[1] "ofn"        "-oTPAAD-TP"
[1] "opt"       "-OPMUTSIG"
[1] "tl" ""  
[1] "dx" ""  
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/PAAD-TP/22507097/PAAD-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/PAAD-TP/22533736/transformed.cor.cli.txt"

nPatients in clinical file=185, in cluster file=184, common to both=184
[1]  56 184
[1] "AMP PEAK  1(1P34.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                           13                           171 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                           13                           171 
[1] "AMP PEAK  2(1P12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         27                         157 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         27                         157 
[1] "AMP PEAK  3(1Q21.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           62                           122 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           62                           122 
[1] "AMP PEAK  4(2Q36.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           26                           158 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           26                           158 
[1] "AMP PEAK  5(3P12.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                           12                           172 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                           12                           172 
[1] "AMP PEAK  6(3Q26.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           32                           152 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           32                           152 
[1] "AMP PEAK  7(4P16.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                           15                           169 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                           15                           169 
[1] "AMP PEAK  8(6P21.31) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                            12                            172 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                            12                            172 
[1] "AMP PEAK  9(7Q22.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           56                           128 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           56                           128 
[1] "AMP PEAK 10(8P11.22) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            34                            150 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            34                            150 
[1] "AMP PEAK 11(8P11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            34                            150 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            34                            150 
[1] "AMP PEAK 12(8Q24.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            74                            110 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            74                            110 
[1] "AMP PEAK 13(9P13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                           24                           160 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                           24                           160 
[1] "AMP PEAK 14(12P13.33) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             39                             145 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             39                             145 
[1] "AMP PEAK 15(12P11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             43                             141 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             43                             141 
[1] "AMP PEAK 16(12Q15) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                          29                          155 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                          29                          155 
[1] "AMP PEAK 17(15Q26.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                            22                            162 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                            22                            162 
[1] "AMP PEAK 18(17P11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                            15                            169 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                            15                            169 
[1] "AMP PEAK 19(17Q12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          31                          153 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          31                          153 
[1] "AMP PEAK 20(18Q11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            56                            128 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            56                            128 
[1] "AMP PEAK 21(19Q13.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE 
                            47                            137 
  AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE 
                            47                            137 
[1] "AMP PEAK 22(20P11.23) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE 
                             38                             146 
  AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE 
                             38                             146 
[1] "AMP PEAK 23(XQ28) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE 
                         20                         164 
  AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE 
                         20                         164 
[1] "DEL PEAK  1(1P36.11) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE 
                            68                            116 
  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE 
                            68                            116 
[1] "DEL PEAK  2(2Q14.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE 
                            9                           175 
  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE 
                            9                           175 
[1] "DEL PEAK  3(3P21.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE 
                            51                            133 
  DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE 
                            51                            133 
[1] "DEL PEAK  4(4Q22.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE 
                           27                           157 
  DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE 
                           27                           157 
[1] "DEL PEAK  5(4Q34.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE 
                           35                           149 
  DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE 
                           35                           149 
[1] "DEL PEAK  6(5Q14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE 
                           35                           149 
  DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE 
                           35                           149 
[1] "DEL PEAK  7(6P25.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE 
                           74                           110 
  DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE 
                           74                           110 
[1] "DEL PEAK  8(6P22.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE 
                           70                           114 
  DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE 
                           70                           114 
[1] "DEL PEAK  9(6Q25.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE 
                           91                            93 
  DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE 
                           91                            93 
[1] "DEL PEAK 10(7Q31.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE 
                           15                           169 
  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE 
                           15                           169 
[1] "DEL PEAK 11(7Q36.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE 
                           15                           169 
  DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE 
                           15                           169 
[1] "DEL PEAK 12(8P21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE 
                           62                           122 
  DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE 
                           62                           122 
[1] "DEL PEAK 13(9P21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE 
                          116                            68 
  DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE 
                          116                            68 
[1] "DEL PEAK 14(10P15.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE 
                            41                            143 
  DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE 
                            41                            143 
[1] "DEL PEAK 15(10Q23.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE 
                             35                             149 
  DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE 
                             35                             149 
[1] "DEL PEAK 16(11P15.4) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE 
                            29                            155 
  DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE 
                            29                            155 
[1] "DEL PEAK 17(12P13.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE 
                            29                            155 
  DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE 
                            29                            155 
[1] "DEL PEAK 18(12Q24.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE 
                             43                             141 
  DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE 
                             43                             141 
[1] "DEL PEAK 19(14Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE 
                            20                            164 
  DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE 
                            20                            164 
[1] "DEL PEAK 20(15Q15.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE 
                            36                            148 
  DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE 
                            36                            148 
[1] "DEL PEAK 21(16Q23.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE 
                            19                            165 
  DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE 
                            19                            165 
[1] "DEL PEAK 22(17P12) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE 
                          89                           95 
  DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE 
                          89                           95 
[1] "DEL PEAK 23(17Q22) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE 
                          49                          135 
  DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE 
                          49                          135 
[1] "DEL PEAK 24(18P11.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE 
                             54                             130 
  DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE 
                             54                             130 
[1] "DEL PEAK 25(18Q21.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE 
                           126                             58 
  DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE 
                           126                             58 
[1] "DEL PEAK 26(19P13.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE 
                            36                            148 
  DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE 
                            36                            148 
[1] "DEL PEAK 27(19P13.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE 
                            28                            156 
  DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE 
                            28                            156 
[1] "DEL PEAK 28(19Q13.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE 
                             22                             162 
  DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE 
                             22                             162 
[1] "DEL PEAK 29(21Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE 
                            62                            122 
  DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE 
                            62                            122 
[1] "DEL PEAK 30(22Q13.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE 
                             60                             124 
  DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE 
                             60                             124 
[1] "DEL PEAK 31(22Q13.32) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE 
                             61                             123 
  DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE 
                             61                             123 
[1] "DEL PEAK 32(XP21.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE 
                           28                           156 
  DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE 
                           28                           156 
[1] "DEL PEAK 33(XQ11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE 
                           23                           161 
  DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE 
                           23                           161 
[1] "data2feature, selection=ALL"
 [1] "YEARS_TO_BIRTH"                      
 [2] "VITAL_STATUS"                        
 [3] "DAYS_TO_DEATH"                       
 [4] "DAYS_TO_LAST_FOLLOWUP"               
 [5] "TUMOR_TISSUE_SITE"                   
 [6] "PATHOLOGIC_STAGE"                    
 [7] "PATHOLOGY_T_STAGE"                   
 [8] "PATHOLOGY_N_STAGE"                   
 [9] "PATHOLOGY_M_STAGE"                   
[10] "GENDER"                              
[11] "DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS"
[12] "RADIATION_THERAPY"                   
[13] "HISTOLOGICAL_TYPE"                   
[14] "NUMBER_PACK_YEARS_SMOKED"            
[15] "YEAR_OF_TOBACCO_SMOKING_ONSET"       
[16] "RESIDUAL_TUMOR"                      
[17] "NUMBER_OF_LYMPH_NODES"               
[18] "RACE"                                
[19] "ETHNICITY"                           

