32        73.05        23.31 

$`AMP PEAK  2(4P16.3) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JG TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JW 
       18.12        17.79        18.48        29.23        12.59        63.25 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 
       31.23        18.15         6.94        33.83        89.52        32.68 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       37.15        11.31        10.09        27.29        42.51 

  AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE 
                         8.32                          6.94 
  AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE 
                       121.25                         89.52 
  AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE 
                       35.785                        27.290 
[1] "8.3 - 121.2 (35.8)" "6.9 - 89.5 (27.3)" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  2(4P16.3) MUTATED" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"AMP PEAK  2(4P16.3) WILD-TYPE"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  2(4P16.3) MUTATED" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  2(4P16.3) WILD-TYPE"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  2(4P16.3) MUTATED" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  2(4P16.3) WILD-TYPE"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  2(4P16.3) MUTATED" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"AMP PEAK  2(4P16.3) WILD-TYPE"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  2(4P16.3) MUTATED" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  2(4P16.3) WILD-TYPE"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  2(4P16.3) MUTATED" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  2(4P16.3) WILD-TYPE"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  2(4P16.3) MUTATED" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"AMP PEAK  2(4P16.3) WILD-TYPE"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  2(4P16.3) MUTATED" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  2(4P16.3) WILD-TYPE"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  2(4P16.3) MUTATED" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  2(4P16.3) WILD-TYPE"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  2(4P16.3) MUTATED"   "AMP PEAK  2(4P16.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  2(4P16.3) WILD-TYPE" "AMP PEAK  2(4P16.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  2(4P16.3) WILD-TYPE" 
[1] "hr=" "3.6"
D2V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  2(4P16.3) MUTATED         3        6         2        4
  AMP PEAK  2(4P16.3) WILD-TYPE       1        7         2        4
D2V3, multiclass
           clus
vv          AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE
  STAGE I                             3                             1
  STAGE II                            6                             7
  STAGE III                           2                             2
  STAGE IV                            4                             4
                               vv
clus                            T1 T2+T3 T4
  AMP PEAK  2(4P16.3) MUTATED    3     8  4
  AMP PEAK  2(4P16.3) WILD-TYPE  1     8  5
D2V4, multiclass
       clus
vv      AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE
  T1                              3                             1
  T2+T3                           8                             8
  T4                              4                             5
D2V5, binary
                               cls
clus                             0  1
  AMP PEAK  2(4P16.3) MUTATED   13  2
  AMP PEAK  2(4P16.3) WILD-TYPE 13  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(4P16.3) MUTATED     13    2
  AMP PEAK  2(4P16.3) WILD-TYPE   13    2
   clus
vv  AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE
  0                          13                            13
  1                           2                             2
D2V6, binary
                               cls
clus                            0 1
  AMP PEAK  2(4P16.3) MUTATED   8 8
  AMP PEAK  2(4P16.3) WILD-TYPE 9 8
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(4P16.3) MUTATED      8    8
  AMP PEAK  2(4P16.3) WILD-TYPE    9    8
        clus
vv       AMP PEAK  2(4P16.3) MUTATED AMP PEAK  2(4P16.3) WILD-TYPE
  FEMALE                           8                             9
  MALE                             8                             8

Clustering(3) Variable = AMP PEAK  3(4Q35.1) MUTATION ANALYSIS
D3V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  3(4Q35.1) MUTATED   11  1
  AMP PEAK  3(4Q35.1) WILD-TYPE 14  7
  AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE 
                           12                            21 
  AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE 
                            1                             7 
$`AMP PEAK  3(4Q35.1) MUTATED`
TCGA-OR-A5JC TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JR 
       57.53        46.82        41.26        22.03        22.16       121.25 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JZ TCGA-OR-A5K4 TCGA-OR-A5LK TCGA-OU-A5PI 
       16.04        50.66         6.94        17.36        73.05        23.31 

$`AMP PEAK  3(4Q35.1) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JM 
       30.31        18.12        41.39        17.79        10.16        18.48 
TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5K0 
       29.23        12.59        63.25        31.23        18.15        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       89.52        32.68        93.44         8.32        37.15        11.31 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE 
                         6.94                          8.32 
  AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE 
                       121.25                         93.44 
  AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE 
                       32.285                        29.230 
[1] "6.9 - 121.2 (32.3)" "8.3 - 93.4 (29.2)" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  3(4Q35.1) MUTATED"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  3(4Q35.1) MUTATED"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  3(4Q35.1) MUTATED"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  3(4Q35.1) MUTATED"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  3(4Q35.1) MUTATED"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  3(4Q35.1) WILD-TYPE"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
  "AMP PEAK  3(4Q35.1) MUTATED" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  3(4Q35.1) MUTATED"   "AMP PEAK  3(4Q35.1) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  3(4Q35.1) WILD-TYPE" "AMP PEAK  3(4Q35.1) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  3(4Q35.1) WILD-TYPE" 
[1] "hr=" "4.8"
D3V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  3(4Q35.1) MUTATED         3        5         1        2
  AMP PEAK  3(4Q35.1) WILD-TYPE       1        8         3        6
D3V3, multiclass
           clus
vv          AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE
  STAGE I                             3                             1
  STAGE II                            5                             8
  STAGE III                           1                             3
  STAGE IV                            2                             6
                               vv
clus                            T1 T2+T3 T4
  AMP PEAK  3(4Q35.1) MUTATED    3     6  2
  AMP PEAK  3(4Q35.1) WILD-TYPE  1    10  7
D3V4, multiclass
       clus
vv      AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE
  T1                              3                             1
  T2+T3                           6                            10
  T4                              2                             7
D3V5, binary
                               cls
clus                             0  1
  AMP PEAK  3(4Q35.1) MUTATED   10  1
  AMP PEAK  3(4Q35.1) WILD-TYPE 16  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(4Q35.1) MUTATED     10    1
  AMP PEAK  3(4Q35.1) WILD-TYPE   16    3
   clus
vv  AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE
  0                          10                            16
  1                           1                             3
D3V6, binary
                               cls
clus                             0  1
  AMP PEAK  3(4Q35.1) MUTATED    5  7
  AMP PEAK  3(4Q35.1) WILD-TYPE 12  9
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(4Q35.1) MUTATED      5    7
  AMP PEAK  3(4Q35.1) WILD-TYPE   12    9
        clus
vv       AMP PEAK  3(4Q35.1) MUTATED AMP PEAK  3(4Q35.1) WILD-TYPE
  FEMALE                           5                            12
  MALE                             7                             9

Clustering(4) Variable = AMP PEAK  4(5P15.33) MUTATION ANALYSIS
D4V1, survival
                                sevent
clus2                             0  1
  AMP PEAK  4(5P15.33) MUTATED   17  6
  AMP PEAK  4(5P15.33) WILD-TYPE  8  2
  AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE 
                            23                             10 
  AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE 
                             6                              2 
$`AMP PEAK  4(5P15.33) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV 
       41.26        22.03        22.16       121.25        16.04        50.66 
TCGA-OR-A5JW TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 
       63.25        18.15         6.94        89.52        32.68        93.44 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI 
       17.36         8.32        11.31        73.05        23.31 

$`AMP PEAK  4(5P15.33) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JX TCGA-OR-A5K0 
       18.12        18.48        29.23        12.59        31.23        33.83 
TCGA-OR-A5K6 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       37.15        10.09        27.29        42.51 

  AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE 
                          6.94                          10.09 
  AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE 
                        121.25                          42.51 
  AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE 
                         30.31                          28.26 
[1] "6.9 - 121.2 (30.3)" "10.1 - 42.5 (28.3)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK  4(5P15.33) WILD-TYPE"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK  4(5P15.33) WILD-TYPE"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK  4(5P15.33) WILD-TYPE"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK  4(5P15.33) WILD-TYPE" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK  4(5P15.33) WILD-TYPE"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK  4(5P15.33) WILD-TYPE"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK  4(5P15.33) WILD-TYPE"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK  4(5P15.33) WILD-TYPE" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK  4(5P15.33) WILD-TYPE"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "AMP PEAK  4(5P15.33) MUTATED" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK  4(5P15.33) WILD-TYPE"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK  4(5P15.33) WILD-TYPE"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "AMP PEAK  4(5P15.33) MUTATED"   "AMP PEAK  4(5P15.33) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK  4(5P15.33) WILD-TYPE" "AMP PEAK  4(5P15.33) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK  4(5P15.33) WILD-TYPE" 
[1] "hr=" "1"  
D4V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  4(5P15.33) MUTATED         3       10         3        6
  AMP PEAK  4(5P15.33) WILD-TYPE       1        3         1        2
D4V3, multiclass
           clus
vv          AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE
  STAGE I                              3                              1
  STAGE II                            10                              3
  STAGE III                            3                              1
  STAGE IV                             6                              2
                                vv
clus                             T1 T2+T3 T4
  AMP PEAK  4(5P15.33) MUTATED    3    12  7
  AMP PEAK  4(5P15.33) WILD-TYPE  1     4  2
D4V4, multiclass
       clus
vv      AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE
  T1                               3                              1
  T2+T3                           12                              4
  T4                               7                              2
D4V5, binary
                                cls
clus                              0  1
  AMP PEAK  4(5P15.33) MUTATED   18  4
  AMP PEAK  4(5P15.33) WILD-TYPE  8  0
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  4(5P15.33) MUTATED     18    4
  AMP PEAK  4(5P15.33) WILD-TYPE    8    0
   clus
vv  AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE
  0                           18                              8
  1                            4                              0
D4V6, binary
                                cls
clus                              0  1
  AMP PEAK  4(5P15.33) MUTATED   11 12
  AMP PEAK  4(5P15.33) WILD-TYPE  6  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  4(5P15.33) MUTATED     11   12
  AMP PEAK  4(5P15.33) WILD-TYPE    6    4
        clus
vv       AMP PEAK  4(5P15.33) MUTATED AMP PEAK  4(5P15.33) WILD-TYPE
  FEMALE                           11                              6
  MALE                             12                              4

Clustering(5) Variable = AMP PEAK  5(5Q35.3) MUTATION ANALYSIS
D5V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  5(5Q35.3) MUTATED   20  3
  AMP PEAK  5(5Q35.3) WILD-TYPE  5  5
  AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE 
                           23                            10 
  AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE 
                            3                             5 
$`AMP PEAK  5(5Q35.3) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT 
       41.26        22.03        22.16       121.25        12.59        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K3 
       50.66        63.25        31.23         6.94        89.52        93.44 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5HA 
       17.36         8.32        73.05        23.31        27.29 

$`AMP PEAK  5(5Q35.3) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JY TCGA-OR-A5K0 TCGA-OR-A5K2 
       18.12        18.48        29.23        18.15        33.83        32.68 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-PK-A5H9 TCGA-PK-A5HB 
       37.15        11.31        10.09        42.51 

  AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE 
                         6.94                         10.09 
  AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE 
                       121.25                         42.51 
  AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE 
                       30.310                        23.855 
[1] "6.9 - 121.2 (30.3)" "10.1 - 42.5 (23.9)"
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  5(5Q35.3) MUTATED" "AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  5(5Q35.3) MUTATED" "AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  5(5Q35.3) WILD-TYPE" "AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-PK-A5HB 
"AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  5(5Q35.3) MUTATED" "AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  5(5Q35.3) MUTATED" "AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  5(5Q35.3) WILD-TYPE" "AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-PK-A5HB 
"AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  5(5Q35.3) MUTATED" "AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  5(5Q35.3) MUTATED" "AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  5(5Q35.3) WILD-TYPE" "AMP PEAK  5(5Q35.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  5(5Q35.3) MUTATED"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  5(5Q35.3) WILD-TYPE"   "AMP PEAK  5(5Q35.3) MUTATED" 
                   TCGA-PK-A5HB 
"AMP PEAK  5(5Q35.3) WILD-TYPE" 
[1] "hr=" "6"  
D5V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  5(5Q35.3) MUTATED         3       10         3        5
  AMP PEAK  5(5Q35.3) WILD-TYPE       1        3         1        3
D5V3, multiclass
           clus
vv          AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE
  STAGE I                             3                             1
  STAGE II                           10                             3
  STAGE III                           3                             1
  STAGE IV                            5                             3
                               vv
clus                            T1 T2+T3 T4
  AMP PEAK  5(5Q35.3) MUTATED    3    13  5
  AMP PEAK  5(5Q35.3) WILD-TYPE  1     3  4
D5V4, multiclass
       clus
vv      AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE
  T1                              3                             1
  T2+T3                          13                             3
  T4                              5                             4
D5V5, binary
                               cls
clus                             0  1
  AMP PEAK  5(5Q35.3) MUTATED   19  3
  AMP PEAK  5(5Q35.3) WILD-TYPE  7  1
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(5Q35.3) MUTATED     19    3
  AMP PEAK  5(5Q35.3) WILD-TYPE    7    1
   clus
vv  AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE
  0                          19                             7
  1                           3                             1
D5V6, binary
                               cls
clus                             0  1
  AMP PEAK  5(5Q35.3) MUTATED    9 14
  AMP PEAK  5(5Q35.3) WILD-TYPE  8  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(5Q35.3) MUTATED      9   14
  AMP PEAK  5(5Q35.3) WILD-TYPE    8    2
        clus
vv       AMP PEAK  5(5Q35.3) MUTATED AMP PEAK  5(5Q35.3) WILD-TYPE
  FEMALE                           9                             8
  MALE                            14                             2

Clustering(6) Variable = AMP PEAK  6(6P21.31) MUTATION ANALYSIS
D6V1, survival
                                sevent
clus2                             0  1
  AMP PEAK  6(6P21.31) MUTATED    2  3
  AMP PEAK  6(6P21.31) WILD-TYPE 23  5
  AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE 
                             5                             28 
  AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE 
                             3                              5 
$`AMP PEAK  6(6P21.31) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5LK 
       30.31        57.53        22.03        18.48        73.05 

$`AMP PEAK  6(6P21.31) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       18.12        41.39        17.79        46.82        10.16        41.26 
TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV 
       29.23        22.16       121.25        12.59        16.04        50.66 
TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       63.25        31.23        18.15         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       23.31        10.09        27.29        42.51 

  AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE 
                         18.48                           6.94 
  AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE 
                         73.05                         121.25 
  AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE 
                         30.31                          28.26 
[1] "18.5 - 73.0 (30.3)" "6.9 - 121.2 (28.3)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK  6(6P21.31) MUTATED" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK  6(6P21.31) MUTATED" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK  6(6P21.31) MUTATED"   "AMP PEAK  6(6P21.31) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "AMP PEAK  6(6P21.31) MUTATED" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK  6(6P21.31) MUTATED" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK  6(6P21.31) MUTATED" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK  6(6P21.31) MUTATED"   "AMP PEAK  6(6P21.31) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "AMP PEAK  6(6P21.31) MUTATED" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK  6(6P21.31) MUTATED" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK  6(6P21.31) MUTATED" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK  6(6P21.31) MUTATED"   "AMP PEAK  6(6P21.31) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "AMP PEAK  6(6P21.31) MUTATED" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK  6(6P21.31) WILD-TYPE" "AMP PEAK  6(6P21.31) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK  6(6P21.31) WILD-TYPE" 
[1] "hr=" "2.3"
D6V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  6(6P21.31) MUTATED         1        1         0        2
  AMP PEAK  6(6P21.31) WILD-TYPE       3       12         4        6
D6V3, multiclass
           clus
vv          AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE
  STAGE I                              1                              3
  STAGE II                             1                             12
  STAGE III                            0                              4
  STAGE IV                             2                              6
                                vv
clus                             T1 T2+T3 T4
  AMP PEAK  6(6P21.31) MUTATED    1     1  2
  AMP PEAK  6(6P21.31) WILD-TYPE  3    15  7
D6V4, multiclass
       clus
vv      AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE
  T1                               1                              3
  T2+T3                            1                             15
  T4                               2                              7
D6V5, binary
                                cls
clus                              0  1
  AMP PEAK  6(6P21.31) MUTATED    4  0
  AMP PEAK  6(6P21.31) WILD-TYPE 22  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  6(6P21.31) MUTATED      4    0
  AMP PEAK  6(6P21.31) WILD-TYPE   22    4
   clus
vv  AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE
  0                            4                             22
  1                            0                              4
D6V6, binary
                                cls
clus                              0  1
  AMP PEAK  6(6P21.31) MUTATED    3  2
  AMP PEAK  6(6P21.31) WILD-TYPE 14 14
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  6(6P21.31) MUTATED      3    2
  AMP PEAK  6(6P21.31) WILD-TYPE   14   14
        clus
vv       AMP PEAK  6(6P21.31) MUTATED AMP PEAK  6(6P21.31) WILD-TYPE
  FEMALE                            3                             14
  MALE                              2                             14

Clustering(7) Variable = AMP PEAK  7(6Q24.3) MUTATION ANALYSIS
D7V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  7(6Q24.3) MUTATED    4  3
  AMP PEAK  7(6Q24.3) WILD-TYPE 21  5
  AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE 
                            7                            26 
  AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE 
                            3                             5 
$`AMP PEAK  7(6Q24.3) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JL TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5LK 
       30.31        57.53        22.03        33.83        32.68        73.05 
TCGA-PK-A5HA 
       27.29 

$`AMP PEAK  7(6Q24.3) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       18.12        41.39        17.79        46.82        10.16        41.26 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT 
       18.48        29.23        22.16       121.25        12.59        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 
       50.66        63.25        31.23        18.15         6.94        89.52 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OU-A5PI 
       93.44        17.36         8.32        37.15        11.31        23.31 
TCGA-PK-A5H9 TCGA-PK-A5HB 
       10.09        42.51 

  AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE 
                        22.03                          6.94 
  AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE 
                        73.05                        121.25 
  AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE 
                       32.680                        22.735 
[1] "22.0 - 73.0 (32.7)" "6.9 - 121.2 (22.7)"
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  7(6Q24.3) WILD-TYPE"   "AMP PEAK  7(6Q24.3) MUTATED" 
                   TCGA-PK-A5HB 
"AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  7(6Q24.3) WILD-TYPE"   "AMP PEAK  7(6Q24.3) MUTATED" 
                   TCGA-PK-A5HB 
"AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  7(6Q24.3) WILD-TYPE" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  7(6Q24.3) MUTATED" "AMP PEAK  7(6Q24.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  7(6Q24.3) WILD-TYPE"   "AMP PEAK  7(6Q24.3) MUTATED" 
                   TCGA-PK-A5HB 
"AMP PEAK  7(6Q24.3) WILD-TYPE" 
[1] "hr=" "1.4"
D7V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  7(6Q24.3) MUTATED         1        2         1        1
  AMP PEAK  7(6Q24.3) WILD-TYPE       3       11         3        7
D7V3, multiclass
           clus
vv          AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE
  STAGE I                             1                             3
  STAGE II                            2                            11
  STAGE III                           1                             3
  STAGE IV                            1                             7
                               vv
clus                            T1 T2+T3 T4
  AMP PEAK  7(6Q24.3) MUTATED    1     2  2
  AMP PEAK  7(6Q24.3) WILD-TYPE  3    14  7
D7V4, multiclass
       clus
vv      AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE
  T1                              1                             3
  T2+T3                           2                            14
  T4                              2                             7
D7V5, binary
                               cls
clus                             0  1
  AMP PEAK  7(6Q24.3) MUTATED    6  0
  AMP PEAK  7(6Q24.3) WILD-TYPE 20  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(6Q24.3) MUTATED      6    0
  AMP PEAK  7(6Q24.3) WILD-TYPE   20    4
   clus
vv  AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE
  0                           6                            20
  1                           0                             4
D7V6, binary
                               cls
clus                             0  1
  AMP PEAK  7(6Q24.3) MUTATED    4  3
  AMP PEAK  7(6Q24.3) WILD-TYPE 13 13
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(6Q24.3) MUTATED      4    3
  AMP PEAK  7(6Q24.3) WILD-TYPE   13   13
        clus
vv       AMP PEAK  7(6Q24.3) MUTATED AMP PEAK  7(6Q24.3) WILD-TYPE
  FEMALE                           4                            13
  MALE                             3                            13

Clustering(8) Variable = AMP PEAK  8(7P22.1) MUTATION ANALYSIS
D8V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  8(7P22.1) MUTATED   15  3
  AMP PEAK  8(7P22.1) WILD-TYPE 10  5
  AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE 
                           18                            15 
  AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE 
                            3                             5 
$`AMP PEAK  8(7P22.1) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL 
       30.31        41.39        17.79        10.16        41.26        22.03 
TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY 
       22.16       121.25        16.04        50.66        31.23        18.15 
TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI 
       89.52        93.44         8.32        37.15        73.05        23.31 

$`AMP PEAK  8(7P22.1) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JI TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JS 
       18.12        57.53        46.82        18.48        29.23        12.59 
TCGA-OR-A5JW TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K9 
       63.25         6.94        33.83        32.68        17.36        11.31 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE 
                         8.32                          6.94 
  AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE 
                       121.25                         63.25 
  AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE 
                        30.77                         27.29 
[1] "8.3 - 121.2 (30.8)" "6.9 - 63.2 (27.3)" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  8(7P22.1) MUTATED"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  8(7P22.1) MUTATED"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  8(7P22.1) MUTATED"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  8(7P22.1) WILD-TYPE" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  8(7P22.1) MUTATED"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  8(7P22.1) MUTATED"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  8(7P22.1) MUTATED"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  8(7P22.1) WILD-TYPE" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  8(7P22.1) MUTATED"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "AMP PEAK  8(7P22.1) MUTATED"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"AMP PEAK  8(7P22.1) WILD-TYPE"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "AMP PEAK  8(7P22.1) MUTATED" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
  "AMP PEAK  8(7P22.1) MUTATED"   "AMP PEAK  8(7P22.1) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  8(7P22.1) WILD-TYPE" "AMP PEAK  8(7P22.1) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  8(7P22.1) WILD-TYPE" 
[1] "hr=" "2.5"
D8V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  8(7P22.1) MUTATED         2        8         2        6
  AMP PEAK  8(7P22.1) WILD-TYPE       2        5         2        2
D8V3, multiclass
           clus
vv          AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE
  STAGE I                             2                             2
  STAGE II                            8                             5
  STAGE III                           2                             2
  STAGE IV                            6                             2
                               vv
clus                            T1 T2+T3 T4
  AMP PEAK  8(7P22.1) MUTATED    2    11  5
  AMP PEAK  8(7P22.1) WILD-TYPE  2     5  4
D8V4, multiclass
       clus
vv      AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE
  T1                              2                             2
  T2+T3                          11                             5
  T4                              5                             4
D8V5, binary
                               cls
clus                             0  1
  AMP PEAK  8(7P22.1) MUTATED   14  4
  AMP PEAK  8(7P22.1) WILD-TYPE 12  0
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  8(7P22.1) MUTATED     14    4
  AMP PEAK  8(7P22.1) WILD-TYPE   12    0
   clus
vv  AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE
  0                          14                            12
  1                           4                             0
D8V6, binary
                               cls
clus                            0 1
  AMP PEAK  8(7P22.1) MUTATED   9 9
  AMP PEAK  8(7P22.1) WILD-TYPE 8 7
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  8(7P22.1) MUTATED      9    9
  AMP PEAK  8(7P22.1) WILD-TYPE    8    7
        clus
vv       AMP PEAK  8(7P22.1) MUTATED AMP PEAK  8(7P22.1) WILD-TYPE
  FEMALE                           9                             8
  MALE                             9                             7

Clustering(9) Variable = AMP PEAK  9(9Q31.3) MUTATION ANALYSIS
D9V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  9(9Q31.3) MUTATED    6  3
  AMP PEAK  9(9Q31.3) WILD-TYPE 19  5
  AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE 
                            9                            24 
  AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE 
                            3                             5 
$`AMP PEAK  9(9Q31.3) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JQ TCGA-OR-A5JV 
       30.31        41.39        17.79        10.16        22.16        50.66 
TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OU-A5PI 
       33.83        32.68        23.31 

$`AMP PEAK  9(9Q31.3) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM 
       18.12        57.53        46.82        41.26        22.03        18.48 
TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5JX 
       29.23       121.25        12.59        16.04        63.25        31.23 
TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       18.15         6.94        89.52        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       37.15        11.31        73.05        10.09        27.29        42.51 

  AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE 
                        10.16                          6.94 
  AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE 
                        50.66                        121.25 
  AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE 
                        30.31                         28.26 
[1] "10.2 - 50.7 (30.3)" "6.9 - 121.2 (28.3)"
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "AMP PEAK  9(9Q31.3) MUTATED" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"AMP PEAK  9(9Q31.3) WILD-TYPE"   "AMP PEAK  9(9Q31.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"AMP PEAK  9(9Q31.3) WILD-TYPE" "AMP PEAK  9(9Q31.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"AMP PEAK  9(9Q31.3) WILD-TYPE" 
[1] "hr=" "1.7"
D9V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  9(9Q31.3) MUTATED         0        4         1        4
  AMP PEAK  9(9Q31.3) WILD-TYPE       4        9         3        4
D9V3, multiclass
           clus
vv          AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE
  STAGE I                             0                             4
  STAGE II                            4                             9
  STAGE III                           1                             3
  STAGE IV                            4                             4
                               vv
clus                            T1 T2+T3 T4
  AMP PEAK  9(9Q31.3) MUTATED    0     5  4
  AMP PEAK  9(9Q31.3) WILD-TYPE  4    11  5
D9V4, multiclass
       clus
vv      AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE
  T1                              0                             4
  T2+T3                           5                            11
  T4                              4                             5
D9V5, binary
                               cls
clus                             0  1
  AMP PEAK  9(9Q31.3) MUTATED    6  3
  AMP PEAK  9(9Q31.3) WILD-TYPE 20  1
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(9Q31.3) MUTATED      6    3
  AMP PEAK  9(9Q31.3) WILD-TYPE   20    1
   clus
vv  AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE
  0                           6                            20
  1                           3                             1
D9V6, binary
                               cls
clus                             0  1
  AMP PEAK  9(9Q31.3) MUTATED    6  3
  AMP PEAK  9(9Q31.3) WILD-TYPE 11 13
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(9Q31.3) MUTATED      6    3
  AMP PEAK  9(9Q31.3) WILD-TYPE   11   13
        clus
vv       AMP PEAK  9(9Q31.3) MUTATED AMP PEAK  9(9Q31.3) WILD-TYPE
  FEMALE                           6                            11
  MALE                             3                            13

Clustering(10) Variable = AMP PEAK 10(12Q14.1) MUTATION ANALYSIS
D10V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 10(12Q14.1) MUTATED   18  7
  AMP PEAK 10(12Q14.1) WILD-TYPE  7  1
  AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE 
                            25                              8 
  AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE 
                             7                              1 
$`AMP PEAK 10(12Q14.1) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       41.26        22.03        18.48        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K2 
       50.66        31.23        18.15         6.94        89.52        32.68 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI 
       93.44        17.36         8.32        11.31        73.05        23.31 
TCGA-PK-A5HA 
       27.29 

$`AMP PEAK 10(12Q14.1) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JW TCGA-OR-A5K0 TCGA-OR-A5K6 
       18.12        29.23        12.59        63.25        33.83        37.15 
TCGA-PK-A5H9 TCGA-PK-A5HB 
       10.09        42.51 

  AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE 
                          6.94                          10.09 
  AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE 
                        121.25                          63.25 
  AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE 
                         27.29                          31.53 
[1] "6.9 - 121.2 (27.3)" "10.1 - 63.2 (31.5)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 10(12Q14.1) MUTATED" "AMP PEAK 10(12Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 10(12Q14.1) MUTATED" "AMP PEAK 10(12Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-PK-A5HB 
"AMP PEAK 10(12Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 10(12Q14.1) MUTATED" "AMP PEAK 10(12Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 10(12Q14.1) MUTATED" "AMP PEAK 10(12Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-PK-A5HB 
"AMP PEAK 10(12Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 10(12Q14.1) MUTATED" "AMP PEAK 10(12Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 10(12Q14.1) MUTATED" "AMP PEAK 10(12Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "AMP PEAK 10(12Q14.1) MUTATED"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 10(12Q14.1) WILD-TYPE"   "AMP PEAK 10(12Q14.1) MUTATED" 
                    TCGA-PK-A5HB 
"AMP PEAK 10(12Q14.1) WILD-TYPE" 
[1] "hr=" "2.2"
D10V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 10(12Q14.1) MUTATED         3        9         4        7
  AMP PEAK 10(12Q14.1) WILD-TYPE       1        4         0        1
D10V3, multiclass
           clus
vv          AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE
  STAGE I                              3                              1
  STAGE II                             9                              4
  STAGE III                            4                              0
  STAGE IV                             7                              1
                                vv
clus                             T1 T2+T3 T4
  AMP PEAK 10(12Q14.1) MUTATED    3    12  8
  AMP PEAK 10(12Q14.1) WILD-TYPE  1     4  1
D10V4, multiclass
       clus
vv      AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE
  T1                               3                              1
  T2+T3                           12                              4
  T4                               8                              1
D10V5, binary
                                cls
clus                              0  1
  AMP PEAK 10(12Q14.1) MUTATED   20  4
  AMP PEAK 10(12Q14.1) WILD-TYPE  6  0
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(12Q14.1) MUTATED     20    4
  AMP PEAK 10(12Q14.1) WILD-TYPE    6    0
   clus
vv  AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE
  0                           20                              6
  1                            4                              0
D10V6, binary
                                cls
clus                              0  1
  AMP PEAK 10(12Q14.1) MUTATED   12 13
  AMP PEAK 10(12Q14.1) WILD-TYPE  5  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(12Q14.1) MUTATED     12   13
  AMP PEAK 10(12Q14.1) WILD-TYPE    5    3
        clus
vv       AMP PEAK 10(12Q14.1) MUTATED AMP PEAK 10(12Q14.1) WILD-TYPE
  FEMALE                           12                              5
  MALE                             13                              3

Clustering(11) Variable = AMP PEAK 11(14Q11.2) MUTATION ANALYSIS
D11V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 11(14Q11.2) MUTATED    3  4
  AMP PEAK 11(14Q11.2) WILD-TYPE 22  4
  AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE 
                             7                             26 
  AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE 
                             4                              4 
$`AMP PEAK 11(14Q11.2) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM 
       30.31        57.53        17.79        10.16        22.03        18.48 
TCGA-OU-A5PI 
       23.31 

$`AMP PEAK 11(14Q11.2) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JO TCGA-OR-A5JQ 
       18.12        41.39        46.82        41.26        29.23        22.16 
TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX 
      121.25        12.59        16.04        50.66        63.25        31.23 
TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 
       18.15         6.94        33.83        89.52        32.68        93.44 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H9 
       17.36         8.32        37.15        11.31        73.05        10.09 
TCGA-PK-A5HA TCGA-PK-A5HB 
       27.29        42.51 

  AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE 
                         10.16                           6.94 
  AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE 
                         57.53                         121.25 
  AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE 
                        22.030                         31.955 
[1] "10.2 - 57.5 (22.0)" "6.9 - 121.2 (32.0)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 11(14Q11.2) MUTATED"   "AMP PEAK 11(14Q11.2) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 11(14Q11.2) WILD-TYPE"   "AMP PEAK 11(14Q11.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 11(14Q11.2) MUTATED"   "AMP PEAK 11(14Q11.2) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 11(14Q11.2) WILD-TYPE"   "AMP PEAK 11(14Q11.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 11(14Q11.2) MUTATED" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 11(14Q11.2) MUTATED"   "AMP PEAK 11(14Q11.2) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 11(14Q11.2) WILD-TYPE"   "AMP PEAK 11(14Q11.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 11(14Q11.2) WILD-TYPE" "AMP PEAK 11(14Q11.2) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 11(14Q11.2) WILD-TYPE" 
[1] "hr=" "4.7"
D11V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 11(14Q11.2) MUTATED         1        0         0        5
  AMP PEAK 11(14Q11.2) WILD-TYPE       3       13         4        3
D11V3, multiclass
           clus
vv          AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE
  STAGE I                              1                              3
  STAGE II                             0                             13
  STAGE III                            0                              4
  STAGE IV                             5                              3
                                vv
clus                             T1 T2+T3 T4
  AMP PEAK 11(14Q11.2) MUTATED    1     1  4
  AMP PEAK 11(14Q11.2) WILD-TYPE  3    15  5
D11V4, multiclass
       clus
vv      AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE
  T1                               1                              3
  T2+T3                            1                             15
  T4                               4                              5
D11V5, binary
                                cls
clus                              0  1
  AMP PEAK 11(14Q11.2) MUTATED    3  3
  AMP PEAK 11(14Q11.2) WILD-TYPE 23  1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(14Q11.2) MUTATED      3    3
  AMP PEAK 11(14Q11.2) WILD-TYPE   23    1
   clus
vv  AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE
  0                            3                             23
  1                            3                              1
D11V6, binary
                                cls
clus                              0  1
  AMP PEAK 11(14Q11.2) MUTATED    4  3
  AMP PEAK 11(14Q11.2) WILD-TYPE 13 13
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(14Q11.2) MUTATED      4    3
  AMP PEAK 11(14Q11.2) WILD-TYPE   13   13
        clus
vv       AMP PEAK 11(14Q11.2) MUTATED AMP PEAK 11(14Q11.2) WILD-TYPE
  FEMALE                            4                             13
  MALE                              3                             13

Clustering(12) Variable = AMP PEAK 12(16P13.3) MUTATION ANALYSIS
D12V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 12(16P13.3) MUTATED   16  3
  AMP PEAK 12(16P13.3) WILD-TYPE  9  5
  AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE 
                            19                             14 
  AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE 
                             3                              5 
$`AMP PEAK 12(16P13.3) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV 
       41.26        22.03        22.16       121.25        16.04        50.66 
TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       31.23         6.94        89.52        93.44        17.36         8.32 
TCGA-OU-A5PI 
       23.31 

$`AMP PEAK 12(16P13.3) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JW TCGA-OR-A5JY 
       18.12        18.48        29.23        12.59        63.25        18.15 
TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H9 
       33.83        32.68        37.15        11.31        73.05        10.09 
TCGA-PK-A5HA TCGA-PK-A5HB 
       27.29        42.51 

  AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE 
                          6.94                          10.09 
  AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE 
                        121.25                          73.05 
  AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE 
                         30.31                          28.26 
[1] "6.9 - 121.2 (30.3)" "10.1 - 73.0 (28.3)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 12(16P13.3) MUTATED" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 12(16P13.3) MUTATED" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 12(16P13.3) MUTATED" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 12(16P13.3) WILD-TYPE" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 12(16P13.3) WILD-TYPE" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 12(16P13.3) MUTATED" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 12(16P13.3) MUTATED" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 12(16P13.3) MUTATED" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 12(16P13.3) WILD-TYPE" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 12(16P13.3) WILD-TYPE" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 12(16P13.3) MUTATED" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 12(16P13.3) MUTATED" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 12(16P13.3) MUTATED" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 12(16P13.3) MUTATED"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 12(16P13.3) WILD-TYPE" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 12(16P13.3) WILD-TYPE"   "AMP PEAK 12(16P13.3) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 12(16P13.3) WILD-TYPE" "AMP PEAK 12(16P13.3) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 12(16P13.3) WILD-TYPE" 
[1] "hr=" "2.4"
D12V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 12(16P13.3) MUTATED         3        7         3        5
  AMP PEAK 12(16P13.3) WILD-TYPE       1        6         1        3
D12V3, multiclass
           clus
vv          AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE
  STAGE I                              3                              1
  STAGE II                             7                              6
  STAGE III                            3                              1
  STAGE IV                             5                              3
                                vv
clus                             T1 T2+T3 T4
  AMP PEAK 12(16P13.3) MUTATED    3    10  5
  AMP PEAK 12(16P13.3) WILD-TYPE  1     6  4
D12V4, multiclass
       clus
vv      AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE
  T1                               3                              1
  T2+T3                           10                              6
  T4                               5                              4
D12V5, binary
                                cls
clus                              0  1
  AMP PEAK 12(16P13.3) MUTATED   15  3
  AMP PEAK 12(16P13.3) WILD-TYPE 11  1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(16P13.3) MUTATED     15    3
  AMP PEAK 12(16P13.3) WILD-TYPE   11    1
   clus
vv  AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE
  0                           15                             11
  1                            3                              1
D12V6, binary
                                cls
clus                              0  1
  AMP PEAK 12(16P13.3) MUTATED    8 11
  AMP PEAK 12(16P13.3) WILD-TYPE  9  5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(16P13.3) MUTATED      8   11
  AMP PEAK 12(16P13.3) WILD-TYPE    9    5
        clus
vv       AMP PEAK 12(16P13.3) MUTATED AMP PEAK 12(16P13.3) WILD-TYPE
  FEMALE                            8                              9
  MALE                             11                              5

Clustering(13) Variable = AMP PEAK 13(16Q22.1) MUTATION ANALYSIS
D13V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 13(16Q22.1) MUTATED   14  3
  AMP PEAK 13(16Q22.1) WILD-TYPE 11  5
  AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE 
                            17                             16 
  AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE 
                             3                              5 
$`AMP PEAK 13(16Q22.1) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JX 
       41.26        22.16       121.25        16.04        50.66        31.23 
TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OU-A5PI 
        6.94        89.52        93.44        17.36        23.31 