Input Data has 19 rows and 184 columns.

[1] "Last Follow UP"
Variable 1:'YEARS_TO_BIRTH':	nDistinctValues=46,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITAL_STATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYS_TO_DEATH':	nDistinctValues=96,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DAYS_?TO', vnms) to deal with survival parameters seperately"
Variable 4:'DAYS_TO_LAST_FOLLOWUP':	nDistinctValues=83,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('FOLLOWUP', vnms) to deal with survival parameters seperately"
Variable 5:'TUMOR_TISSUE_SITE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "TUMOR_TISSUE_SITE is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 6:'PATHOLOGIC_STAGE':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY_T_STAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY_N_STAGE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'PATHOLOGY_M_STAGE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS':	nDistinctValues=8,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DATE', vnms) to deal with survival parameters seperately"
Variable 12:'RADIATION_THERAPY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'HISTOLOGICAL_TYPE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'NUMBER_PACK_YEARS_SMOKED':	nDistinctValues=31,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 15:'YEAR_OF_TOBACCO_SMOKING_ONSET':	nDistinctValues=29,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 16:'RESIDUAL_TUMOR':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NUMBER_OF_LYMPH_NODES':	nDistinctValues=16,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'RACE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'ETHNICITY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "## **** detect survival parameters (defined in index such as ind_OS, ind_MFS, ind_RFS, ind_RFS, ind_BCR and ind_d2ssd) *** ##"
[1] "detected survival parameters using [ind_OS, overall_survival]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_OS, curated_overall_survival]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_TCGAOS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survivial parameters using [ind_MFS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_RFS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_BCR]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_Progression]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [index_additional_survival_time]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using condition: [is.null(surv.mat)&&(selection=='SURV')]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "************ conversion from categorical data to rank data ********** "
[1] "PATHOLOGY_T_STAGE is converted to numeric rank data using modified categoies"
[1] "PATHOLOGY_N_STAGE is converted to numeric rank data using modified categoies"
[1] "PATHOLOGY_M_STAGE is converted to rank data using modified categoies"
[1] "****** SUMMARY ***** "
Output Data has 184 columns, 1 survival variables, and 14 non-survival variables.
[1] "* survival variables: "
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "* non-survival variables: "
 [1] "YEARS_TO_BIRTH"                "PATHOLOGIC_STAGE"             
 [3] "PATHOLOGY_T_STAGE"             "PATHOLOGY_N_STAGE"            
 [5] "PATHOLOGY_M_STAGE"             "GENDER"                       
 [7] "RADIATION_THERAPY"             "HISTOLOGICAL_TYPE"            
 [9] "NUMBER_PACK_YEARS_SMOKED"      "YEAR_OF_TOBACCO_SMOKING_ONSET"
[11] "RESIDUAL_TUMOR"                "NUMBER_OF_LYMPH_NODES"        
[13] "RACE"                          "ETHNICITY"                    
YEARS_TO_BIRTH, nv=46, binary=FALSE, numeric=TRUE
PATHOLOGIC_STAGE, nv=7, binary=FALSE, numeric=FALSE
PATHOLOGY_T_STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T1  T2  T3  T4 
  7  24 147   4 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
  7  24 147   4 
$ClinVariableName
[1] "PATHOLOGY_T_STAGE"

$Table
vv
 T1  T2  T3  T4 
  7  24 147   4 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
  7  24 147   4 
PATHOLOGY_N_STAGE, nv=2, binary=FALSE, numeric=TRUE
PATHOLOGY_M_STAGE, nv=2, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
RADIATION_THERAPY, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL_TYPE, nv=4, binary=FALSE, numeric=FALSE
NUMBER_PACK_YEARS_SMOKED, nv=31, binary=FALSE, numeric=TRUE
YEAR_OF_TOBACCO_SMOKING_ONSET, nv=29, binary=FALSE, numeric=TRUE
RESIDUAL_TUMOR, nv=4, binary=FALSE, numeric=FALSE
NUMBER_OF_LYMPH_NODES, nv=16, binary=FALSE, numeric=TRUE
RACE, nv=3, binary=FALSE, numeric=FALSE
ETHNICITY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = AMP PEAK  1(1P34.2) MUTATION ANALYSIS
D1V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  1(1P34.2) MUTATED    4  9
  AMP PEAK  1(1P34.2) WILD-TYPE 79 91
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                           13                           170 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                            9                            91 
$`AMP PEAK  1(1P34.2) MUTATED`
TCGA-HZ-7289 TCGA-IB-7654 TCGA-2J-AAB6 TCGA-2J-AABF TCGA-2J-AABP TCGA-FB-AAQ2 
       21.73        15.65         9.63        22.72        15.22         5.03 
TCGA-FZ-5923 TCGA-HZ-7925 TCGA-HZ-8637 TCGA-HZ-A9TJ TCGA-IB-AAUM TCGA-RB-A7B8 
       20.35        20.19        17.00        19.82         0.26        15.32 
TCGA-US-A776 
       39.98 

$`AMP PEAK  1(1P34.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-A5SS 
        8.02        15.78        13.84        21.60         1.08        15.12 
TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 
       12.92        17.26        14.14        16.37         2.17        23.97 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI 
        2.63        20.61        19.96        22.22        42.31        31.86 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       15.91        14.47         9.11        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 
        3.39        12.95         9.60        45.47        43.50        20.84 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
        7.36        24.26        33.57        68.52        63.85        50.70 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 
       32.81        15.06        36.26        34.09        10.13        24.43 
TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 
       75.12        71.74        10.98         9.70        19.46         7.10 
TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
       19.27         3.12        17.00         5.88        24.07        16.37 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       12.33        11.61        15.95        37.15         7.50        12.53 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FZ-5919 
       34.82        23.54        15.55         4.04         1.02        24.36 
TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 
        2.01         5.10        36.20        17.79        12.89        22.06 
TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP 
        4.21         7.63         9.50        66.94         8.28        32.15 
TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       30.25        17.49        31.86        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
       10.32        27.62        17.03        23.21        12.03        19.59 
TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
        3.95         9.83        12.43        14.93        17.92         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P 
       21.70        16.14        10.13         6.38         5.26        10.85 
TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 
        0.23        12.95        49.38         4.77        21.90        15.35 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 
       19.82        36.69        41.33         4.04         3.62        43.79 
TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 
       15.81        19.66        30.02         3.85        15.98        15.19 
TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF 
       17.16        12.00        15.85         7.20        20.88        21.90 
TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP 
        1.35         8.22        15.88         4.73         7.86        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        6.02        11.11         7.40         9.44         8.05        13.28 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
        7.56         9.14        12.46        10.29        19.20         8.78 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM 
       15.45        13.68         3.12         9.40         0.30        24.23 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG 
       23.08        22.85        16.80         0.39        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY 
       12.99        12.03        31.27        23.67        11.51        12.76 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28        15.35 