$`AMP PEAK 13(16Q22.1) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JW 
       18.12        22.03        18.48        29.23        12.59        63.25 
TCGA-OR-A5JY TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       18.15        33.83        32.68         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        10.09        27.29        42.51 

  AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE 
                          6.94                           8.32 
  AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE 
                        121.25                          73.05 
  AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE 
                         31.23                          24.66 
[1] "6.9 - 121.2 (31.2)" "8.3 - 73.0 (24.7)" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 13(16Q22.1) MUTATED" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"AMP PEAK 13(16Q22.1) WILD-TYPE" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 13(16Q22.1) MUTATED" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 13(16Q22.1) MUTATED" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 13(16Q22.1) WILD-TYPE" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 13(16Q22.1) WILD-TYPE" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 13(16Q22.1) MUTATED" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"AMP PEAK 13(16Q22.1) WILD-TYPE" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 13(16Q22.1) MUTATED" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 13(16Q22.1) MUTATED" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 13(16Q22.1) WILD-TYPE" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 13(16Q22.1) WILD-TYPE" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 13(16Q22.1) MUTATED" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"AMP PEAK 13(16Q22.1) WILD-TYPE" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 13(16Q22.1) MUTATED" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 13(16Q22.1) MUTATED"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 13(16Q22.1) MUTATED" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 13(16Q22.1) WILD-TYPE" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 13(16Q22.1) WILD-TYPE"   "AMP PEAK 13(16Q22.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 13(16Q22.1) WILD-TYPE" "AMP PEAK 13(16Q22.1) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 13(16Q22.1) WILD-TYPE" 
[1] "hr=" "2.1"
D13V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 13(16Q22.1) MUTATED         2        7         2        5
  AMP PEAK 13(16Q22.1) WILD-TYPE       2        6         2        3
D13V3, multiclass
           clus
vv          AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE
  STAGE I                              2                              2
  STAGE II                             7                              6
  STAGE III                            2                              2
  STAGE IV                             5                              3
                                vv
clus                             T1 T2+T3 T4
  AMP PEAK 13(16Q22.1) MUTATED    2     9  5
  AMP PEAK 13(16Q22.1) WILD-TYPE  2     7  4
D13V4, multiclass
       clus
vv      AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE
  T1                               2                              2
  T2+T3                            9                              7
  T4                               5                              4
D13V5, binary
                                cls
clus                              0  1
  AMP PEAK 13(16Q22.1) MUTATED   13  3
  AMP PEAK 13(16Q22.1) WILD-TYPE 13  1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(16Q22.1) MUTATED     13    3
  AMP PEAK 13(16Q22.1) WILD-TYPE   13    1
   clus
vv  AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE
  0                           13                             13
  1                            3                              1
D13V6, binary
                                cls
clus                              0  1
  AMP PEAK 13(16Q22.1) MUTATED    6 11
  AMP PEAK 13(16Q22.1) WILD-TYPE 11  5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(16Q22.1) MUTATED      6   11
  AMP PEAK 13(16Q22.1) WILD-TYPE   11    5
        clus
vv       AMP PEAK 13(16Q22.1) MUTATED AMP PEAK 13(16Q22.1) WILD-TYPE
  FEMALE                            6                             11
  MALE                             11                              5

Clustering(14) Variable = AMP PEAK 14(16Q24.2) MUTATION ANALYSIS
D14V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 14(16Q24.2) MUTATED   14  3
  AMP PEAK 14(16Q24.2) WILD-TYPE 11  5
  AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE 
                            17                             16 
  AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE 
                             3                              5 
$`AMP PEAK 14(16Q24.2) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JX 
       41.26        22.16       121.25        16.04        50.66        31.23 
TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OU-A5PI 
        6.94        89.52        93.44        17.36        23.31 

$`AMP PEAK 14(16Q24.2) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JW 
       18.12        22.03        18.48        29.23        12.59        63.25 
TCGA-OR-A5JY TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       18.15        33.83        32.68         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        10.09        27.29        42.51 

  AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE 
                          6.94                           8.32 
  AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE 
                        121.25                          73.05 
  AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE 
                         31.23                          24.66 
[1] "6.9 - 121.2 (31.2)" "8.3 - 73.0 (24.7)" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 14(16Q24.2) MUTATED" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"AMP PEAK 14(16Q24.2) WILD-TYPE" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 14(16Q24.2) MUTATED" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 14(16Q24.2) MUTATED" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 14(16Q24.2) WILD-TYPE" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 14(16Q24.2) WILD-TYPE" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 14(16Q24.2) MUTATED" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"AMP PEAK 14(16Q24.2) WILD-TYPE" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 14(16Q24.2) MUTATED" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 14(16Q24.2) MUTATED" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 14(16Q24.2) WILD-TYPE" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 14(16Q24.2) WILD-TYPE" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 14(16Q24.2) MUTATED" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"AMP PEAK 14(16Q24.2) WILD-TYPE" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 14(16Q24.2) MUTATED" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 14(16Q24.2) MUTATED"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 14(16Q24.2) MUTATED" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 14(16Q24.2) WILD-TYPE" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 14(16Q24.2) WILD-TYPE"   "AMP PEAK 14(16Q24.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 14(16Q24.2) WILD-TYPE" "AMP PEAK 14(16Q24.2) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 14(16Q24.2) WILD-TYPE" 
[1] "hr=" "2.1"
D14V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 14(16Q24.2) MUTATED         2        7         2        5
  AMP PEAK 14(16Q24.2) WILD-TYPE       2        6         2        3
D14V3, multiclass
           clus
vv          AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE
  STAGE I                              2                              2
  STAGE II                             7                              6
  STAGE III                            2                              2
  STAGE IV                             5                              3
                                vv
clus                             T1 T2+T3 T4
  AMP PEAK 14(16Q24.2) MUTATED    2     9  5
  AMP PEAK 14(16Q24.2) WILD-TYPE  2     7  4
D14V4, multiclass
       clus
vv      AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE
  T1                               2                              2
  T2+T3                            9                              7
  T4                               5                              4
D14V5, binary
                                cls
clus                              0  1
  AMP PEAK 14(16Q24.2) MUTATED   13  3
  AMP PEAK 14(16Q24.2) WILD-TYPE 13  1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(16Q24.2) MUTATED     13    3
  AMP PEAK 14(16Q24.2) WILD-TYPE   13    1
   clus
vv  AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE
  0                           13                             13
  1                            3                              1
D14V6, binary
                                cls
clus                              0  1
  AMP PEAK 14(16Q24.2) MUTATED    6 11
  AMP PEAK 14(16Q24.2) WILD-TYPE 11  5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(16Q24.2) MUTATED      6   11
  AMP PEAK 14(16Q24.2) WILD-TYPE   11    5
        clus
vv       AMP PEAK 14(16Q24.2) MUTATED AMP PEAK 14(16Q24.2) WILD-TYPE
  FEMALE                            6                             11
  MALE                             11                              5

Clustering(15) Variable = AMP PEAK 15(17Q25.3) MUTATION ANALYSIS
D15V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 15(17Q25.3) MUTATED    3  2
  AMP PEAK 15(17Q25.3) WILD-TYPE 22  6
  AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE 
                             5                             28 
  AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE 
                             2                              6 
$`AMP PEAK 15(17Q25.3) MUTATED`
TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JY TCGA-OR-A5K6 TCGA-PK-A5HA 
       18.48        22.16        18.15        37.15        27.29 

$`AMP PEAK 15(17Q25.3) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS 
       10.16        41.26        22.03        29.23       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K0 
       16.04        50.66        63.25        31.23         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 
       89.52        32.68        93.44        17.36         8.32        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HB 
       73.05        23.31        10.09        42.51 

  AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE 
                         18.15                           6.94 
  AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE 
                         37.15                         121.25 
  AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE 
                         22.16                          30.77 
[1] "18.1 - 37.1 (22.2)" "6.9 - 121.2 (30.8)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"AMP PEAK 15(17Q25.3) WILD-TYPE"   "AMP PEAK 15(17Q25.3) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 15(17Q25.3) WILD-TYPE"   "AMP PEAK 15(17Q25.3) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK 15(17Q25.3) MUTATED" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "AMP PEAK 15(17Q25.3) MUTATED" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 15(17Q25.3) WILD-TYPE"   "AMP PEAK 15(17Q25.3) MUTATED" 
                    TCGA-PK-A5HB 
"AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"AMP PEAK 15(17Q25.3) WILD-TYPE"   "AMP PEAK 15(17Q25.3) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 15(17Q25.3) WILD-TYPE"   "AMP PEAK 15(17Q25.3) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK 15(17Q25.3) MUTATED" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "AMP PEAK 15(17Q25.3) MUTATED" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 15(17Q25.3) WILD-TYPE"   "AMP PEAK 15(17Q25.3) MUTATED" 
                    TCGA-PK-A5HB 
"AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"AMP PEAK 15(17Q25.3) WILD-TYPE"   "AMP PEAK 15(17Q25.3) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 15(17Q25.3) WILD-TYPE"   "AMP PEAK 15(17Q25.3) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK 15(17Q25.3) MUTATED" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "AMP PEAK 15(17Q25.3) MUTATED" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 15(17Q25.3) WILD-TYPE" "AMP PEAK 15(17Q25.3) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 15(17Q25.3) WILD-TYPE"   "AMP PEAK 15(17Q25.3) MUTATED" 
                    TCGA-PK-A5HB 
"AMP PEAK 15(17Q25.3) WILD-TYPE" 
[1] "hr=" "2.2"
D15V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 15(17Q25.3) MUTATED         0        2         0        2
  AMP PEAK 15(17Q25.3) WILD-TYPE       4       11         4        6
D15V3, multiclass
           clus
vv          AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE
  STAGE I                              0                              4
  STAGE II                             2                             11
  STAGE III                            0                              4
  STAGE IV                             2                              6
                                vv
clus                             T1 T2+T3 T4
  AMP PEAK 15(17Q25.3) MUTATED    0     2  2
  AMP PEAK 15(17Q25.3) WILD-TYPE  4    14  7
D15V4, multiclass
       clus
vv      AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE
  T1                               0                              4
  T2+T3                            2                             14
  T4                               2                              7
D15V5, binary
                                cls
clus                              0  1
  AMP PEAK 15(17Q25.3) MUTATED    4  1
  AMP PEAK 15(17Q25.3) WILD-TYPE 22  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 15(17Q25.3) MUTATED      4    1
  AMP PEAK 15(17Q25.3) WILD-TYPE   22    3
   clus
vv  AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE
  0                            4                             22
  1                            1                              3
D15V6, binary
                                cls
clus                              0  1
  AMP PEAK 15(17Q25.3) MUTATED    4  1
  AMP PEAK 15(17Q25.3) WILD-TYPE 13 15
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 15(17Q25.3) MUTATED      4    1
  AMP PEAK 15(17Q25.3) WILD-TYPE   13   15
        clus
vv       AMP PEAK 15(17Q25.3) MUTATED AMP PEAK 15(17Q25.3) WILD-TYPE
  FEMALE                            4                             13
  MALE                              1                             15

Clustering(16) Variable = AMP PEAK 16(19P13.12) MUTATION ANALYSIS
D16V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 16(19P13.12) MUTATED   13  6
  AMP PEAK 16(19P13.12) WILD-TYPE 12  2
  AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE 
                             19                              14 
  AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE 
                              6                               2 
$`AMP PEAK 16(19P13.12) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JV TCGA-OR-A5JX 
       41.26        18.48        22.16       121.25        50.66        31.23 
TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK 
       33.83        32.68        93.44         8.32        11.31        73.05 
TCGA-OU-A5PI 
       23.31 

$`AMP PEAK 16(19P13.12) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JW 
       18.12        22.03        29.23        12.59        16.04        63.25 
TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K4 TCGA-OR-A5K6 TCGA-PK-A5H9 
       18.15         6.94        89.52        17.36        37.15        10.09 
TCGA-PK-A5HA TCGA-PK-A5HB 
       27.29        42.51 

  AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE 
                           8.32                            6.94 
  AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE 
                         121.25                           89.52 
  AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE 
                          32.68                           20.09 
[1] "8.3 - 121.2 (32.7)" "6.9 - 89.5 (20.1)" 
                     TCGA-OR-A5JA                      TCGA-OR-A5JB 
  "AMP PEAK 16(19P13.12) MUTATED" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5JC                      TCGA-OR-A5JF 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JG                      TCGA-OR-A5JI 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JJ                      TCGA-OR-A5JK 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JL                      TCGA-OR-A5JM 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JO                      TCGA-OR-A5JQ 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JR                      TCGA-OR-A5JS 
  "AMP PEAK 16(19P13.12) MUTATED" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5JT                      TCGA-OR-A5JV 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JW                      TCGA-OR-A5JX 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JY                      TCGA-OR-A5JZ 
"AMP PEAK 16(19P13.12) WILD-TYPE" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5K0                      TCGA-OR-A5K1 
  "AMP PEAK 16(19P13.12) MUTATED" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5K2                      TCGA-OR-A5K3 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5K4                      TCGA-OR-A5K5 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5K6                      TCGA-OR-A5K9 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5LK                      TCGA-OU-A5PI 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-PK-A5H9                      TCGA-PK-A5HA 
"AMP PEAK 16(19P13.12) WILD-TYPE" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-PK-A5HB 
"AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5JA                      TCGA-OR-A5JB 
  "AMP PEAK 16(19P13.12) MUTATED" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5JC                      TCGA-OR-A5JF 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JG                      TCGA-OR-A5JI 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JJ                      TCGA-OR-A5JK 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JL                      TCGA-OR-A5JM 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JO                      TCGA-OR-A5JQ 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JR                      TCGA-OR-A5JS 
  "AMP PEAK 16(19P13.12) MUTATED" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5JT                      TCGA-OR-A5JV 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JW                      TCGA-OR-A5JX 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JY                      TCGA-OR-A5JZ 
"AMP PEAK 16(19P13.12) WILD-TYPE" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5K0                      TCGA-OR-A5K1 
  "AMP PEAK 16(19P13.12) MUTATED" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5K2                      TCGA-OR-A5K3 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5K4                      TCGA-OR-A5K5 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5K6                      TCGA-OR-A5K9 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5LK                      TCGA-OU-A5PI 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-PK-A5H9                      TCGA-PK-A5HA 
"AMP PEAK 16(19P13.12) WILD-TYPE" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-PK-A5HB 
"AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5JA                      TCGA-OR-A5JB 
  "AMP PEAK 16(19P13.12) MUTATED" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5JC                      TCGA-OR-A5JF 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JG                      TCGA-OR-A5JI 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JJ                      TCGA-OR-A5JK 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JL                      TCGA-OR-A5JM 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JO                      TCGA-OR-A5JQ 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JR                      TCGA-OR-A5JS 
  "AMP PEAK 16(19P13.12) MUTATED" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5JT                      TCGA-OR-A5JV 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JW                      TCGA-OR-A5JX 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5JY                      TCGA-OR-A5JZ 
"AMP PEAK 16(19P13.12) WILD-TYPE" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5K0                      TCGA-OR-A5K1 
  "AMP PEAK 16(19P13.12) MUTATED" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-OR-A5K2                      TCGA-OR-A5K3 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5K4                      TCGA-OR-A5K5 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5K6                      TCGA-OR-A5K9 
"AMP PEAK 16(19P13.12) WILD-TYPE"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-OR-A5LK                      TCGA-OU-A5PI 
  "AMP PEAK 16(19P13.12) MUTATED"   "AMP PEAK 16(19P13.12) MUTATED" 
                     TCGA-PK-A5H9                      TCGA-PK-A5HA 
"AMP PEAK 16(19P13.12) WILD-TYPE" "AMP PEAK 16(19P13.12) WILD-TYPE" 
                     TCGA-PK-A5HB 
"AMP PEAK 16(19P13.12) WILD-TYPE" 
[1] "hr=" "1.5"
D16V2, continuous
                                 vv
clus                              STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 16(19P13.12) MUTATED         2        7         3        6
  AMP PEAK 16(19P13.12) WILD-TYPE       2        6         1        2
D16V3, multiclass
           clus
vv          AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE
  STAGE I                               2                               2
  STAGE II                              7                               6
  STAGE III                             3                               1
  STAGE IV                              6                               2
                                 vv
clus                              T1 T2+T3 T4
  AMP PEAK 16(19P13.12) MUTATED    2    10  6
  AMP PEAK 16(19P13.12) WILD-TYPE  2     6  3
D16V4, multiclass
       clus
vv      AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE
  T1                                2                               2
  T2+T3                            10                               6
  T4                                6                               3
D16V5, binary
                                 cls
clus                               0  1
  AMP PEAK 16(19P13.12) MUTATED   15  3
  AMP PEAK 16(19P13.12) WILD-TYPE 11  1
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 16(19P13.12) MUTATED     15    3
  AMP PEAK 16(19P13.12) WILD-TYPE   11    1
   clus
vv  AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE
  0                            15                              11
  1                             3                               1
D16V6, binary
                                 cls
clus                               0  1
  AMP PEAK 16(19P13.12) MUTATED    9 10
  AMP PEAK 16(19P13.12) WILD-TYPE  8  6
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 16(19P13.12) MUTATED      9   10
  AMP PEAK 16(19P13.12) WILD-TYPE    8    6
        clus
vv       AMP PEAK 16(19P13.12) MUTATED AMP PEAK 16(19P13.12) WILD-TYPE
  FEMALE                             9                               8
  MALE                              10                               6

Clustering(17) Variable = AMP PEAK 17(19Q12) MUTATION ANALYSIS
D17V1, survival
                              sevent
clus2                           0  1
  AMP PEAK 17(19Q12) MUTATED   12  6
  AMP PEAK 17(19Q12) WILD-TYPE 13  2
  AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE 
                          18                           15 
  AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE 
                           6                            2 
$`AMP PEAK 17(19Q12) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JV TCGA-OR-A5JX 
       41.26        18.48        22.16       121.25        50.66        31.23 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI 
       32.68        93.44         8.32        11.31        73.05        23.31 