  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                         0.26                          0.13 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                        39.98                         90.12 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                       17.000                        15.155 
[1] "0.3 - 40.0 (17.0)" "0.1 - 90.1 (15.2)"
[1] "hr=" "1.3"
D1V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  1(1P34.2) MUTATED         0        0        0         2         9
  AMP PEAK  1(1P34.2) WILD-TYPE       1        5       15        28       112
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  1(1P34.2) MUTATED           0        2
  AMP PEAK  1(1P34.2) WILD-TYPE         5        3
D1V3, multiclass
           clus
vv          AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            0                            15
  STAGE IIA                           2                            28
  STAGE IIB                           9                           112
  STAGE III                           0                             5
  STAGE IV                            2                             3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  AMP PEAK  1(1P34.2) MUTATED     0   2  10   1
  AMP PEAK  1(1P34.2) WILD-TYPE   7  22 137   3
D1V4, multiclass
    clus
vv   AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  T1                           0                             7
  T2                           2                            22
  T3                          10                           137
  T4                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V5, binary
                               cls
clus                              0   1
  AMP PEAK  1(1P34.2) MUTATED     3  10
  AMP PEAK  1(1P34.2) WILD-TYPE  47 119
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      3   10
  AMP PEAK  1(1P34.2) WILD-TYPE   47  119
   clus
vv  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  0                           3                            47
  1                          10                           119
[1] 2 2
[1] FALSE
D1V6, binary
                               cls
clus                             0  1
  AMP PEAK  1(1P34.2) MUTATED    5  2
  AMP PEAK  1(1P34.2) WILD-TYPE 80  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      5    2
  AMP PEAK  1(1P34.2) WILD-TYPE   80    3
   clus
vv  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  0                           5                            80
  1                           2                             3
[1] 2 2
[1] FALSE
D1V7, binary
                               cls
clus                             0  1
  AMP PEAK  1(1P34.2) MUTATED    4  9
  AMP PEAK  1(1P34.2) WILD-TYPE 79 92
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      4    9
  AMP PEAK  1(1P34.2) WILD-TYPE   79   92
        clus
vv       AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  FEMALE                           4                            79
  MALE                             9                            92
[1] 2 2
[1] FALSE
D1V8, binary
                               cls
clus                              0   1
  AMP PEAK  1(1P34.2) MUTATED    11   2
  AMP PEAK  1(1P34.2) WILD-TYPE 114  42
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED     11    2
  AMP PEAK  1(1P34.2) WILD-TYPE  114   42
     clus
vv    AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  NO                           11                           114
  YES                           2                            42
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  1(1P34.2) MUTATED                                     8
  AMP PEAK  1(1P34.2) WILD-TYPE                                 145
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  1(1P34.2) MUTATED                                       3
  AMP PEAK  1(1P34.2) WILD-TYPE                                    22
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK  1(1P34.2) MUTATED                                                  1
  AMP PEAK  1(1P34.2) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK  1(1P34.2) MUTATED                                     1
  AMP PEAK  1(1P34.2) WILD-TYPE                                   0
D1V9, multiclass
                                                  clus
vv                                                 AMP PEAK  1(1P34.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        8
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 AMP PEAK  1(1P34.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        145
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       22
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V10, continuous
[1] "Remove cluster labels:"      "AMP PEAK  1(1P34.2) MUTATED"
clus
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                            1                            55 
                   TCGA-3A-A9IJ                    TCGA-H6-A45N 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-HZ-A77Q                    TCGA-HZ-A8P0 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-A5SS                    TCGA-LB-A7SX 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-XD-AAUL                    TCGA-2J-AAB1 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-2J-AABA                    TCGA-2J-AABE 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-2J-AABI                    TCGA-2J-AABO 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-2J-AABV                    TCGA-2L-AAQA 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-2L-AAQE                    TCGA-3A-A9I9 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-3A-A9IB                    TCGA-3A-A9IX 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-F2-6880                    TCGA-F2-A8YN 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-FB-A4P5                    TCGA-FB-A5VM 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-FB-A78T                    TCGA-FB-A7DR 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-FB-AAPQ                    TCGA-FB-AAPS 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-FB-AAPY                    TCGA-H6-8124 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-H8-A6C1                    TCGA-HV-AA8V 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-HZ-A8P1                    TCGA-IB-7644 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-7649                    TCGA-IB-7651 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-7885                    TCGA-IB-7886 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-7887                    TCGA-IB-7891 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-8126                    TCGA-IB-8127 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-A6UF                    TCGA-IB-A6UG 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-A7M4                    TCGA-IB-AAUQ 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-AAUS                    TCGA-IB-AAUT 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-AAUU                    TCGA-IB-AAUV 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LB-A9Q5                    TCGA-OE-A75W 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-S4-A8RM                    TCGA-S4-A8RP 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-US-A774                    TCGA-XN-A8T5 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-YY-A8LH 
"AMP PEAK  1(1P34.2) WILD-TYPE" 
D1V11, continuous
[1] "Remove cluster labels:"      "AMP PEAK  1(1P34.2) MUTATED"
clus
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                            1                            45 
                   TCGA-3A-A9IJ                    TCGA-HZ-A77Q 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-HZ-A8P0                    TCGA-IB-A5SS 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LB-A7SX                    TCGA-XD-AAUL 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-2J-AAB1                    TCGA-2J-AABE 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-2J-AABI                    TCGA-2J-AABO 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-3A-A9IB                    TCGA-3A-A9IR 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-3A-A9IX                    TCGA-FB-A4P5 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-FB-A5VM                    TCGA-FB-A78T 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-FB-A7DR                    TCGA-FB-AAPQ 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-FB-AAPS                    TCGA-FB-AAPY 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-H6-8124                    TCGA-H8-A6C1 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-HZ-A8P1                    TCGA-IB-7644 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-7649                    TCGA-IB-7651 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-7885                    TCGA-IB-7886 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-7891                    TCGA-IB-8126 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-8127                    TCGA-IB-A6UF 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-A6UG                    TCGA-IB-A7M4 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-AAUQ                    TCGA-IB-AAUS 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-AAUT                    TCGA-IB-AAUV 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LB-A9Q5                    TCGA-OE-A75W 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-S4-A8RM                    TCGA-US-A774 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-XD-AAUI                    TCGA-XN-A8T5 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-YY-A8LH 
"AMP PEAK  1(1P34.2) WILD-TYPE" 
                               vv
clus                             R0  R1  R2  RX
  AMP PEAK  1(1P34.2) MUTATED    10   2   0   1
  AMP PEAK  1(1P34.2) WILD-TYPE 101  51   5   3
D1V12, multiclass
    clus
vv   AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  R0                          10                           101
  R1                           2                            51
  R2                           0                             5
  RX                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  1(1P34.2) MUTATED       0                         0    13
  AMP PEAK  1(1P34.2) WILD-TYPE    11                         7   148
D1V14, multiclass
                           clus
vv                          AMP PEAK  1(1P34.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              13
                           clus
vv                          AMP PEAK  1(1P34.2) WILD-TYPE
  ASIAN                                                11
  BLACK OR AFRICAN AMERICAN                             7
  WHITE                                               148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V15, binary
                               cls
clus                              0   1
  AMP PEAK  1(1P34.2) MUTATED     1   9
  AMP PEAK  1(1P34.2) WILD-TYPE   4 127
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      1    9
  AMP PEAK  1(1P34.2) WILD-TYPE    4  127
                        clus
vv                       AMP PEAK  1(1P34.2) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                           9
                        clus
vv                       AMP PEAK  1(1P34.2) WILD-TYPE
  HISPANIC OR LATINO                                 4
  NOT HISPANIC OR LATINO                           127
[1] 2 2
[1] FALSE

Clustering(2) Variable = AMP PEAK  2(1P12) MUTATION ANALYSIS
D2V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  2(1P12) MUTATED   11 16
  AMP PEAK  2(1P12) WILD-TYPE 72 84
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         27                         156 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         16                          84 
$`AMP PEAK  2(1P12) MUTATED`
TCGA-FZ-5924 TCGA-S4-A8RO TCGA-2J-AABF TCGA-2J-AABP TCGA-2L-AAQI TCGA-3A-A9J0 
       15.78        17.26        22.72        15.22         3.39        24.43 
TCGA-FB-A78T TCGA-FB-AAPQ TCGA-FB-AAQ3 TCGA-FZ-5920 TCGA-FZ-5923 TCGA-HV-A5A5 
       12.33        37.15         1.02         2.01        20.35         9.50 
TCGA-HZ-7925 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7645 
       20.19        17.92        17.00         0.23        19.82        49.38 
TCGA-IB-7889 TCGA-IB-7893 TCGA-IB-A6UG TCGA-IB-AAUM TCGA-LB-A8F3 TCGA-M8-A5N4 
       15.81         3.85         1.35         0.26        12.46        19.20 
TCGA-RB-A7B8 TCGA-S4-A8RM TCGA-US-A776 
       15.32        24.23        39.98 

$`AMP PEAK  2(1P12) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
        8.02        13.84        21.73        21.60         1.08        15.65 
TCGA-IB-A5SS TCGA-LB-A7SX TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 
       15.12        12.92        14.14        16.37         2.17        23.97 
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABH 
        9.63         2.63        20.61        19.96        22.22        42.31 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       31.86        15.91        14.47         9.11        21.44         4.70 
TCGA-2L-AAQE TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 
       22.49        12.95         9.60        45.47        43.50        20.84 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
        7.36        24.26        33.57        68.52        63.85        50.70 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY 
       32.81        15.06        36.26        34.09        10.13        75.12 
TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H 
       71.74        10.98         9.70        19.46         7.10        19.27 
TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A7DR 
        3.12        17.00         5.88        24.07        16.37        11.61 
TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 
       15.95         7.50        12.53        34.82        23.54        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5926 
        4.04         5.03        24.36         5.10        36.20        17.79 
TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A6 TCGA-HV-A7OL 
       12.89        22.06         4.21         7.63        66.94         8.28 
TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 
       32.15        30.25        17.49        31.86        19.50         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.13        10.32        27.62        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 
       19.59         3.95         9.83        12.43        14.93         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P 
       21.70        16.14        10.13         6.38         5.26        10.85 
TCGA-IB-7644 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
       12.95         4.77        21.90        15.35        19.82        36.69 
TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7890 TCGA-IB-7891 
       41.33         4.04         3.62        43.79        19.66        30.02 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98        15.19        17.16        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUO 
       20.88        21.90         8.22        15.88         4.73         7.86 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
       14.17         6.02        11.11         7.40         9.44         8.05 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE 
       13.28         7.56         9.14        10.29         8.78        15.45 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RP TCGA-US-A774 
       13.68         3.12         9.40         0.30        23.08        22.85 
TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI 
       16.80         0.39        18.67        13.81        12.99        12.03 
TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       31.27        23.67        11.51        12.76        66.28        15.35 