$`AMP PEAK 17(19Q12) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JW 
       18.12        22.03        29.23        12.59        16.04        63.25 
TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K4 TCGA-OR-A5K6 
       18.15         6.94        33.83        89.52        17.36        37.15 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE 
                        8.32                         6.94 
  AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE 
                      121.25                        89.52 
  AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE 
                      31.955                       22.030 
[1] "8.3 - 121.2 (32.0)" "6.9 - 89.5 (22.0)" 
                  TCGA-OR-A5JA                   TCGA-OR-A5JB 
  "AMP PEAK 17(19Q12) MUTATED" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5JC                   TCGA-OR-A5JF 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JG                   TCGA-OR-A5JI 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JJ                   TCGA-OR-A5JK 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JL                   TCGA-OR-A5JM 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JO                   TCGA-OR-A5JQ 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JR                   TCGA-OR-A5JS 
  "AMP PEAK 17(19Q12) MUTATED" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5JT                   TCGA-OR-A5JV 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JW                   TCGA-OR-A5JX 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JY                   TCGA-OR-A5JZ 
"AMP PEAK 17(19Q12) WILD-TYPE" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5K0                   TCGA-OR-A5K1 
"AMP PEAK 17(19Q12) WILD-TYPE" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5K2                   TCGA-OR-A5K3 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5K4                   TCGA-OR-A5K5 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5K6                   TCGA-OR-A5K9 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5LK                   TCGA-OU-A5PI 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-PK-A5H9                   TCGA-PK-A5HA 
"AMP PEAK 17(19Q12) WILD-TYPE" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-PK-A5HB 
"AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5JA                   TCGA-OR-A5JB 
  "AMP PEAK 17(19Q12) MUTATED" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5JC                   TCGA-OR-A5JF 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JG                   TCGA-OR-A5JI 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JJ                   TCGA-OR-A5JK 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JL                   TCGA-OR-A5JM 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JO                   TCGA-OR-A5JQ 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JR                   TCGA-OR-A5JS 
  "AMP PEAK 17(19Q12) MUTATED" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5JT                   TCGA-OR-A5JV 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JW                   TCGA-OR-A5JX 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JY                   TCGA-OR-A5JZ 
"AMP PEAK 17(19Q12) WILD-TYPE" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5K0                   TCGA-OR-A5K1 
"AMP PEAK 17(19Q12) WILD-TYPE" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5K2                   TCGA-OR-A5K3 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5K4                   TCGA-OR-A5K5 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5K6                   TCGA-OR-A5K9 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5LK                   TCGA-OU-A5PI 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-PK-A5H9                   TCGA-PK-A5HA 
"AMP PEAK 17(19Q12) WILD-TYPE" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-PK-A5HB 
"AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5JA                   TCGA-OR-A5JB 
  "AMP PEAK 17(19Q12) MUTATED" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5JC                   TCGA-OR-A5JF 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JG                   TCGA-OR-A5JI 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JJ                   TCGA-OR-A5JK 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JL                   TCGA-OR-A5JM 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JO                   TCGA-OR-A5JQ 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JR                   TCGA-OR-A5JS 
  "AMP PEAK 17(19Q12) MUTATED" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5JT                   TCGA-OR-A5JV 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JW                   TCGA-OR-A5JX 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5JY                   TCGA-OR-A5JZ 
"AMP PEAK 17(19Q12) WILD-TYPE" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5K0                   TCGA-OR-A5K1 
"AMP PEAK 17(19Q12) WILD-TYPE" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-OR-A5K2                   TCGA-OR-A5K3 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5K4                   TCGA-OR-A5K5 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5K6                   TCGA-OR-A5K9 
"AMP PEAK 17(19Q12) WILD-TYPE"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-OR-A5LK                   TCGA-OU-A5PI 
  "AMP PEAK 17(19Q12) MUTATED"   "AMP PEAK 17(19Q12) MUTATED" 
                  TCGA-PK-A5H9                   TCGA-PK-A5HA 
"AMP PEAK 17(19Q12) WILD-TYPE" "AMP PEAK 17(19Q12) WILD-TYPE" 
                  TCGA-PK-A5HB 
"AMP PEAK 17(19Q12) WILD-TYPE" 
[1] "hr=" "1.8"
D17V2, continuous
                              vv
clus                           STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 17(19Q12) MUTATED         2        6         3        6
  AMP PEAK 17(19Q12) WILD-TYPE       2        7         1        2
D17V3, multiclass
           clus
vv          AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE
  STAGE I                            2                            2
  STAGE II                           6                            7
  STAGE III                          3                            1
  STAGE IV                           6                            2
                              vv
clus                           T1 T2+T3 T4
  AMP PEAK 17(19Q12) MUTATED    2     9  6
  AMP PEAK 17(19Q12) WILD-TYPE  2     7  3
D17V4, multiclass
       clus
vv      AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE
  T1                             2                            2
  T2+T3                          9                            7
  T4                             6                            3
D17V5, binary
                              cls
clus                            0  1
  AMP PEAK 17(19Q12) MUTATED   14  3
  AMP PEAK 17(19Q12) WILD-TYPE 12  1
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 17(19Q12) MUTATED     14    3
  AMP PEAK 17(19Q12) WILD-TYPE   12    1
   clus
vv  AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE
  0                         14                           12
  1                          3                            1
D17V6, binary
                              cls
clus                            0  1
  AMP PEAK 17(19Q12) MUTATED    8 10
  AMP PEAK 17(19Q12) WILD-TYPE  9  6
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 17(19Q12) MUTATED      8   10
  AMP PEAK 17(19Q12) WILD-TYPE    9    6
        clus
vv       AMP PEAK 17(19Q12) MUTATED AMP PEAK 17(19Q12) WILD-TYPE
  FEMALE                          8                            9
  MALE                           10                            6

Clustering(18) Variable = AMP PEAK 18(XP11.22) MUTATION ANALYSIS
D18V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 18(XP11.22) MUTATED   10  2
  AMP PEAK 18(XP11.22) WILD-TYPE 15  6
  AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE 
                            12                             21 
  AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE 
                             2                              6 
$`AMP PEAK 18(XP11.22) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JF TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JR TCGA-OR-A5JT 
       30.31        41.39        10.16        22.03       121.25        16.04 
TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 
       18.15         6.94        33.83        89.52        93.44        17.36 

$`AMP PEAK 18(XP11.22) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JM 
       18.12        57.53        17.79        46.82        41.26        18.48 
TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JS TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX 
       29.23        22.16        12.59        50.66        63.25        31.23 
TCGA-OR-A5K2 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI 
       32.68         8.32        37.15        11.31        73.05        23.31 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE 
                          6.94                           8.32 
  AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE 
                        121.25                          73.05 
  AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE 
                         26.17                          29.23 
[1] "6.9 - 121.2 (26.2)" "8.3 - 73.0 (29.2)" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"AMP PEAK 18(XP11.22) WILD-TYPE"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK 18(XP11.22) MUTATED"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "AMP PEAK 18(XP11.22) MUTATED"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 18(XP11.22) WILD-TYPE"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"AMP PEAK 18(XP11.22) WILD-TYPE"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK 18(XP11.22) MUTATED"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "AMP PEAK 18(XP11.22) MUTATED"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 18(XP11.22) WILD-TYPE"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"AMP PEAK 18(XP11.22) WILD-TYPE"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "AMP PEAK 18(XP11.22) MUTATED"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "AMP PEAK 18(XP11.22) MUTATED"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"AMP PEAK 18(XP11.22) WILD-TYPE"   "AMP PEAK 18(XP11.22) MUTATED" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
  "AMP PEAK 18(XP11.22) MUTATED" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"AMP PEAK 18(XP11.22) WILD-TYPE" "AMP PEAK 18(XP11.22) WILD-TYPE" 
                    TCGA-PK-A5HB 
"AMP PEAK 18(XP11.22) WILD-TYPE" 
[1] "hr=" "1.7"
D18V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 18(XP11.22) MUTATED         2        6         1        3
  AMP PEAK 18(XP11.22) WILD-TYPE       2        7         3        5
D18V3, multiclass
           clus
vv          AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE
  STAGE I                              2                              2
  STAGE II                             6                              7
  STAGE III                            1                              3
  STAGE IV                             3                              5
                                vv
clus                             T1 T2+T3 T4
  AMP PEAK 18(XP11.22) MUTATED    2     6  4
  AMP PEAK 18(XP11.22) WILD-TYPE  2    10  5
D18V4, multiclass
       clus
vv      AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE
  T1                               2                              2
  T2+T3                            6                             10
  T4                               4                              5
D18V5, binary
                                cls
clus                              0  1
  AMP PEAK 18(XP11.22) MUTATED   10  2
  AMP PEAK 18(XP11.22) WILD-TYPE 16  2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(XP11.22) MUTATED     10    2
  AMP PEAK 18(XP11.22) WILD-TYPE   16    2
   clus
vv  AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE
  0                           10                             16
  1                            2                              2
D18V6, binary
                                cls
clus                              0  1
  AMP PEAK 18(XP11.22) MUTATED    7  5
  AMP PEAK 18(XP11.22) WILD-TYPE 10 11
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(XP11.22) MUTATED      7    5
  AMP PEAK 18(XP11.22) WILD-TYPE   10   11
        clus
vv       AMP PEAK 18(XP11.22) MUTATED AMP PEAK 18(XP11.22) WILD-TYPE
  FEMALE                            7                             10
  MALE                              5                             11

Clustering(19) Variable = AMP PEAK 19(XQ28) MUTATION ANALYSIS
D19V1, survival
                             sevent
clus2                          0  1
  AMP PEAK 19(XQ28) MUTATED   12  1
  AMP PEAK 19(XQ28) WILD-TYPE 13  7
  AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE 
                         13                          20 
  AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE 
                          1                           7 
$`AMP PEAK 19(XQ28) MUTATED`
TCGA-OR-A5JF TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JY 
       41.39        10.16        22.03       121.25        16.04        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5LK 
        6.94        89.52        93.44        17.36         8.32        73.05 
TCGA-PK-A5HB 
       42.51 

$`AMP PEAK 19(XQ28) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JK 
       30.31        18.12        57.53        17.79        46.82        41.26 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JS TCGA-OR-A5JV TCGA-OR-A5JW 
       18.48        29.23        22.16        12.59        50.66        63.25 
TCGA-OR-A5JX TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OU-A5PI 
       31.23        33.83        32.68        37.15        11.31        23.31 
TCGA-PK-A5H9 TCGA-PK-A5HA 
       10.09        27.29 

  AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE 
                       6.94                       10.09 
  AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE 
                     121.25                       63.25 
  AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE 
                      22.03                       29.77 
[1] "6.9 - 121.2 (22.0)" "10.1 - 63.2 (29.8)"
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
"AMP PEAK 19(XQ28) WILD-TYPE"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "AMP PEAK 19(XQ28) MUTATED"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
"AMP PEAK 19(XQ28) WILD-TYPE"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
"AMP PEAK 19(XQ28) WILD-TYPE"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
  "AMP PEAK 19(XQ28) MUTATED"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-PK-A5HB 
  "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
"AMP PEAK 19(XQ28) WILD-TYPE"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "AMP PEAK 19(XQ28) MUTATED"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
"AMP PEAK 19(XQ28) WILD-TYPE"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
"AMP PEAK 19(XQ28) WILD-TYPE"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
  "AMP PEAK 19(XQ28) MUTATED"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-PK-A5HB 
  "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
"AMP PEAK 19(XQ28) WILD-TYPE"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "AMP PEAK 19(XQ28) MUTATED"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
"AMP PEAK 19(XQ28) WILD-TYPE"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
"AMP PEAK 19(XQ28) WILD-TYPE"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
  "AMP PEAK 19(XQ28) MUTATED"   "AMP PEAK 19(XQ28) MUTATED" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
  "AMP PEAK 19(XQ28) MUTATED" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"AMP PEAK 19(XQ28) WILD-TYPE" "AMP PEAK 19(XQ28) WILD-TYPE" 
                 TCGA-PK-A5HB 
  "AMP PEAK 19(XQ28) MUTATED" 
[1] "hr=" "4.9"
D19V2, continuous
                             vv
clus                          STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 19(XQ28) MUTATED         2        6         2        2
  AMP PEAK 19(XQ28) WILD-TYPE       2        7         2        6
D19V3, multiclass
           clus
vv          AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE
  STAGE I                           2                           2
  STAGE II                          6                           7
  STAGE III                         2                           2
  STAGE IV                          2                           6
                             vv
clus                          T1 T2+T3 T4
  AMP PEAK 19(XQ28) MUTATED    2     7  3
  AMP PEAK 19(XQ28) WILD-TYPE  2     9  6
D19V4, multiclass
       clus
vv      AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE
  T1                            2                           2
  T2+T3                         7                           9
  T4                            3                           6
D19V5, binary
                             cls
clus                           0  1
  AMP PEAK 19(XQ28) MUTATED   10  2
  AMP PEAK 19(XQ28) WILD-TYPE 16  2
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 19(XQ28) MUTATED     10    2
  AMP PEAK 19(XQ28) WILD-TYPE   16    2
   clus
vv  AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE
  0                        10                          16
  1                         2                           2
D19V6, binary
                             cls
clus                           0  1
  AMP PEAK 19(XQ28) MUTATED    6  7
  AMP PEAK 19(XQ28) WILD-TYPE 11  9
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 19(XQ28) MUTATED      6    7
  AMP PEAK 19(XQ28) WILD-TYPE   11    9
        clus
vv       AMP PEAK 19(XQ28) MUTATED AMP PEAK 19(XQ28) WILD-TYPE
  FEMALE                         6                          11
  MALE                           7                           9

Clustering(20) Variable = DEL PEAK  1(1P36.23) MUTATION ANALYSIS
D20V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  1(1P36.23) MUTATED   12  5
  DEL PEAK  1(1P36.23) WILD-TYPE 13  3
  DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE 
                            17                             16 
  DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE 
                             5                              3 
$`DEL PEAK  1(1P36.23) MUTATED`
TCGA-OR-A5JC TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JQ 
       57.53        46.82        10.16        41.26        18.48        22.16 
TCGA-OR-A5JS TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5K2 
       12.59        50.66        63.25        31.23        18.15        32.68 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5HA 
        8.32        37.15        11.31        23.31        27.29 

$`DEL PEAK  1(1P36.23) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JL TCGA-OR-A5JO 
       30.31        18.12        41.39        17.79        22.03        29.23 
TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 
      121.25        16.04         6.94        33.83        89.52        93.44 
TCGA-OR-A5K4 TCGA-OR-A5LK TCGA-PK-A5H9 TCGA-PK-A5HB 
       17.36        73.05        10.09        42.51 

  DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE 
                          8.32                           6.94 
  DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE 
                         63.25                         121.25 
  DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE 
                         27.29                          29.77 
[1] "8.3 - 63.2 (27.3)"  "6.9 - 121.2 (29.8)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"DEL PEAK  1(1P36.23) WILD-TYPE" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK  1(1P36.23) MUTATED" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "DEL PEAK  1(1P36.23) MUTATED"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK  1(1P36.23) MUTATED"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK  1(1P36.23) MUTATED" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK  1(1P36.23) WILD-TYPE" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK  1(1P36.23) MUTATED" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK  1(1P36.23) MUTATED"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-PK-A5HB 
"DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"DEL PEAK  1(1P36.23) WILD-TYPE" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK  1(1P36.23) MUTATED" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "DEL PEAK  1(1P36.23) MUTATED"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK  1(1P36.23) MUTATED"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK  1(1P36.23) MUTATED" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK  1(1P36.23) WILD-TYPE" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK  1(1P36.23) MUTATED" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK  1(1P36.23) MUTATED"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-PK-A5HB 
"DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"DEL PEAK  1(1P36.23) WILD-TYPE" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK  1(1P36.23) MUTATED" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
  "DEL PEAK  1(1P36.23) MUTATED"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK  1(1P36.23) MUTATED"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK  1(1P36.23) MUTATED" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK  1(1P36.23) WILD-TYPE" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK  1(1P36.23) MUTATED" "DEL PEAK  1(1P36.23) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK  1(1P36.23) MUTATED"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK  1(1P36.23) WILD-TYPE"   "DEL PEAK  1(1P36.23) MUTATED" 
                    TCGA-PK-A5HB 
"DEL PEAK  1(1P36.23) WILD-TYPE" 
[1] "hr=" "1.7"
D20V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  1(1P36.23) MUTATED         1        6         3        5
  DEL PEAK  1(1P36.23) WILD-TYPE       3        7         1        3
D20V3, multiclass
           clus
vv          DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE
  STAGE I                              1                              3
  STAGE II                             6                              7
  STAGE III                            3                              1
  STAGE IV                             5                              3
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK  1(1P36.23) MUTATED    1     9  5
  DEL PEAK  1(1P36.23) WILD-TYPE  3     7  4
D20V4, multiclass
       clus
vv      DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE
  T1                               1                              3
  T2+T3                            9                              7
  T4                               5                              4
D20V5, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.23) MUTATED   13  3
  DEL PEAK  1(1P36.23) WILD-TYPE 13  1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.23) MUTATED     13    3
  DEL PEAK  1(1P36.23) WILD-TYPE   13    1
   clus
vv  DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE
  0                           13                             13
  1                            3                              1
D20V6, binary
                                cls
clus                             0 1
  DEL PEAK  1(1P36.23) MUTATED   9 8
  DEL PEAK  1(1P36.23) WILD-TYPE 8 8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.23) MUTATED      9    8
  DEL PEAK  1(1P36.23) WILD-TYPE    8    8
        clus
vv       DEL PEAK  1(1P36.23) MUTATED DEL PEAK  1(1P36.23) WILD-TYPE
  FEMALE                            9                              8
  MALE                              8                              8

Clustering(21) Variable = DEL PEAK  2(1Q43) MUTATION ANALYSIS
D21V1, survival
                             sevent
clus2                          0  1
  DEL PEAK  2(1Q43) MUTATED    6  3
  DEL PEAK  2(1Q43) WILD-TYPE 19  5
  DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE 
                          9                          24 
  DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE 
                          3                           5 
$`DEL PEAK  2(1Q43) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JI TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JW 
       30.31        57.53        46.82        22.03        22.16        63.25 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OU-A5PI 
       31.23        18.15        23.31 

$`DEL PEAK  2(1Q43) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JM 
       18.12        41.39        17.79        10.16        41.26        18.48 
TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JZ 
       29.23       121.25        12.59        16.04        50.66         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       37.15        11.31        73.05        10.09        27.29        42.51 

  DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE 
                      18.15                        6.94 
  DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE 
                      63.25                      121.25 
  DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE 
                      30.31                       28.26 
[1] "18.1 - 63.2 (30.3)" "6.9 - 121.2 (28.3)"
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"DEL PEAK  2(1Q43) WILD-TYPE"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"DEL PEAK  2(1Q43) WILD-TYPE"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
  "DEL PEAK  2(1Q43) MUTATED"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"DEL PEAK  2(1Q43) WILD-TYPE"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-PK-A5HB 
"DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"DEL PEAK  2(1Q43) WILD-TYPE"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"DEL PEAK  2(1Q43) WILD-TYPE"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
  "DEL PEAK  2(1Q43) MUTATED"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"DEL PEAK  2(1Q43) WILD-TYPE"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-PK-A5HB 
"DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"DEL PEAK  2(1Q43) WILD-TYPE"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"DEL PEAK  2(1Q43) WILD-TYPE"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
  "DEL PEAK  2(1Q43) MUTATED"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "DEL PEAK  2(1Q43) MUTATED" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"DEL PEAK  2(1Q43) WILD-TYPE"   "DEL PEAK  2(1Q43) MUTATED" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"DEL PEAK  2(1Q43) WILD-TYPE" "DEL PEAK  2(1Q43) WILD-TYPE" 
                 TCGA-PK-A5HB 
"DEL PEAK  2(1Q43) WILD-TYPE" 
[1] "hr=" "1.2"
D21V2, continuous
                             vv
clus                          STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  2(1Q43) MUTATED         2        2         1        3
  DEL PEAK  2(1Q43) WILD-TYPE       2       11         3        5
D21V3, multiclass
           clus
vv          DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE
  STAGE I                           2                           2
  STAGE II                          2                          11
  STAGE III                         1                           3
  STAGE IV                          3                           5
                             vv
clus                          T1 T2+T3 T4
  DEL PEAK  2(1Q43) MUTATED    2     4  2
  DEL PEAK  2(1Q43) WILD-TYPE  2    12  7
D21V4, multiclass
       clus
vv      DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE
  T1                            2                           2
  T2+T3                         4                          12
  T4                            2                           7
D21V5, binary
                             cls
clus                           0  1
  DEL PEAK  2(1Q43) MUTATED    6  2
  DEL PEAK  2(1Q43) WILD-TYPE 20  2
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  2(1Q43) MUTATED      6    2
  DEL PEAK  2(1Q43) WILD-TYPE   20    2
   clus
vv  DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE
  0                         6                          20
  1                         2                           2
D21V6, binary
                             cls
clus                           0  1
  DEL PEAK  2(1Q43) MUTATED    5  4
  DEL PEAK  2(1Q43) WILD-TYPE 12 12
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  2(1Q43) MUTATED      5    4
  DEL PEAK  2(1Q43) WILD-TYPE   12   12
        clus
vv       DEL PEAK  2(1Q43) MUTATED DEL PEAK  2(1Q43) WILD-TYPE
  FEMALE                         5                          12
  MALE                           4                          12

Clustering(22) Variable = DEL PEAK  3(2Q22.1) MUTATION ANALYSIS
D22V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  3(2Q22.1) MUTATED    9  3
  DEL PEAK  3(2Q22.1) WILD-TYPE 16  5
  DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE 
                           12                            21 
  DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE 
                            3                             5 
$`DEL PEAK  3(2Q22.1) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JS 
       30.31        57.53        41.26        22.03        22.16        12.59 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OU-A5PI TCGA-PK-A5HA 
       50.66        63.25        31.23        18.15        23.31        27.29 

$`DEL PEAK  3(2Q22.1) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JM 
       18.12        41.39        17.79        46.82        10.16        18.48 
TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       29.23       121.25        16.04         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-PK-A5H9 TCGA-PK-A5HB 
       73.05        10.09        42.51 

  DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE 
                        12.59                          6.94 
  DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE 
                        63.25                        121.25 
  DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE 
                        28.80                         29.23 
[1] "12.6 - 63.2 (28.8)" "6.9 - 121.2 (29.2)"
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
  "DEL PEAK  3(2Q22.1) MUTATED"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-PK-A5HB 
"DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
  "DEL PEAK  3(2Q22.1) MUTATED"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-PK-A5HB 
"DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
  "DEL PEAK  3(2Q22.1) MUTATED"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK  3(2Q22.1) MUTATED" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  3(2Q22.1) WILD-TYPE"   "DEL PEAK  3(2Q22.1) MUTATED" 
                   TCGA-PK-A5HB 
"DEL PEAK  3(2Q22.1) WILD-TYPE" 
[1] "hr=" "1.1"
D22V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  3(2Q22.1) MUTATED         1        4         1        4
  DEL PEAK  3(2Q22.1) WILD-TYPE       3        9         3        4
D22V3, multiclass
           clus
vv          DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE
  STAGE I                             1                             3
  STAGE II                            4                             9
  STAGE III                           1                             3
  STAGE IV                            4                             4
                               vv
clus                            T1 T2+T3 T4
  DEL PEAK  3(2Q22.1) MUTATED    1     6  3
  DEL PEAK  3(2Q22.1) WILD-TYPE  3    10  6
D22V4, multiclass
       clus
vv      DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE
  T1                              1                             3
  T2+T3                           6                            10
  T4                              3                             6
D22V5, binary
                               cls
clus                             0  1
  DEL PEAK  3(2Q22.1) MUTATED    9  2
  DEL PEAK  3(2Q22.1) WILD-TYPE 17  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q22.1) MUTATED      9    2
  DEL PEAK  3(2Q22.1) WILD-TYPE   17    2
   clus
vv  DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE
  0                           9                            17
  1                           2                             2
D22V6, binary
                               cls
clus                             0  1
  DEL PEAK  3(2Q22.1) MUTATED    6  6
  DEL PEAK  3(2Q22.1) WILD-TYPE 11 10
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q22.1) MUTATED      6    6
  DEL PEAK  3(2Q22.1) WILD-TYPE   11   10
        clus
vv       DEL PEAK  3(2Q22.1) MUTATED DEL PEAK  3(2Q22.1) WILD-TYPE
  FEMALE                           6                            11
  MALE                             6                            10

Clustering(23) Variable = DEL PEAK  4(2Q37.3) MUTATION ANALYSIS
D23V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  4(2Q37.3) MUTATED   10  2
  DEL PEAK  4(2Q37.3) WILD-TYPE 15  6
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                           12                            21 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                            2                             6 
$`DEL PEAK  4(2Q37.3) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JS 
       30.31        57.53        41.26        22.03        22.16        12.59 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5K0 TCGA-OU-A5PI TCGA-PK-A5HA 
       50.66        63.25        31.23        33.83        23.31        27.29 

$`DEL PEAK  4(2Q37.3) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JM 
       18.12        41.39        17.79        46.82        10.16        18.48 
TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 
       29.23       121.25        16.04        18.15         6.94        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-PK-A5H9 TCGA-PK-A5HB 
       73.05        10.09        42.51 

  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                        12.59                          6.94 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                        63.25                        121.25 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                        30.77                         18.48 
[1] "12.6 - 63.2 (30.8)" "6.9 - 121.2 (18.5)"
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
  "DEL PEAK  4(2Q37.3) MUTATED"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-PK-A5HB 
"DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
  "DEL PEAK  4(2Q37.3) MUTATED"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-PK-A5HB 
"DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
  "DEL PEAK  4(2Q37.3) MUTATED"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK  4(2Q37.3) MUTATED" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  4(2Q37.3) WILD-TYPE"   "DEL PEAK  4(2Q37.3) MUTATED" 
                   TCGA-PK-A5HB 
"DEL PEAK  4(2Q37.3) WILD-TYPE" 
[1] "hr=" "2.3"
D23V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  4(2Q37.3) MUTATED         1        5         1        3
  DEL PEAK  4(2Q37.3) WILD-TYPE       3        8         3        5
D23V3, multiclass
           clus
vv          DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  STAGE I                             1                             3
  STAGE II                            5                             8
  STAGE III                           1                             3
  STAGE IV                            3                             5
                               vv
clus                            T1 T2+T3 T4
  DEL PEAK  4(2Q37.3) MUTATED    1     7  2
  DEL PEAK  4(2Q37.3) WILD-TYPE  3     9  7
D23V4, multiclass
       clus
vv      DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  T1                              1                             3
  T2+T3                           7                             9
  T4                              2                             7
D23V5, binary
                               cls
clus                             0  1
  DEL PEAK  4(2Q37.3) MUTATED   10  1
  DEL PEAK  4(2Q37.3) WILD-TYPE 16  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q37.3) MUTATED     10    1
  DEL PEAK  4(2Q37.3) WILD-TYPE   16    3
   clus
vv  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  0                          10                            16
  1                           1                             3
D23V6, binary
                               cls
clus                             0  1
  DEL PEAK  4(2Q37.3) MUTATED    6  6
  DEL PEAK  4(2Q37.3) WILD-TYPE 11 10
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q37.3) MUTATED      6    6
  DEL PEAK  4(2Q37.3) WILD-TYPE   11   10
        clus
vv       DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  FEMALE                           6                            11
  MALE                             6                            10

Clustering(24) Variable = DEL PEAK  5(3Q13.31) MUTATION ANALYSIS
D24V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  5(3Q13.31) MUTATED    5  5
  DEL PEAK  5(3Q13.31) WILD-TYPE 20  3
  DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE 
                            10                             23 
  DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE 
                             5                              3 
$`DEL PEAK  5(3Q13.31) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JW 
       30.31        57.53        17.79        41.26        22.03        63.25 
TCGA-OR-A5JY TCGA-OR-A5K0 TCGA-OR-A5K9 TCGA-PK-A5HB 
       18.15        33.83        11.31        42.51 

$`DEL PEAK  5(3Q13.31) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JM TCGA-OR-A5JO 
       18.12        41.39        46.82        10.16        18.48        29.23 
TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JX 
       22.16       121.25        12.59        16.04        50.66        31.23 
TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
        6.94        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HA 
       37.15        73.05        23.31        10.09        27.29 

  DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE 
                         11.31                           6.94 
  DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE 
                         63.25                         121.25 
  DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE 
                         32.07                          27.29 
[1] "11.3 - 63.2 (32.1)" "6.9 - 121.2 (27.3)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK  5(3Q13.31) WILD-TYPE"   "DEL PEAK  5(3Q13.31) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK  5(3Q13.31) WILD-TYPE"   "DEL PEAK  5(3Q13.31) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-PK-A5HB 
  "DEL PEAK  5(3Q13.31) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK  5(3Q13.31) WILD-TYPE"   "DEL PEAK  5(3Q13.31) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK  5(3Q13.31) WILD-TYPE"   "DEL PEAK  5(3Q13.31) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-PK-A5HB 
  "DEL PEAK  5(3Q13.31) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK  5(3Q13.31) WILD-TYPE"   "DEL PEAK  5(3Q13.31) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "DEL PEAK  5(3Q13.31) MUTATED" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK  5(3Q13.31) WILD-TYPE"   "DEL PEAK  5(3Q13.31) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK  5(3Q13.31) WILD-TYPE" "DEL PEAK  5(3Q13.31) WILD-TYPE" 
                    TCGA-PK-A5HB 
  "DEL PEAK  5(3Q13.31) MUTATED" 
[1] "hr=" "3.2"
D24V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  5(3Q13.31) MUTATED         1        3         0        4
  DEL PEAK  5(3Q13.31) WILD-TYPE       3       10         4        4
D24V3, multiclass
           clus
vv          DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE
  STAGE I                              1                              3
  STAGE II                             3                             10
  STAGE III                            0                              4
  STAGE IV                             4                              4
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK  5(3Q13.31) MUTATED    1     3  4
  DEL PEAK  5(3Q13.31) WILD-TYPE  3    13  5
D24V4, multiclass
       clus
vv      DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE
  T1                               1                              3
  T2+T3                            3                             13
  T4                               4                              5
D24V5, binary
                                cls
clus                              0  1
  DEL PEAK  5(3Q13.31) MUTATED    6  2
  DEL PEAK  5(3Q13.31) WILD-TYPE 20  2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(3Q13.31) MUTATED      6    2
  DEL PEAK  5(3Q13.31) WILD-TYPE   20    2
   clus
vv  DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE
  0                            6                             20
  1                            2                              2
D24V6, binary
                                cls
clus                              0  1
  DEL PEAK  5(3Q13.31) MUTATED    5  5
  DEL PEAK  5(3Q13.31) WILD-TYPE 12 11
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(3Q13.31) MUTATED      5    5
  DEL PEAK  5(3Q13.31) WILD-TYPE   12   11
        clus
vv       DEL PEAK  5(3Q13.31) MUTATED DEL PEAK  5(3Q13.31) WILD-TYPE
  FEMALE                            5                             12
  MALE                              5                             11

Clustering(25) Variable = DEL PEAK  6(4Q34.3) MUTATION ANALYSIS
D25V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  6(4Q34.3) MUTATED    6  5
  DEL PEAK  6(4Q34.3) WILD-TYPE 19  3
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                           11                            22 
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                            5                             3 
$`DEL PEAK  6(4Q34.3) MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JS TCGA-OR-A5JV TCGA-OR-A5JY 
       18.12        41.26        18.48        12.59        50.66        18.15 
TCGA-OR-A5K2 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-PK-A5HA TCGA-PK-A5HB 
       32.68        37.15        11.31        27.29        42.51 

$`DEL PEAK  6(4Q34.3) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JW 
       22.03        29.23        22.16       121.25        16.04        63.25 
TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 
       31.23         6.94        33.83        89.52        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H9 
        8.32        73.05        23.31        10.09 

  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                        11.31                          6.94 
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                        50.66                        121.25 
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                        27.29                         29.77 
[1] "11.3 - 50.7 (27.3)" "6.9 - 121.2 (29.8)"
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "DEL PEAK  6(4Q34.3) MUTATED"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-PK-A5HB 
  "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "DEL PEAK  6(4Q34.3) MUTATED"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-PK-A5HB 
  "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "DEL PEAK  6(4Q34.3) MUTATED"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-PK-A5HB 
  "DEL PEAK  6(4Q34.3) MUTATED" 
[1] "hr=" "4.7"
D25V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  6(4Q34.3) MUTATED         0        4         1        4
  DEL PEAK  6(4Q34.3) WILD-TYPE       4        9         3        4
D25V3, multiclass
           clus
vv          DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE
  STAGE I                             0                             4
  STAGE II                            4                             9
  STAGE III                           1                             3
  STAGE IV                            4                             4
                               vv
clus                            T1 T2+T3 T4
  DEL PEAK  6(4Q34.3) MUTATED    0     4  5
  DEL PEAK  6(4Q34.3) WILD-TYPE  4    12  4
D25V4, multiclass
       clus
vv      DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE
  T1                              0                             4
  T2+T3                           4                            12
  T4                              5                             4
D25V5, binary
                               cls
clus                             0  1
  DEL PEAK  6(4Q34.3) MUTATED    9  1
  DEL PEAK  6(4Q34.3) WILD-TYPE 17  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q34.3) MUTATED      9    1
  DEL PEAK  6(4Q34.3) WILD-TYPE   17    3
   clus
vv  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE
  0                           9                            17
  1                           1                             3
D25V6, binary
                               cls
clus                             0  1
  DEL PEAK  6(4Q34.3) MUTATED    6  5
  DEL PEAK  6(4Q34.3) WILD-TYPE 11 11
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q34.3) MUTATED      6    5
  DEL PEAK  6(4Q34.3) WILD-TYPE   11   11
        clus
vv       DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE
  FEMALE                           6                            11
  MALE                             5                            11

Clustering(26) Variable = DEL PEAK  7(4Q35.1) MUTATION ANALYSIS
D26V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  7(4Q35.1) MUTATED    7  5
  DEL PEAK  7(4Q35.1) WILD-TYPE 18  3
  DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE 
                           12                            21 
  DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE 
                            5                             3 
$`DEL PEAK  7(4Q35.1) MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JS TCGA-OR-A5JV 
       18.12        57.53        41.26        18.48        12.59        50.66 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5K2 TCGA-OR-A5K5 TCGA-PK-A5HA TCGA-PK-A5HB 
       31.23        18.15        32.68         8.32        27.29        42.51 

$`DEL PEAK  7(4Q35.1) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JL 
       30.31        41.39        17.79        46.82        10.16        22.03 
TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5JZ 
       29.23        22.16       121.25        16.04        63.25         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K6 TCGA-OR-A5K9 
       33.83        89.52        93.44        17.36        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H9 
       73.05        23.31        10.09 

  DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE 
                         8.32                          6.94 
  DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE 
                        57.53                        121.25 
  DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE 
                        29.26                         29.23 
[1] "8.3 - 57.5 (29.3)"  "6.9 - 121.2 (29.2)"
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK  7(4Q35.1) MUTATED" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK  7(4Q35.1) MUTATED" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "DEL PEAK  7(4Q35.1) MUTATED" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-PK-A5HB 
  "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK  7(4Q35.1) MUTATED" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK  7(4Q35.1) MUTATED" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "DEL PEAK  7(4Q35.1) MUTATED" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-PK-A5HB 
  "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK  7(4Q35.1) MUTATED" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK  7(4Q35.1) MUTATED" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "DEL PEAK  7(4Q35.1) MUTATED" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  7(4Q35.1) WILD-TYPE"   "DEL PEAK  7(4Q35.1) MUTATED" 
                   TCGA-PK-A5HB 
  "DEL PEAK  7(4Q35.1) MUTATED" 
[1] "hr=" "3.1"
D26V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  7(4Q35.1) MUTATED         0        2         3        4
  DEL PEAK  7(4Q35.1) WILD-TYPE       4       11         1        4
D26V3, multiclass
           clus
vv          DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE
  STAGE I                             0                             4
  STAGE II                            2                            11
  STAGE III                           3                             1
  STAGE IV                            4                             4
                               vv
clus                            T1 T2+T3 T4
  DEL PEAK  7(4Q35.1) MUTATED    0     4  5
  DEL PEAK  7(4Q35.1) WILD-TYPE  4    12  4
D26V4, multiclass
       clus
vv      DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE
  T1                              0                             4
  T2+T3                           4                            12
  T4                              5                             4
D26V5, binary
                               cls
clus                             0  1
  DEL PEAK  7(4Q35.1) MUTATED    9  1
  DEL PEAK  7(4Q35.1) WILD-TYPE 17  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q35.1) MUTATED      9    1
  DEL PEAK  7(4Q35.1) WILD-TYPE   17    3
   clus
vv  DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE
  0                           9                            17
  1                           1                             3
D26V6, binary
                               cls
clus                             0  1
  DEL PEAK  7(4Q35.1) MUTATED    5  7
  DEL PEAK  7(4Q35.1) WILD-TYPE 12  9
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q35.1) MUTATED      5    7
  DEL PEAK  7(4Q35.1) WILD-TYPE   12    9
        clus
vv       DEL PEAK  7(4Q35.1) MUTATED DEL PEAK  7(4Q35.1) WILD-TYPE
  FEMALE                           5                            12
  MALE                             7                             9