  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                       0.23                        0.13 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                      49.38                       90.12 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                     15.810                      15.155 
[1] "0.2 - 49.4 (15.8)" "0.1 - 90.1 (15.2)"
[1] "hr=" "1.2"
D2V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  2(1P12) MUTATED         0        0        1         5        18
  AMP PEAK  2(1P12) WILD-TYPE       1        5       14        25       103
                             vv
clus                          STAGE III STAGE IV
  AMP PEAK  2(1P12) MUTATED           0        3
  AMP PEAK  2(1P12) WILD-TYPE         5        2
D2V3, multiclass
           clus
vv          AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  STAGE I                           0                           1
  STAGE IA                          0                           5
  STAGE IB                          1                          14
  STAGE IIA                         5                          25
  STAGE IIB                        18                         103
  STAGE III                         0                           5
  STAGE IV                          3                           2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                           T1  T2  T3  T4
  AMP PEAK  2(1P12) MUTATED     0   2  24   1
  AMP PEAK  2(1P12) WILD-TYPE   7  22 123   3
D2V4, multiclass
    clus
vv   AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  T1                         0                           7
  T2                         2                          22
  T3                        24                         123
  T4                         1                           3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V5, binary
                             cls
clus                            0   1
  AMP PEAK  2(1P12) MUTATED     7  20
  AMP PEAK  2(1P12) WILD-TYPE  43 109
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED      7   20
  AMP PEAK  2(1P12) WILD-TYPE   43  109
   clus
vv  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  0                         7                          43
  1                        20                         109
[1] 2 2
[1] FALSE
D2V6, binary
                             cls
clus                           0  1
  AMP PEAK  2(1P12) MUTATED   12  3
  AMP PEAK  2(1P12) WILD-TYPE 73  2
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED     12    3
  AMP PEAK  2(1P12) WILD-TYPE   73    2
   clus
vv  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  0                        12                          73
  1                         3                           2
[1] 2 2
[1] FALSE
D2V7, binary
                             cls
clus                           0  1
  AMP PEAK  2(1P12) MUTATED   12 15
  AMP PEAK  2(1P12) WILD-TYPE 71 86
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED     12   15
  AMP PEAK  2(1P12) WILD-TYPE   71   86
        clus
vv       AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  FEMALE                        12                          71
  MALE                          15                          86
[1] 2 2
[1] FALSE
D2V8, binary
                             cls
clus                            0   1
  AMP PEAK  2(1P12) MUTATED    20   5
  AMP PEAK  2(1P12) WILD-TYPE 105  39
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED     20    5
  AMP PEAK  2(1P12) WILD-TYPE  105   39
     clus
vv    AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  NO                         20                         105
  YES                         5                          39
[1] 2 2
[1] FALSE
                             vv
clus                          PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  2(1P12) MUTATED                                    23
  AMP PEAK  2(1P12) WILD-TYPE                                 130
                             vv
clus                          PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  2(1P12) MUTATED                                       2
  AMP PEAK  2(1P12) WILD-TYPE                                    23
                             vv
clus                          PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK  2(1P12) MUTATED                                                  1
  AMP PEAK  2(1P12) WILD-TYPE                                                3
                             vv
clus                          PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK  2(1P12) MUTATED                                     1
  AMP PEAK  2(1P12) WILD-TYPE                                   0
D2V9, multiclass
                                                  clus
vv                                                 AMP PEAK  2(1P12) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                     23
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                    2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                         1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                      1
                                                  clus
vv                                                 AMP PEAK  2(1P12) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      130
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     23
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V10, continuous
D2V11, continuous
                             vv
clus                          R0 R1 R2 RX
  AMP PEAK  2(1P12) MUTATED   20  6  0  0
  AMP PEAK  2(1P12) WILD-TYPE 91 47  5  4
D2V12, multiclass
    clus
vv   AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  R0                        20                          91
  R1                         6                          47
  R2                         0                           5
  RX                         0                           4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V13, continuous
                             vv
clus                          ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  2(1P12) MUTATED       1                         2    22
  AMP PEAK  2(1P12) WILD-TYPE    10                         5   139
D2V14, multiclass
                           clus
vv                          AMP PEAK  2(1P12) MUTATED
  ASIAN                                             1
  BLACK OR AFRICAN AMERICAN                         2
  WHITE                                            22
                           clus
vv                          AMP PEAK  2(1P12) WILD-TYPE
  ASIAN                                              10
  BLACK OR AFRICAN AMERICAN                           5
  WHITE                                             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V15, binary
                             cls
clus                            0   1
  AMP PEAK  2(1P12) MUTATED     1  20
  AMP PEAK  2(1P12) WILD-TYPE   4 116
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED      1   20
  AMP PEAK  2(1P12) WILD-TYPE    4  116
                        clus
vv                       AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  HISPANIC OR LATINO                             1                           4
  NOT HISPANIC OR LATINO                        20                         116
[1] 2 2
[1] FALSE

Clustering(3) Variable = AMP PEAK  3(1Q21.3) MUTATION ANALYSIS
D3V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  3(1Q21.3) MUTATED   26 35
  AMP PEAK  3(1Q21.3) WILD-TYPE 57 65
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           61                           122 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           35                            65 
$`AMP PEAK  3(1Q21.3) MUTATED`
TCGA-3A-A9I5 TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-S4-A8RO TCGA-2J-AAB6 TCGA-2J-AAB8 
       58.98         8.02        15.78        17.26         9.63         2.63 
TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABP 
       22.22        22.72        42.31        31.86        15.91        15.22 
TCGA-2L-AAQA TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9IC TCGA-3A-A9IU TCGA-3A-A9J0 
        4.70        12.95         9.60        24.26        15.06        24.43 
TCGA-3E-AAAZ TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPU TCGA-FB-AAQ0 
       71.74        12.33        15.95        37.15        12.53        15.55 
TCGA-FZ-5920 TCGA-FZ-5923 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 
        2.01        20.35        22.06         4.21         7.63         9.50 
TCGA-HV-A7OP TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7925 TCGA-HZ-8636 TCGA-HZ-8637 
       32.15        17.49        31.86        20.19        17.92        17.00 
TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7651 
        5.26         0.23        19.82        49.38         4.77        19.82 
TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SQ 
        4.04        15.81        30.02         3.85        17.16         7.20 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUM TCGA-LB-A8F3 TCGA-M8-A5N4 
       21.90         1.35         8.22         0.26        12.46        19.20 
TCGA-RB-A7B8 TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A776 TCGA-XN-A8T3 TCGA-YH-A8SY 
       15.32        24.23        23.08        39.98        31.27        12.76 
TCGA-YY-A8LH 
       66.28 

$`AMP PEAK  3(1Q21.3) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-H6-A45N 
       14.40        10.49        60.95        90.12         7.66        13.84 
TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX 
       21.73        21.60         1.08        15.65        15.12        12.92 
TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB9 TCGA-2J-AABA 
       14.14        16.37         2.17        23.97        20.61        19.96 
TCGA-2J-AABO TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQM 
       14.47         9.11        21.44        22.49         3.39        45.47 
TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO 
       43.50        20.84         7.36        33.57        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY 
       50.70        32.81        36.26        34.09        10.13        75.12 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX 
       10.98         9.70        19.46         7.10        19.27         3.12 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPS 
       17.00         5.88        24.07        16.37        11.61         7.50 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 
       34.82        23.54         4.04         5.03         1.02        24.36 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5926 TCGA-H6-8124 TCGA-HV-A5A6 TCGA-HV-A7OL 
        5.10        36.20        17.79        12.89        66.94         8.28 
TCGA-HV-AA8V TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
       30.25        19.50         7.76         0.13        10.32        27.62 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 
       17.03        23.21        12.03        19.59         3.95         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       12.43        14.93         4.96        21.70        16.14        10.13 
TCGA-HZ-A4BH TCGA-HZ-A77P TCGA-IB-7644 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7652 
        6.38        10.85        12.95        21.90        15.35        36.69 
TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7890 TCGA-IB-7897 TCGA-IB-8126 
       41.33         3.62        43.79        19.66        15.98        15.19 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUO 
       12.00        15.85        20.88        15.88         4.73         7.86 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
       14.17         6.02        11.11         7.40         9.44         8.05 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE 
       13.28         7.56         9.14        10.29         8.78        15.45 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-RL-AAAS TCGA-US-A774 TCGA-US-A779 
       13.68         3.12         9.40         0.30        22.85        16.80 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T5 
        0.39        18.67        13.81        12.99        12.03        23.67 
TCGA-YB-A89D TCGA-Z5-AAPL 
       11.51        15.35 

  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                         0.23                          0.13 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                        71.74                         90.12 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                       15.950                        14.435 
[1] "0.2 - 71.7 (15.9)" "0.1 - 90.1 (14.4)"
[1] "hr=" "1"  
D3V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  3(1Q21.3) MUTATED         0        1        3        15        37
  AMP PEAK  3(1Q21.3) WILD-TYPE       1        4       12        15        84
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  3(1Q21.3) MUTATED           2        3
  AMP PEAK  3(1Q21.3) WILD-TYPE         3        2
D3V3, multiclass
           clus
vv          AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            1                             4
  STAGE IB                            3                            12
  STAGE IIA                          15                            15
  STAGE IIB                          37                            84
  STAGE III                           2                             3
  STAGE IV                            3                             2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            T1 T2 T3 T4
  AMP PEAK  3(1Q21.3) MUTATED    1  6 52  2
  AMP PEAK  3(1Q21.3) WILD-TYPE  6 18 95  2
D3V4, multiclass
    clus
vv   AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  T1                           1                             6
  T2                           6                            18
  T3                          52                            95
  T4                           2                             2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V5, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED   21 40
  AMP PEAK  3(1Q21.3) WILD-TYPE 29 89
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED     21   40
  AMP PEAK  3(1Q21.3) WILD-TYPE   29   89
   clus
vv  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  0                          21                            29
  1                          40                            89
[1] 2 2
[1] FALSE
D3V6, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED   28  3
  AMP PEAK  3(1Q21.3) WILD-TYPE 57  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED     28    3
  AMP PEAK  3(1Q21.3) WILD-TYPE   57    2
   clus
vv  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  0                          28                            57
  1                           3                             2
[1] 2 2
[1] FALSE
D3V7, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED   24 38
  AMP PEAK  3(1Q21.3) WILD-TYPE 59 63
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED     24   38
  AMP PEAK  3(1Q21.3) WILD-TYPE   59   63
        clus
vv       AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  FEMALE                          24                            59
  MALE                            38                            63
[1] 2 2
[1] FALSE
D3V8, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED   40 17
  AMP PEAK  3(1Q21.3) WILD-TYPE 85 27
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED     40   17
  AMP PEAK  3(1Q21.3) WILD-TYPE   85   27
     clus
vv    AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  NO                           40                            85
  YES                          17                            27
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  3(1Q21.3) MUTATED                                    53
  AMP PEAK  3(1Q21.3) WILD-TYPE                                 100
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  3(1Q21.3) MUTATED                                       6
  AMP PEAK  3(1Q21.3) WILD-TYPE                                    19
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK  3(1Q21.3) MUTATED                                                  1
  AMP PEAK  3(1Q21.3) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK  3(1Q21.3) MUTATED                                     1
  AMP PEAK  3(1Q21.3) WILD-TYPE                                   0
D3V9, multiclass
                                                  clus
vv                                                 AMP PEAK  3(1Q21.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       53
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 AMP PEAK  3(1Q21.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        100
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       19
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V10, continuous
D3V11, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  3(1Q21.3) MUTATED   40 15  1  1
  AMP PEAK  3(1Q21.3) WILD-TYPE 71 38  4  3
D3V12, multiclass
    clus
vv   AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  R0                          40                            71
  R1                          15                            38
  R2                           1                             4
  RX                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  3(1Q21.3) MUTATED       6                         2    52
  AMP PEAK  3(1Q21.3) WILD-TYPE     5                         5   109
D3V14, multiclass
                           clus
vv                          AMP PEAK  3(1Q21.3) MUTATED
  ASIAN                                               6
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              52
                           clus
vv                          AMP PEAK  3(1Q21.3) WILD-TYPE
  ASIAN                                                 5
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                               109
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V15, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED    3 40
  AMP PEAK  3(1Q21.3) WILD-TYPE  2 96
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED      3   40
  AMP PEAK  3(1Q21.3) WILD-TYPE    2   96
                        clus
vv                       AMP PEAK  3(1Q21.3) MUTATED
  HISPANIC OR LATINO                               3
  NOT HISPANIC OR LATINO                          40
                        clus
vv                       AMP PEAK  3(1Q21.3) WILD-TYPE
  HISPANIC OR LATINO                                 2
  NOT HISPANIC OR LATINO                            96
[1] 2 2
[1] FALSE