Clustering(27) Variable = DEL PEAK  8(6P24.3) MUTATION ANALYSIS
D27V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  8(6P24.3) MUTATED    5  1
  DEL PEAK  8(6P24.3) WILD-TYPE 20  7
  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                            6                            27 
  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                            1                             7 
$`DEL PEAK  8(6P24.3) MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JQ TCGA-OR-A5JV TCGA-OR-A5K0 TCGA-OU-A5PI 
       17.79        41.26        22.16        50.66        33.83        23.31 

$`DEL PEAK  8(6P24.3) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT 
       22.03        18.48        29.23       121.25        12.59        16.04 
TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K2 
       63.25        31.23        18.15         6.94        89.52        32.68 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK 
       93.44        17.36         8.32        37.15        11.31        73.05 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                        17.79                          6.94 
  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                        50.66                        121.25 
  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE 
                        28.57                         29.23 
[1] "17.8 - 50.7 (28.6)" "6.9 - 121.2 (29.2)"
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK  8(6P24.3) MUTATED" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK  8(6P24.3) WILD-TYPE"   "DEL PEAK  8(6P24.3) MUTATED" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK  8(6P24.3) WILD-TYPE" "DEL PEAK  8(6P24.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"DEL PEAK  8(6P24.3) WILD-TYPE" 
[1] "hr=" "1.6"
D27V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  8(6P24.3) MUTATED         0        3         0        3
  DEL PEAK  8(6P24.3) WILD-TYPE       4       10         4        5
D27V3, multiclass
           clus
vv          DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE
  STAGE I                             0                             4
  STAGE II                            3                            10
  STAGE III                           0                             4
  STAGE IV                            3                             5
                               vv
clus                            T1 T2+T3 T4
  DEL PEAK  8(6P24.3) MUTATED    0     4  2
  DEL PEAK  8(6P24.3) WILD-TYPE  4    12  7
D27V4, multiclass
       clus
vv      DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE
  T1                              0                             4
  T2+T3                           4                            12
  T4                              2                             7
D27V5, binary
                               cls
clus                             0  1
  DEL PEAK  8(6P24.3) MUTATED    4  2
  DEL PEAK  8(6P24.3) WILD-TYPE 22  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(6P24.3) MUTATED      4    2
  DEL PEAK  8(6P24.3) WILD-TYPE   22    2
   clus
vv  DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE
  0                           4                            22
  1                           2                             2
D27V6, binary
                               cls
clus                             0  1
  DEL PEAK  8(6P24.3) MUTATED    3  3
  DEL PEAK  8(6P24.3) WILD-TYPE 14 13
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(6P24.3) MUTATED      3    3
  DEL PEAK  8(6P24.3) WILD-TYPE   14   13
        clus
vv       DEL PEAK  8(6P24.3) MUTATED DEL PEAK  8(6P24.3) WILD-TYPE
  FEMALE                           3                            14
  MALE                             3                            13

Clustering(28) Variable = DEL PEAK  9(6Q26) MUTATION ANALYSIS
D28V1, survival
                             sevent
clus2                          0  1
  DEL PEAK  9(6Q26) MUTATED    6  4
  DEL PEAK  9(6Q26) WILD-TYPE 19  4
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                         10                          23 
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                          4                           4 
$`DEL PEAK  9(6Q26) MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JQ TCGA-OR-A5JS TCGA-OR-A5JV 
       18.12        17.79        41.26        22.16        12.59        50.66 
TCGA-OR-A5JY TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OU-A5PI 
       18.15        33.83        32.68        23.31 

$`DEL PEAK  9(6Q26) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JL 
       30.31        57.53        41.39        46.82        10.16        22.03 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5JX 
       18.48        29.23       121.25        16.04        63.25        31.23 
TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
        6.94        89.52        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       11.31        73.05        10.09        27.29        42.51 

  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                      12.59                        6.94 
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                      50.66                      121.25 
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                     22.735                      30.310 
[1] "12.6 - 50.7 (22.7)" "6.9 - 121.2 (30.3)"
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-PK-A5HB 
"DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-PK-A5HB 
"DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-PK-A5HB 
"DEL PEAK  9(6Q26) WILD-TYPE" 
[1] "hr=" "3"  
D28V2, continuous
                             vv
clus                          STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  9(6Q26) MUTATED         0        4         1        5
  DEL PEAK  9(6Q26) WILD-TYPE       4        9         3        3
D28V3, multiclass
           clus
vv          DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE
  STAGE I                           0                           4
  STAGE II                          4                           9
  STAGE III                         1                           3
  STAGE IV                          5                           3
                             vv
clus                          T1 T2+T3 T4
  DEL PEAK  9(6Q26) MUTATED    0     5  5
  DEL PEAK  9(6Q26) WILD-TYPE  4    11  4
D28V4, multiclass
       clus
vv      DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE
  T1                            0                           4
  T2+T3                         5                          11
  T4                            5                           4
D28V5, binary
                             cls
clus                           0  1
  DEL PEAK  9(6Q26) MUTATED    7  3
  DEL PEAK  9(6Q26) WILD-TYPE 19  1
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  9(6Q26) MUTATED      7    3
  DEL PEAK  9(6Q26) WILD-TYPE   19    1
   clus
vv  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE
  0                         7                          19
  1                         3                           1
D28V6, binary
                             cls
clus                           0  1
  DEL PEAK  9(6Q26) MUTATED    6  4
  DEL PEAK  9(6Q26) WILD-TYPE 11 12
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  9(6Q26) MUTATED      6    4
  DEL PEAK  9(6Q26) WILD-TYPE   11   12
        clus
vv       DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE
  FEMALE                         6                          11
  MALE                           4                          12

Clustering(29) Variable = DEL PEAK 10(7Q32.3) MUTATION ANALYSIS
D29V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 10(7Q32.3) MUTATED    2  2
  DEL PEAK 10(7Q32.3) WILD-TYPE 23  6
  DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE 
                            4                            29 
  DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE 
                            2                             6 
$`DEL PEAK 10(7Q32.3) MUTATED`
TCGA-OR-A5JC TCGA-OR-A5JM TCGA-OR-A5K0 TCGA-OR-A5K6 
       57.53        18.48        33.83        37.15 

$`DEL PEAK 10(7Q32.3) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       41.26        22.03        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 
       89.52        32.68        93.44        17.36         8.32        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31        10.09        27.29        42.51 

  DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE 
                        18.48                          6.94 
  DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE 
                        57.53                        121.25 
  DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE 
                        35.49                         27.29 
[1] "18.5 - 57.5 (35.5)" "6.9 - 121.2 (27.3)"
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK 10(7Q32.3) MUTATED" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK 10(7Q32.3) WILD-TYPE"   "DEL PEAK 10(7Q32.3) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK 10(7Q32.3) MUTATED" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "DEL PEAK 10(7Q32.3) MUTATED" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK 10(7Q32.3) MUTATED" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK 10(7Q32.3) WILD-TYPE"   "DEL PEAK 10(7Q32.3) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK 10(7Q32.3) MUTATED" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "DEL PEAK 10(7Q32.3) MUTATED" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK 10(7Q32.3) MUTATED" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
"DEL PEAK 10(7Q32.3) WILD-TYPE"   "DEL PEAK 10(7Q32.3) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK 10(7Q32.3) MUTATED" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "DEL PEAK 10(7Q32.3) MUTATED" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK 10(7Q32.3) WILD-TYPE" "DEL PEAK 10(7Q32.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"DEL PEAK 10(7Q32.3) WILD-TYPE" 
[1] "hr=" "1.6"
D29V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 10(7Q32.3) MUTATED         0        2         0        1
  DEL PEAK 10(7Q32.3) WILD-TYPE       4       11         4        7
D29V3, multiclass
           clus
vv          DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE
  STAGE I                             0                             4
  STAGE II                            2                            11
  STAGE III                           0                             4
  STAGE IV                            1                             7
                               vv
clus                            T1 T2+T3 T4
  DEL PEAK 10(7Q32.3) MUTATED    0     2  1
  DEL PEAK 10(7Q32.3) WILD-TYPE  4    14  8
D29V4, multiclass
       clus
vv      DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE
  T1                              0                             4
  T2+T3                           2                            14
  T4                              1                             8
D29V5, binary
                               cls
clus                             0  1
  DEL PEAK 10(7Q32.3) MUTATED    3  0
  DEL PEAK 10(7Q32.3) WILD-TYPE 23  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(7Q32.3) MUTATED      3    0
  DEL PEAK 10(7Q32.3) WILD-TYPE   23    4
   clus
vv  DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE
  0                           3                            23
  1                           0                             4
D29V6, binary
                               cls
clus                             0  1
  DEL PEAK 10(7Q32.3) MUTATED    3  1
  DEL PEAK 10(7Q32.3) WILD-TYPE 14 15
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(7Q32.3) MUTATED      3    1
  DEL PEAK 10(7Q32.3) WILD-TYPE   14   15
        clus
vv       DEL PEAK 10(7Q32.3) MUTATED DEL PEAK 10(7Q32.3) WILD-TYPE
  FEMALE                           3                            14
  MALE                             1                            15

Clustering(30) Variable = DEL PEAK 11(9P23) MUTATION ANALYSIS
D30V1, survival
                             sevent
clus2                          0  1
  DEL PEAK 11(9P23) MUTATED    6  4
  DEL PEAK 11(9P23) WILD-TYPE 19  4
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                         10                          23 
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                          4                           4 
$`DEL PEAK 11(9P23) MUTATED`
TCGA-OR-A5JC TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JS TCGA-OR-A5JV 
       57.53        41.26        22.03        18.48        12.59        50.66 
TCGA-OR-A5JY TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K5 
       18.15        33.83        32.68         8.32 

$`DEL PEAK 11(9P23) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        41.39        17.79        46.82        10.16 
TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5JX 
       29.23        22.16       121.25        16.04        63.25        31.23 
TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K6 TCGA-OR-A5K9 
        6.94        89.52        93.44        17.36        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31        10.09        27.29        42.51 

  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                       8.32                        6.94 
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                      57.53                      121.25 
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                     27.355                      29.230 
[1] "8.3 - 57.5 (27.4)"  "6.9 - 121.2 (29.2)"
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-PK-A5HB 
"DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-PK-A5HB 
"DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JA                  TCGA-OR-A5JB 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JC                  TCGA-OR-A5JF 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JG                  TCGA-OR-A5JI 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JJ                  TCGA-OR-A5JK 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JL                  TCGA-OR-A5JM 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JO                  TCGA-OR-A5JQ 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JR                  TCGA-OR-A5JS 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JT                  TCGA-OR-A5JV 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5JW                  TCGA-OR-A5JX 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5JY                  TCGA-OR-A5JZ 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5K0                  TCGA-OR-A5K1 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5K2                  TCGA-OR-A5K3 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5K4                  TCGA-OR-A5K5 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-OR-A5K6                  TCGA-OR-A5K9 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-OR-A5LK                  TCGA-OU-A5PI 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-PK-A5H9                  TCGA-PK-A5HA 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-PK-A5HB 
"DEL PEAK 11(9P23) WILD-TYPE" 
[1] "hr=" "2.3"
D30V2, continuous
                             vv
clus                          STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 11(9P23) MUTATED         1        3         2        3
  DEL PEAK 11(9P23) WILD-TYPE       3       10         2        5
D30V3, multiclass
           clus
vv          DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE
  STAGE I                           1                           3
  STAGE II                          3                          10
  STAGE III                         2                           2
  STAGE IV                          3                           5
                             vv
clus                          T1 T2+T3 T4
  DEL PEAK 11(9P23) MUTATED    1     4  4
  DEL PEAK 11(9P23) WILD-TYPE  3    12  5
D30V4, multiclass
       clus
vv      DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE
  T1                            1                           3
  T2+T3                         4                          12
  T4                            4                           5
D30V5, binary
                             cls
clus                           0  1
  DEL PEAK 11(9P23) MUTATED    8  1
  DEL PEAK 11(9P23) WILD-TYPE 18  3
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 11(9P23) MUTATED      8    1
  DEL PEAK 11(9P23) WILD-TYPE   18    3
   clus
vv  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE
  0                         8                          18
  1                         1                           3
D30V6, binary
                             cls
clus                           0  1
  DEL PEAK 11(9P23) MUTATED    7  3
  DEL PEAK 11(9P23) WILD-TYPE 10 13
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 11(9P23) MUTATED      7    3
  DEL PEAK 11(9P23) WILD-TYPE   10   13
        clus
vv       DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE
  FEMALE                         7                          10
  MALE                           3                          13

Clustering(31) Variable = DEL PEAK 12(9P21.3) MUTATION ANALYSIS
D31V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 12(9P21.3) MUTATED    8  5
  DEL PEAK 12(9P21.3) WILD-TYPE 17  3
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                           13                            20 
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                            5                             3 
$`DEL PEAK 12(9P21.3) MUTATED`
TCGA-OR-A5JC TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JS TCGA-OR-A5JT 
       57.53        41.26        22.03        18.48        12.59        16.04 
TCGA-OR-A5JV TCGA-OR-A5JY TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K5 TCGA-OR-A5K6 
       50.66        18.15        33.83        32.68         8.32        37.15 
TCGA-OR-A5K9 
       11.31 

$`DEL PEAK 12(9P21.3) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        41.39        17.79        46.82        10.16 
TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JZ 
       29.23        22.16       121.25        63.25        31.23         6.94 
TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H9 
       89.52        93.44        17.36        73.05        23.31        10.09 
TCGA-PK-A5HA TCGA-PK-A5HB 
       27.29        42.51 

  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                         8.32                          6.94 
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                        57.53                        121.25 
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                        22.03                         29.77 
[1] "8.3 - 57.5 (22.0)"  "6.9 - 121.2 (29.8)"
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JA                    TCGA-OR-A5JB 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JC                    TCGA-OR-A5JF 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JG                    TCGA-OR-A5JI 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JJ                    TCGA-OR-A5JK 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JL                    TCGA-OR-A5JM 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JO                    TCGA-OR-A5JQ 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JR                    TCGA-OR-A5JS 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JT                    TCGA-OR-A5JV 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5JW                    TCGA-OR-A5JX 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5JY                    TCGA-OR-A5JZ 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5K0                    TCGA-OR-A5K1 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5K2                    TCGA-OR-A5K3 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-OR-A5K4                    TCGA-OR-A5K5 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5K6                    TCGA-OR-A5K9 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-OR-A5LK                    TCGA-OU-A5PI 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-PK-A5H9                    TCGA-PK-A5HA 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-PK-A5HB 
"DEL PEAK 12(9P21.3) WILD-TYPE" 
[1] "hr=" "3.1"
D31V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 12(9P21.3) MUTATED         1        6         2        3
  DEL PEAK 12(9P21.3) WILD-TYPE       3        7         2        5
D31V3, multiclass
           clus
vv          DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE
  STAGE I                             1                             3
  STAGE II                            6                             7
  STAGE III                           2                             2
  STAGE IV                            3                             5
                               vv
clus                            T1 T2+T3 T4
  DEL PEAK 12(9P21.3) MUTATED    1     7  4
  DEL PEAK 12(9P21.3) WILD-TYPE  3     9  5
D31V4, multiclass
       clus
vv      DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE
  T1                              1                             3
  T2+T3                           7                             9
  T4                              4                             5
D31V5, binary
                               cls
clus                             0  1
  DEL PEAK 12(9P21.3) MUTATED   11  1
  DEL PEAK 12(9P21.3) WILD-TYPE 15  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(9P21.3) MUTATED     11    1
  DEL PEAK 12(9P21.3) WILD-TYPE   15    3
   clus
vv  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE
  0                          11                            15
  1                           1                             3
D31V6, binary
                               cls
clus                             0  1
  DEL PEAK 12(9P21.3) MUTATED   10  3
  DEL PEAK 12(9P21.3) WILD-TYPE  7 13
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(9P21.3) MUTATED     10    3
  DEL PEAK 12(9P21.3) WILD-TYPE    7   13
        clus
vv       DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE
  FEMALE                          10                             7
  MALE                             3                            13

Clustering(32) Variable = DEL PEAK 13(10Q23.1) MUTATION ANALYSIS
D32V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 13(10Q23.1) MUTATED    4  3
  DEL PEAK 13(10Q23.1) WILD-TYPE 21  5
  DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE 
                             7                             26 
  DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE 
                             3                              5 
$`DEL PEAK 13(10Q23.1) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JG TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JS TCGA-OR-A5JV 
       30.31        17.79        22.03        22.16        12.59        50.66 
TCGA-OR-A5JY 
       18.15 

$`DEL PEAK 13(10Q23.1) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       18.12        57.53        41.39        46.82        10.16        41.26 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5JX 
       18.48        29.23       121.25        16.04        63.25        31.23 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 
        6.94        33.83        89.52        32.68        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H9 
        8.32        37.15        11.31        73.05        23.31        10.09 
TCGA-PK-A5HA TCGA-PK-A5HB 
       27.29        42.51 

  DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE 
                         12.59                           6.94 
  DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE 
                         50.66                         121.25 
  DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE 
                        22.030                         31.955 
[1] "12.6 - 50.7 (22.0)" "6.9 - 121.2 (32.0)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 13(10Q23.1) WILD-TYPE"   "DEL PEAK 13(10Q23.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 13(10Q23.1) WILD-TYPE"   "DEL PEAK 13(10Q23.1) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 13(10Q23.1) WILD-TYPE"   "DEL PEAK 13(10Q23.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-PK-A5HB 
"DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 13(10Q23.1) WILD-TYPE"   "DEL PEAK 13(10Q23.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 13(10Q23.1) WILD-TYPE"   "DEL PEAK 13(10Q23.1) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 13(10Q23.1) WILD-TYPE"   "DEL PEAK 13(10Q23.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-PK-A5HB 
"DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 13(10Q23.1) WILD-TYPE"   "DEL PEAK 13(10Q23.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 13(10Q23.1) WILD-TYPE"   "DEL PEAK 13(10Q23.1) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 13(10Q23.1) WILD-TYPE"   "DEL PEAK 13(10Q23.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 13(10Q23.1) MUTATED" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 13(10Q23.1) WILD-TYPE" "DEL PEAK 13(10Q23.1) WILD-TYPE" 
                    TCGA-PK-A5HB 
"DEL PEAK 13(10Q23.1) WILD-TYPE" 
[1] "hr=" "3.5"
D32V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 13(10Q23.1) MUTATED         1        3         0        3
  DEL PEAK 13(10Q23.1) WILD-TYPE       3       10         4        5
D32V3, multiclass
           clus
vv          DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE
  STAGE I                              1                              3
  STAGE II                             3                             10
  STAGE III                            0                              4
  STAGE IV                             3                              5
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK 13(10Q23.1) MUTATED    1     3  3
  DEL PEAK 13(10Q23.1) WILD-TYPE  3    13  6
D32V4, multiclass
       clus
vv      DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE
  T1                               1                              3
  T2+T3                            3                             13
  T4                               3                              6
D32V5, binary
                                cls
clus                              0  1
  DEL PEAK 13(10Q23.1) MUTATED    5  2
  DEL PEAK 13(10Q23.1) WILD-TYPE 21  2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 13(10Q23.1) MUTATED      5    2
  DEL PEAK 13(10Q23.1) WILD-TYPE   21    2
   clus
vv  DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE
  0                            5                             21
  1                            2                              2
D32V6, binary
                                cls
clus                              0  1
  DEL PEAK 13(10Q23.1) MUTATED    5  2
  DEL PEAK 13(10Q23.1) WILD-TYPE 12 14
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 13(10Q23.1) MUTATED      5    2
  DEL PEAK 13(10Q23.1) WILD-TYPE   12   14
        clus
vv       DEL PEAK 13(10Q23.1) MUTATED DEL PEAK 13(10Q23.1) WILD-TYPE
  FEMALE                            5                             12
  MALE                              2                             14

Clustering(33) Variable = DEL PEAK 14(11P15.5) MUTATION ANALYSIS
D33V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 14(11P15.5) MUTATED   11  5
  DEL PEAK 14(11P15.5) WILD-TYPE 14  3
  DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE 
                            16                             17 
  DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE 
                             5                              3 
$`DEL PEAK 14(11P15.5) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JL 
       30.31        57.53        17.79        46.82        41.26        22.03 
TCGA-OR-A5JQ TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5K6 
       22.16        50.66        63.25        31.23        18.15        37.15 
TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5HA TCGA-PK-A5HB 
       11.31        23.31        27.29        42.51 

$`DEL PEAK 14(11P15.5) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JJ TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR 
       18.12        41.39        10.16        18.48        29.23       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 
       12.59        16.04         6.94        33.83        89.52        32.68 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5LK TCGA-PK-A5H9 
       93.44        17.36         8.32        73.05        10.09 

  DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE 
                         11.31                           6.94 
  DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE 
                         63.25                         121.25 
  DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE 
                         30.77                          18.48 
[1] "11.3 - 63.2 (30.8)" "6.9 - 121.2 (18.5)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 14(11P15.5) MUTATED"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 14(11P15.5) MUTATED"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK 14(11P15.5) MUTATED"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 14(11P15.5) MUTATED"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 14(11P15.5) MUTATED"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK 14(11P15.5) MUTATED"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 14(11P15.5) MUTATED"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 14(11P15.5) MUTATED"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 14(11P15.5) MUTATED" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 14(11P15.5) WILD-TYPE" "DEL PEAK 14(11P15.5) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK 14(11P15.5) MUTATED"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 14(11P15.5) WILD-TYPE"   "DEL PEAK 14(11P15.5) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 14(11P15.5) MUTATED" 
[1] "hr=" "1.4"
D33V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 14(11P15.5) MUTATED         2        5         1        5
  DEL PEAK 14(11P15.5) WILD-TYPE       2        8         3        3
D33V3, multiclass
           clus
vv          DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE
  STAGE I                              2                              2
  STAGE II                             5                              8
  STAGE III                            1                              3
  STAGE IV                             5                              3
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK 14(11P15.5) MUTATED    2     7  4
  DEL PEAK 14(11P15.5) WILD-TYPE  2     9  5
D33V4, multiclass
       clus
vv      DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE
  T1                               2                              2
  T2+T3                            7                              9
  T4                               4                              5
D33V5, binary
                                cls
clus                              0  1
  DEL PEAK 14(11P15.5) MUTATED   11  3
  DEL PEAK 14(11P15.5) WILD-TYPE 15  1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 14(11P15.5) MUTATED     11    3
  DEL PEAK 14(11P15.5) WILD-TYPE   15    1
   clus
vv  DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE
  0                           11                             15
  1                            3                              1
D33V6, binary
                                cls
clus                              0  1
  DEL PEAK 14(11P15.5) MUTATED    7  9
  DEL PEAK 14(11P15.5) WILD-TYPE 10  7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 14(11P15.5) MUTATED      7    9
  DEL PEAK 14(11P15.5) WILD-TYPE   10    7
        clus
vv       DEL PEAK 14(11P15.5) MUTATED DEL PEAK 14(11P15.5) WILD-TYPE
  FEMALE                            7                             10
  MALE                              9                              7

Clustering(34) Variable = DEL PEAK 15(11Q14.1) MUTATION ANALYSIS
D34V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 15(11Q14.1) MUTATED   11  4
  DEL PEAK 15(11Q14.1) WILD-TYPE 14  4
  DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE 
                            15                             18 
  DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE 
                             4                              4 
$`DEL PEAK 15(11Q14.1) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JL 
       30.31        57.53        17.79        46.82        41.26        22.03 
TCGA-OR-A5JQ TCGA-OR-A5JS TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5K6 TCGA-OR-A5K9 
       22.16        12.59        50.66        63.25        37.15        11.31 
TCGA-OU-A5PI TCGA-PK-A5HA TCGA-PK-A5HB 
       23.31        27.29        42.51 

$`DEL PEAK 15(11Q14.1) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JJ TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR 
       18.12        41.39        10.16        18.48        29.23       121.25 
TCGA-OR-A5JT TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       16.04        31.23        18.15         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5LK TCGA-PK-A5H9 
       32.68        93.44        17.36         8.32        73.05        10.09 

  DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE 
                         11.31                           6.94 
  DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE 
                         63.25                         121.25 
  DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE 
                        30.310                         23.855 
[1] "11.3 - 63.2 (30.3)" "6.9 - 121.2 (23.9)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 15(11Q14.1) MUTATED"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK 15(11Q14.1) MUTATED"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 15(11Q14.1) MUTATED"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK 15(11Q14.1) MUTATED"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 15(11Q14.1) MUTATED"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 15(11Q14.1) MUTATED" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 15(11Q14.1) WILD-TYPE" "DEL PEAK 15(11Q14.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK 15(11Q14.1) MUTATED"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 15(11Q14.1) WILD-TYPE"   "DEL PEAK 15(11Q14.1) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 15(11Q14.1) MUTATED" 
[1] "hr=" "1"  
D34V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 15(11Q14.1) MUTATED         2        6         0        4
  DEL PEAK 15(11Q14.1) WILD-TYPE       2        7         4        4
D34V3, multiclass
           clus
vv          DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE
  STAGE I                              2                              2
  STAGE II                             6                              7
  STAGE III                            0                              4
  STAGE IV                             4                              4
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK 15(11Q14.1) MUTATED    2     7  3
  DEL PEAK 15(11Q14.1) WILD-TYPE  2     9  6
D34V4, multiclass
       clus
vv      DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE
  T1                               2                              2
  T2+T3                            7                              9
  T4                               3                              6
D34V5, binary
                                cls
clus                              0  1
  DEL PEAK 15(11Q14.1) MUTATED   11  2
  DEL PEAK 15(11Q14.1) WILD-TYPE 15  2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(11Q14.1) MUTATED     11    2
  DEL PEAK 15(11Q14.1) WILD-TYPE   15    2
   clus
vv  DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE
  0                           11                             15
  1                            2                              2
D34V6, binary
                                cls
clus                              0  1
  DEL PEAK 15(11Q14.1) MUTATED    7  8
  DEL PEAK 15(11Q14.1) WILD-TYPE 10  8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(11Q14.1) MUTATED      7    8
  DEL PEAK 15(11Q14.1) WILD-TYPE   10    8
        clus
vv       DEL PEAK 15(11Q14.1) MUTATED DEL PEAK 15(11Q14.1) WILD-TYPE
  FEMALE                            7                             10
  MALE                              8                              8

Clustering(35) Variable = DEL PEAK 17(13Q14.2) MUTATION ANALYSIS
D35V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 17(13Q14.2) MUTATED   12  7
  DEL PEAK 17(13Q14.2) WILD-TYPE 13  1
  DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE 
                            19                             14 
  DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE 
                             7                              1 
$`DEL PEAK 17(13Q14.2) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JK 
       30.31        18.12        57.53        17.79        46.82        41.26 
TCGA-OR-A5JQ TCGA-OR-A5JS TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JY TCGA-OR-A5K0 
       22.16        12.59        50.66        63.25        18.15        33.83 
TCGA-OR-A5K2 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5HA 
       32.68         8.32        11.31        73.05        23.31        27.29 
TCGA-PK-A5HB 
       42.51 

$`DEL PEAK 17(13Q14.2) WILD-TYPE`
TCGA-OR-A5JF TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR 
       41.39        10.16        22.03        18.48        29.23       121.25 
TCGA-OR-A5JT TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 
       16.04        31.23         6.94        89.52        93.44        17.36 
TCGA-OR-A5K6 TCGA-PK-A5H9 
       37.15        10.09 

  DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE 
                          8.32                           6.94 
  DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE 
                         73.05                         121.25 
  DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE 
                         30.31                          25.63 
[1] "8.3 - 73.0 (30.3)"  "6.9 - 121.2 (25.6)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 17(13Q14.2) MUTATED"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 17(13Q14.2) MUTATED"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 17(13Q14.2) WILD-TYPE" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "DEL PEAK 17(13Q14.2) MUTATED"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 17(13Q14.2) MUTATED"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 17(13Q14.2) MUTATED"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 17(13Q14.2) WILD-TYPE" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "DEL PEAK 17(13Q14.2) MUTATED"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 17(13Q14.2) MUTATED"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 17(13Q14.2) MUTATED"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 17(13Q14.2) WILD-TYPE" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 17(13Q14.2) MUTATED" "DEL PEAK 17(13Q14.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
  "DEL PEAK 17(13Q14.2) MUTATED"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 17(13Q14.2) WILD-TYPE"   "DEL PEAK 17(13Q14.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 17(13Q14.2) MUTATED" 
[1] "hr=" "4.6"
D35V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 17(13Q14.2) MUTATED         1        7         2        6
  DEL PEAK 17(13Q14.2) WILD-TYPE       3        6         2        2
D35V3, multiclass
           clus
vv          DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE
  STAGE I                              1                              3
  STAGE II                             7                              6
  STAGE III                            2                              2
  STAGE IV                             6                              2
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK 17(13Q14.2) MUTATED    1     9  6
  DEL PEAK 17(13Q14.2) WILD-TYPE  3     7  3
D35V4, multiclass
       clus
vv      DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE
  T1                               1                              3
  T2+T3                            9                              7
  T4                               6                              3
D35V5, binary
                                cls
clus                              0  1
  DEL PEAK 17(13Q14.2) MUTATED   14  3
  DEL PEAK 17(13Q14.2) WILD-TYPE 12  1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 17(13Q14.2) MUTATED     14    3
  DEL PEAK 17(13Q14.2) WILD-TYPE   12    1
   clus
vv  DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE
  0                           14                             12
  1                            3                              1
D35V6, binary
                                cls
clus                              0  1
  DEL PEAK 17(13Q14.2) MUTATED    9 10
  DEL PEAK 17(13Q14.2) WILD-TYPE  8  6
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 17(13Q14.2) MUTATED      9   10
  DEL PEAK 17(13Q14.2) WILD-TYPE    8    6
        clus
vv       DEL PEAK 17(13Q14.2) MUTATED DEL PEAK 17(13Q14.2) WILD-TYPE
  FEMALE                            9                              8
  MALE                             10                              6

Clustering(36) Variable = DEL PEAK 18(14Q21.2) MUTATION ANALYSIS
D36V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 18(14Q21.2) MUTATED    4  1
  DEL PEAK 18(14Q21.2) WILD-TYPE 21  7
  DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE 
                             5                             28 
  DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE 
                             1                              7 
$`DEL PEAK 18(14Q21.2) MUTATED`
TCGA-OR-A5JC TCGA-OR-A5JK TCGA-OR-A5JQ TCGA-OR-A5JV TCGA-PK-A5HA 
       57.53        41.26        22.16        50.66        27.29 

$`DEL PEAK 18(14Q21.2) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        41.39        17.79        46.82        10.16 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT 
       22.03        18.48        29.23       121.25        12.59        16.04 
TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       63.25        31.23        18.15         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HB 
       73.05        23.31        10.09        42.51 

  DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE 
                         22.16                           6.94 
  DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE 
                         57.53                         121.25 
  DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE 
                         41.26                          26.27 
[1] "22.2 - 57.5 (41.3)" "6.9 - 121.2 (26.3)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 18(14Q21.2) MUTATED" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-PK-A5HB 
"DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 18(14Q21.2) MUTATED" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-PK-A5HB 
"DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 18(14Q21.2) MUTATED" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 18(14Q21.2) WILD-TYPE" "DEL PEAK 18(14Q21.2) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 18(14Q21.2) WILD-TYPE"   "DEL PEAK 18(14Q21.2) MUTATED" 
                    TCGA-PK-A5HB 
"DEL PEAK 18(14Q21.2) WILD-TYPE" 
[1] "hr=" "1.7"
D36V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 18(14Q21.2) MUTATED         0        2         0        1
  DEL PEAK 18(14Q21.2) WILD-TYPE       4       11         4        7
D36V3, multiclass
           clus
vv          DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE
  STAGE I                              0                              4
  STAGE II                             2                             11
  STAGE III                            0                              4
  STAGE IV                             1                              7
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK 18(14Q21.2) MUTATED    0     2  1
  DEL PEAK 18(14Q21.2) WILD-TYPE  4    14  8
D36V4, multiclass
       clus
vv      DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE
  T1                               0                              4
  T2+T3                            2                             14
  T4                               1                              8
D36V5, binary
                                cls
clus                              0  1
  DEL PEAK 18(14Q21.2) MUTATED    4  0
  DEL PEAK 18(14Q21.2) WILD-TYPE 22  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(14Q21.2) MUTATED      4    0
  DEL PEAK 18(14Q21.2) WILD-TYPE   22    4
   clus
vv  DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE
  0                            4                             22
  1                            0                              4
D36V6, binary
                                cls
clus                              0  1
  DEL PEAK 18(14Q21.2) MUTATED    1  4
  DEL PEAK 18(14Q21.2) WILD-TYPE 16 12
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(14Q21.2) MUTATED      1    4
  DEL PEAK 18(14Q21.2) WILD-TYPE   16   12
        clus
vv       DEL PEAK 18(14Q21.2) MUTATED DEL PEAK 18(14Q21.2) WILD-TYPE
  FEMALE                            1                             16
  MALE                              4                             12

Clustering(37) Variable = DEL PEAK 21(17Q11.2) MUTATION ANALYSIS
D37V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 21(17Q11.2) MUTATED    7  6
  DEL PEAK 21(17Q11.2) WILD-TYPE 18  2
  DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE 
                            13                             20 
  DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE 
                             6                              2 
$`DEL PEAK 21(17Q11.2) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JS 
       30.31        18.12        57.53        17.79        41.26        12.59 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5K2 TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5HA 
       50.66        63.25        32.68        11.31        23.31        27.29 
TCGA-PK-A5HB 
       42.51 

$`DEL PEAK 21(17Q11.2) WILD-TYPE`
TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO 
       41.39        46.82        10.16        22.03        18.48        29.23 
TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       22.16       121.25        16.04        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       33.83        89.52        93.44        17.36         8.32        37.15 
TCGA-OR-A5LK TCGA-PK-A5H9 
       73.05        10.09 

  DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE 
                         11.31                           6.94 
  DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE 
                         63.25                         121.25 
  DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE 
                        30.310                         25.695 
[1] "11.3 - 63.2 (30.3)" "6.9 - 121.2 (25.7)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 21(17Q11.2) MUTATED"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 21(17Q11.2) MUTATED"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 21(17Q11.2) MUTATED"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 21(17Q11.2) MUTATED" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 21(17Q11.2) WILD-TYPE" "DEL PEAK 21(17Q11.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 21(17Q11.2) WILD-TYPE"   "DEL PEAK 21(17Q11.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 21(17Q11.2) MUTATED" 
[1] "hr=" "4.3"
D37V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 21(17Q11.2) MUTATED         0        4         1        5
  DEL PEAK 21(17Q11.2) WILD-TYPE       4        9         3        3
D37V3, multiclass
           clus
vv          DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE
  STAGE I                              0                              4
  STAGE II                             4                              9
  STAGE III                            1                              3
  STAGE IV                             5                              3
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK 21(17Q11.2) MUTATED    0     5  5
  DEL PEAK 21(17Q11.2) WILD-TYPE  4    11  4
D37V4, multiclass
       clus
vv      DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE
  T1                               0                              4
  T2+T3                            5                             11
  T4                               5                              4
D37V5, binary
                                cls
clus                              0  1
  DEL PEAK 21(17Q11.2) MUTATED    9  2
  DEL PEAK 21(17Q11.2) WILD-TYPE 17  2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(17Q11.2) MUTATED      9    2
  DEL PEAK 21(17Q11.2) WILD-TYPE   17    2
   clus
vv  DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE
  0                            9                             17
  1                            2                              2
D37V6, binary
                                cls
clus                              0  1
  DEL PEAK 21(17Q11.2) MUTATED    5  8
  DEL PEAK 21(17Q11.2) WILD-TYPE 12  8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(17Q11.2) MUTATED      5    8
  DEL PEAK 21(17Q11.2) WILD-TYPE   12    8
        clus
vv       DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE
  FEMALE                            5                             12
  MALE                              8                              8

Clustering(38) Variable = DEL PEAK 22(17Q21.31) MUTATION ANALYSIS
D38V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 22(17Q21.31) MUTATED    7  5
  DEL PEAK 22(17Q21.31) WILD-TYPE 18  3
  DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE 
                             12                              21 
  DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE 
                              5                               3 
$`DEL PEAK 22(17Q21.31) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JS TCGA-OR-A5JV 
       30.31        57.53        17.79        41.26        12.59        50.66 
TCGA-OR-A5JW TCGA-OR-A5K2 TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5HA TCGA-PK-A5HB 
       63.25        32.68        11.31        23.31        27.29        42.51 

$`DEL PEAK 22(17Q21.31) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM 
       18.12        41.39        46.82        10.16        22.03        18.48 
TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JX TCGA-OR-A5JY 
       29.23        22.16       121.25        16.04        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
        6.94        33.83        89.52        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-PK-A5H9 
       37.15        73.05        10.09 

  DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE 
                          11.31                            6.94 
  DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE 
                          63.25                          121.25 
  DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE 
                         31.495                          22.160 
[1] "11.3 - 63.2 (31.5)" "6.9 - 121.2 (22.2)"
                     TCGA-OR-A5JA                      TCGA-OR-A5JB 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JC                      TCGA-OR-A5JF 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JG                      TCGA-OR-A5JI 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JJ                      TCGA-OR-A5JK 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JL                      TCGA-OR-A5JM 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JO                      TCGA-OR-A5JQ 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JR                      TCGA-OR-A5JS 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JT                      TCGA-OR-A5JV 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JW                      TCGA-OR-A5JX 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JY                      TCGA-OR-A5JZ 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K0                      TCGA-OR-A5K1 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K2                      TCGA-OR-A5K3 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K4                      TCGA-OR-A5K5 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K6                      TCGA-OR-A5K9 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5LK                      TCGA-OU-A5PI 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-PK-A5H9                      TCGA-PK-A5HA 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-PK-A5HB 
  "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JA                      TCGA-OR-A5JB 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JC                      TCGA-OR-A5JF 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JG                      TCGA-OR-A5JI 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JJ                      TCGA-OR-A5JK 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JL                      TCGA-OR-A5JM 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JO                      TCGA-OR-A5JQ 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JR                      TCGA-OR-A5JS 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JT                      TCGA-OR-A5JV 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JW                      TCGA-OR-A5JX 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JY                      TCGA-OR-A5JZ 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K0                      TCGA-OR-A5K1 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K2                      TCGA-OR-A5K3 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K4                      TCGA-OR-A5K5 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K6                      TCGA-OR-A5K9 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5LK                      TCGA-OU-A5PI 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-PK-A5H9                      TCGA-PK-A5HA 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-PK-A5HB 
  "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JA                      TCGA-OR-A5JB 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JC                      TCGA-OR-A5JF 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JG                      TCGA-OR-A5JI 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JJ                      TCGA-OR-A5JK 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JL                      TCGA-OR-A5JM 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JO                      TCGA-OR-A5JQ 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JR                      TCGA-OR-A5JS 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JT                      TCGA-OR-A5JV 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5JW                      TCGA-OR-A5JX 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5JY                      TCGA-OR-A5JZ 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K0                      TCGA-OR-A5K1 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K2                      TCGA-OR-A5K3 
  "DEL PEAK 22(17Q21.31) MUTATED" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K4                      TCGA-OR-A5K5 
"DEL PEAK 22(17Q21.31) WILD-TYPE" "DEL PEAK 22(17Q21.31) WILD-TYPE" 
                     TCGA-OR-A5K6                      TCGA-OR-A5K9 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-OR-A5LK                      TCGA-OU-A5PI 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-PK-A5H9                      TCGA-PK-A5HA 
"DEL PEAK 22(17Q21.31) WILD-TYPE"   "DEL PEAK 22(17Q21.31) MUTATED" 
                     TCGA-PK-A5HB 
  "DEL PEAK 22(17Q21.31) MUTATED" 
[1] "hr=" "2.5"
D38V2, continuous
                                 vv
clus                              STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 22(17Q21.31) MUTATED         0        4         1        4
  DEL PEAK 22(17Q21.31) WILD-TYPE       4        9         3        4
D38V3, multiclass
           clus
vv          DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE
  STAGE I                               0                               4
  STAGE II                              4                               9
  STAGE III                             1                               3
  STAGE IV                              4                               4
                                 vv
clus                              T1 T2+T3 T4
  DEL PEAK 22(17Q21.31) MUTATED    0     5  4
  DEL PEAK 22(17Q21.31) WILD-TYPE  4    11  5
D38V4, multiclass
       clus
vv      DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE
  T1                                0                               4
  T2+T3                             5                              11
  T4                                4                               5
D38V5, binary
                                 cls
clus                               0  1
  DEL PEAK 22(17Q21.31) MUTATED    8  2
  DEL PEAK 22(17Q21.31) WILD-TYPE 18  2
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 22(17Q21.31) MUTATED      8    2
  DEL PEAK 22(17Q21.31) WILD-TYPE   18    2
   clus
vv  DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE
  0                             8                              18
  1                             2                               2
D38V6, binary
                                 cls
clus                               0  1
  DEL PEAK 22(17Q21.31) MUTATED    5  7
  DEL PEAK 22(17Q21.31) WILD-TYPE 12  9
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 22(17Q21.31) MUTATED      5    7
  DEL PEAK 22(17Q21.31) WILD-TYPE   12    9
        clus
vv       DEL PEAK 22(17Q21.31) MUTATED DEL PEAK 22(17Q21.31) WILD-TYPE
  FEMALE                             5                              12
  MALE                               7                               9

Clustering(39) Variable = DEL PEAK 23(17Q24.2) MUTATION ANALYSIS
D39V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 23(17Q24.2) MUTATED    8  5
  DEL PEAK 23(17Q24.2) WILD-TYPE 17  3
  DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE 
                            13                             20 
  DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE 
                             5                              3 
$`DEL PEAK 23(17Q24.2) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JS 
       30.31        57.53        17.79        41.26        18.48        12.59 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5HA 
       50.66        63.25        37.15        11.31        23.31        27.29 
TCGA-PK-A5HB 
       42.51 

$`DEL PEAK 23(17Q24.2) WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JO 
       18.12        41.39        46.82        10.16        22.03        29.23 
TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       22.16       121.25        16.04        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5LK TCGA-PK-A5H9 
       73.05        10.09 

  DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE 
                         11.31                           6.94 
  DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE 
                         63.25                         121.25 
  DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE 
                        30.310                         25.695 
[1] "11.3 - 63.2 (30.3)" "6.9 - 121.2 (25.7)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK 23(17Q24.2) MUTATED"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK 23(17Q24.2) MUTATED"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 23(17Q24.2) MUTATED" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 23(17Q24.2) WILD-TYPE" "DEL PEAK 23(17Q24.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
  "DEL PEAK 23(17Q24.2) MUTATED"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 23(17Q24.2) WILD-TYPE"   "DEL PEAK 23(17Q24.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 23(17Q24.2) MUTATED" 
[1] "hr=" "2.3"
D39V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 23(17Q24.2) MUTATED         0        5         0        5
  DEL PEAK 23(17Q24.2) WILD-TYPE       4        8         4        3
D39V3, multiclass
           clus
vv          DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE
  STAGE I                              0                              4
  STAGE II                             5                              8
  STAGE III                            0                              4
  STAGE IV                             5                              3
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK 23(17Q24.2) MUTATED    0     6  4
  DEL PEAK 23(17Q24.2) WILD-TYPE  4    10  5
D39V4, multiclass
       clus
vv      DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE
  T1                               0                              4
  T2+T3                            6                             10
  T4                               4                              5
D39V5, binary
                                cls
clus                              0  1
  DEL PEAK 23(17Q24.2) MUTATED    9  2
  DEL PEAK 23(17Q24.2) WILD-TYPE 17  2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(17Q24.2) MUTATED      9    2
  DEL PEAK 23(17Q24.2) WILD-TYPE   17    2
   clus
vv  DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE
  0                            9                             17
  1                            2                              2
D39V6, binary
                                cls
clus                              0  1
  DEL PEAK 23(17Q24.2) MUTATED    6  7
  DEL PEAK 23(17Q24.2) WILD-TYPE 11  9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(17Q24.2) MUTATED      6    7
  DEL PEAK 23(17Q24.2) WILD-TYPE   11    9
        clus
vv       DEL PEAK 23(17Q24.2) MUTATED DEL PEAK 23(17Q24.2) WILD-TYPE
  FEMALE                            6                             11
  MALE                              7                              9

Clustering(40) Variable = DEL PEAK 24(18Q21.2) MUTATION ANALYSIS
D40V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 24(18Q21.2) MUTATED   12  5
  DEL PEAK 24(18Q21.2) WILD-TYPE 13  3
  DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE 
                            17                             16 
  DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE 
                             5                              3 
$`DEL PEAK 24(18Q21.2) MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JL 
       18.12        57.53        17.79        46.82        41.26        22.03 
TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW 
       18.48        22.16        12.59        16.04        50.66        63.25 
TCGA-OR-A5JX TCGA-OR-A5K2 TCGA-OU-A5PI TCGA-PK-A5HA TCGA-PK-A5HB 
       31.23        32.68        23.31        27.29        42.51 

$`DEL PEAK 24(18Q21.2) WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JF TCGA-OR-A5JJ TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JY 
       30.31        41.39        10.16        29.23       121.25        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
        6.94        33.83        89.52        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H9 
       37.15        11.31        73.05        10.09 

  DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE 
                         12.59                           6.94 
  DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE 
                         63.25                         121.25 
  DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE 
                         27.29                          29.77 
[1] "12.6 - 63.2 (27.3)" "6.9 - 121.2 (29.8)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 24(18Q21.2) MUTATED" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 24(18Q21.2) MUTATED" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 24(18Q21.2) MUTATED" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 24(18Q21.2) MUTATED" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 24(18Q21.2) MUTATED" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 24(18Q21.2) MUTATED"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 24(18Q21.2) MUTATED" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 24(18Q21.2) WILD-TYPE" "DEL PEAK 24(18Q21.2) WILD-TYPE" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 24(18Q21.2) WILD-TYPE"   "DEL PEAK 24(18Q21.2) MUTATED" 
                    TCGA-PK-A5HB 
  "DEL PEAK 24(18Q21.2) MUTATED" 
[1] "hr=" "1.5"
D40V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 24(18Q21.2) MUTATED         2        5         2        5
  DEL PEAK 24(18Q21.2) WILD-TYPE       2        8         2        3
D40V3, multiclass
           clus
vv          DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE
  STAGE I                              2                              2
  STAGE II                             5                              8
  STAGE III                            2                              2
  STAGE IV                             5                              3
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK 24(18Q21.2) MUTATED    2     7  5
  DEL PEAK 24(18Q21.2) WILD-TYPE  2     9  4
D40V4, multiclass
       clus
vv      DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE
  T1                               2                              2
  T2+T3                            7                              9
  T4                               5                              4
D40V5, binary
                                cls
clus                              0  1
  DEL PEAK 24(18Q21.2) MUTATED   13  2
  DEL PEAK 24(18Q21.2) WILD-TYPE 13  2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(18Q21.2) MUTATED     13    2
  DEL PEAK 24(18Q21.2) WILD-TYPE   13    2
   clus
vv  DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE
  0                           13                             13
  1                            2                              2
D40V6, binary
                                cls
clus                              0  1
  DEL PEAK 24(18Q21.2) MUTATED    7 10
  DEL PEAK 24(18Q21.2) WILD-TYPE 10  6
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(18Q21.2) MUTATED      7   10
  DEL PEAK 24(18Q21.2) WILD-TYPE   10    6
        clus
vv       DEL PEAK 24(18Q21.2) MUTATED DEL PEAK 24(18Q21.2) WILD-TYPE
  FEMALE                            7                             10
  MALE                             10                              6

Clustering(41) Variable = DEL PEAK 25(20P12.1) MUTATION ANALYSIS
D41V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 25(20P12.1) MUTATED    3  4
  DEL PEAK 25(20P12.1) WILD-TYPE 22  4
  DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE 
                             7                             26 
  DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE 
                             4                              4 
$`DEL PEAK 25(20P12.1) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JM TCGA-OR-A5JS TCGA-OR-A5K0 TCGA-OR-A5K9 
       30.31        18.12        18.48        12.59        33.83        11.31 
TCGA-PK-A5HB 
       42.51 

$`DEL PEAK 25(20P12.1) WILD-TYPE`
TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       57.53        41.39        17.79        46.82        10.16        41.26 
TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV 
       22.03        29.23        22.16       121.25        16.04        50.66 
TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K2 
       63.25        31.23        18.15         6.94        89.52        32.68 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI 
       93.44        17.36         8.32        37.15        73.05        23.31 
TCGA-PK-A5H9 TCGA-PK-A5HA 
       10.09        27.29 

  DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE 
                         11.31                           6.94 
  DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE 
                         42.51                         121.25 
  DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE 
                         18.48                          30.23 
[1] "11.3 - 42.5 (18.5)" "6.9 - 121.2 (30.2)"
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 25(20P12.1) MUTATED"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 25(20P12.1) WILD-TYPE"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 25(20P12.1) WILD-TYPE"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "DEL PEAK 25(20P12.1) MUTATED" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 25(20P12.1) WILD-TYPE"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-PK-A5HB 
  "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 25(20P12.1) MUTATED"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 25(20P12.1) WILD-TYPE"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 25(20P12.1) WILD-TYPE"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "DEL PEAK 25(20P12.1) MUTATED" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 25(20P12.1) WILD-TYPE"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-PK-A5HB 
  "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 25(20P12.1) MUTATED"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 25(20P12.1) WILD-TYPE"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
"DEL PEAK 25(20P12.1) WILD-TYPE"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
  "DEL PEAK 25(20P12.1) MUTATED" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 25(20P12.1) WILD-TYPE"   "DEL PEAK 25(20P12.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
"DEL PEAK 25(20P12.1) WILD-TYPE" "DEL PEAK 25(20P12.1) WILD-TYPE" 
                    TCGA-PK-A5HB 
  "DEL PEAK 25(20P12.1) MUTATED" 
[1] "hr=" "5.7"
D41V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 25(20P12.1) MUTATED         0        3         0        3
  DEL PEAK 25(20P12.1) WILD-TYPE       4       10         4        5
D41V3, multiclass
           clus
vv          DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE
  STAGE I                              0                              4
  STAGE II                             3                             10
  STAGE III                            0                              4
  STAGE IV                             3                              5
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK 25(20P12.1) MUTATED    0     3  3
  DEL PEAK 25(20P12.1) WILD-TYPE  4    13  6
D41V4, multiclass
       clus
vv      DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE
  T1                               0                              4
  T2+T3                            3                             13
  T4                               3                              6
D41V5, binary
                                cls
clus                              0  1
  DEL PEAK 25(20P12.1) MUTATED    6  0
  DEL PEAK 25(20P12.1) WILD-TYPE 20  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(20P12.1) MUTATED      6    0
  DEL PEAK 25(20P12.1) WILD-TYPE   20    4
   clus
vv  DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE
  0                            6                             20
  1                            0                              4
D41V6, binary
                                cls
clus                              0  1
  DEL PEAK 25(20P12.1) MUTATED    5  2
  DEL PEAK 25(20P12.1) WILD-TYPE 12 14
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(20P12.1) MUTATED      5    2
  DEL PEAK 25(20P12.1) WILD-TYPE   12   14
        clus
vv       DEL PEAK 25(20P12.1) MUTATED DEL PEAK 25(20P12.1) WILD-TYPE
  FEMALE                            5                             12
  MALE                              2                             14

Clustering(42) Variable = DEL PEAK 26(22Q12.1) MUTATION ANALYSIS
D42V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 26(22Q12.1) MUTATED   11  7
  DEL PEAK 26(22Q12.1) WILD-TYPE 14  1
  DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE 
                            18                             15 
  DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE 
                             7                              1 
$`DEL PEAK 26(22Q12.1) MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JK 
       30.31        18.12        57.53        17.79        46.82        41.26 
TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       22.16       121.25        50.66        63.25        31.23        18.15 
TCGA-OR-A5K2 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HA 
       32.68         8.32        11.31        23.31        10.09        27.29 

$`DEL PEAK 26(22Q12.1) WILD-TYPE`
TCGA-OR-A5JF TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JS 
       41.39        10.16        22.03        18.48        29.23        12.59 
TCGA-OR-A5JT TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 
       16.04         6.94        33.83        89.52        93.44        17.36 
TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-PK-A5HB 
       37.15        73.05        42.51 

  DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE 
                          8.32                           6.94 
  DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE 
                        121.25                          93.44 
  DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE 
                         28.80                          29.23 
[1] "8.3 - 121.2 (28.8)" "6.9 - 93.4 (29.2)" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 26(22Q12.1) WILD-TYPE" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 26(22Q12.1) WILD-TYPE" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-PK-A5HB 
"DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 26(22Q12.1) WILD-TYPE" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 26(22Q12.1) WILD-TYPE" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-PK-A5HB 
"DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JA                     TCGA-OR-A5JB 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JC                     TCGA-OR-A5JF 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JG                     TCGA-OR-A5JI 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JJ                     TCGA-OR-A5JK 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JL                     TCGA-OR-A5JM 
"DEL PEAK 26(22Q12.1) WILD-TYPE" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JO                     TCGA-OR-A5JQ 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JR                     TCGA-OR-A5JS 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5JT                     TCGA-OR-A5JV 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JW                     TCGA-OR-A5JX 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5JY                     TCGA-OR-A5JZ 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5K0                     TCGA-OR-A5K1 
"DEL PEAK 26(22Q12.1) WILD-TYPE" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5K2                     TCGA-OR-A5K3 
  "DEL PEAK 26(22Q12.1) MUTATED" "DEL PEAK 26(22Q12.1) WILD-TYPE" 
                    TCGA-OR-A5K4                     TCGA-OR-A5K5 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5K6                     TCGA-OR-A5K9 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-OR-A5LK                     TCGA-OU-A5PI 
"DEL PEAK 26(22Q12.1) WILD-TYPE"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-PK-A5H9                     TCGA-PK-A5HA 
  "DEL PEAK 26(22Q12.1) MUTATED"   "DEL PEAK 26(22Q12.1) MUTATED" 
                    TCGA-PK-A5HB 
"DEL PEAK 26(22Q12.1) WILD-TYPE" 
[1] "hr=" "5.7"
D42V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 26(22Q12.1) MUTATED         2        4         3        6
  DEL PEAK 26(22Q12.1) WILD-TYPE       2        9         1        2
D42V3, multiclass
           clus
vv          DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE
  STAGE I                              2                              2
  STAGE II                             4                              9
  STAGE III                            3                              1
  STAGE IV                             6                              2
                                vv
clus                             T1 T2+T3 T4
  DEL PEAK 26(22Q12.1) MUTATED    2     7  6
  DEL PEAK 26(22Q12.1) WILD-TYPE  2     9  3
D42V4, multiclass
       clus
vv      DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE
  T1                               2                              2
  T2+T3                            7                              9
  T4                               6                              3
D42V5, binary
                                cls
clus                              0  1
  DEL PEAK 26(22Q12.1) MUTATED   13  3
  DEL PEAK 26(22Q12.1) WILD-TYPE 13  1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(22Q12.1) MUTATED     13    3
  DEL PEAK 26(22Q12.1) WILD-TYPE   13    1
   clus
vv  DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE
  0                           13                             13
  1                            3                              1
D42V6, binary
                                cls
clus                              0  1
  DEL PEAK 26(22Q12.1) MUTATED    8 10
  DEL PEAK 26(22Q12.1) WILD-TYPE  9  6
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(22Q12.1) MUTATED      8   10
  DEL PEAK 26(22Q12.1) WILD-TYPE    9    6
        clus
vv       DEL PEAK 26(22Q12.1) MUTATED DEL PEAK 26(22Q12.1) WILD-TYPE
  FEMALE                            8                              9
  MALE                             10                              6
> q(save="no")