Clustering(4) Variable = AMP PEAK  4(2Q36.2) MUTATION ANALYSIS
D4V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  4(2Q36.2) MUTATED   14 12
  AMP PEAK  4(2Q36.2) WILD-TYPE 69 88
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           26                           157 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           12                            88 
$`AMP PEAK  4(2Q36.2) MUTATED`
TCGA-S4-A8RO TCGA-2J-AABE TCGA-2J-AABO TCGA-2L-AAQL TCGA-3A-A9J0 TCGA-FB-A545 
       17.26        22.22        14.47         9.60        24.43        24.07 
TCGA-FB-AAPQ TCGA-FB-AAPZ TCGA-FZ-5921 TCGA-HV-A5A3 TCGA-HV-AA8X TCGA-HZ-7918 
       37.15        23.54         5.10         4.21        17.49        31.86 
TCGA-HZ-A77P TCGA-HZ-A9TJ TCGA-IB-7646 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7886 
       10.85        19.82         4.77        19.82        36.69         4.04 
TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-OE-A75W 
        3.85        17.16        15.85         8.05         9.14         8.78 
TCGA-YB-A89D TCGA-YH-A8SY 
       11.51        12.76 

$`AMP PEAK  4(2Q36.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 
       15.65        15.12        12.92        14.14        16.37         2.17 
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABF 
       23.97         9.63         2.63        20.61        19.96        22.72 
TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV 
       42.31        31.86        15.91        15.22         9.11        21.44 
TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQM TCGA-3A-A9I7 
        4.70        22.49         3.39        12.95        45.47        43.50 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO 
       20.84         7.36        24.26        33.57        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ 
       50.70        32.81        15.06        36.26        34.09        10.13 
TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 
       75.12        71.74        10.98         9.70        19.46         7.10 
TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T 
       19.27         3.12        17.00         5.88        16.37        12.33 
TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ0 
       11.61        15.95         7.50        12.53        34.82        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 
        4.04         5.03         1.02        24.36         2.01        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A5A5 
       20.35        17.79        12.89        22.06         7.63         9.50 
TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HZ-7919 TCGA-HZ-7920 
       66.94         8.28        32.15        30.25        19.50         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        0.13        10.32        27.62        20.19        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
       12.03        19.59         3.95         9.83        12.43        14.93 
TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       17.92        17.00         4.96        21.70        16.14        10.13 
TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 
        6.38         5.26         0.23        12.95        49.38        21.90 
TCGA-IB-7649 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 
       15.35        41.33         3.62        43.79        15.81        19.66 
TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST 
       30.02        15.98        15.19        12.00         7.20        20.88 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN 
       21.90         1.35         8.22        15.88         0.26         4.73 
TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        7.86        14.17         6.02        11.11         7.40         9.44 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE 
       13.28         7.56        12.46        10.29        19.20        15.45 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM 
       13.68         3.12        15.32         9.40         0.30        24.23 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J 
       23.08        22.85        39.98        16.80         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YY-A8LH 
       13.81        12.99        12.03        31.27        23.67        66.28 
TCGA-Z5-AAPL 
       15.35 

  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                         3.85                          0.13 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                        37.15                         90.12 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                        15.16                         15.35 
[1] "3.9 - 37.1 (15.2)" "0.1 - 90.1 (15.3)"
[1] "hr=" "1.1"
D4V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  4(2Q36.2) MUTATED         0        0        0         5        19
  AMP PEAK  4(2Q36.2) WILD-TYPE       1        5       15        25       102
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  4(2Q36.2) MUTATED           1        1
  AMP PEAK  4(2Q36.2) WILD-TYPE         4        4
D4V3, multiclass
           clus
vv          AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            0                            15
  STAGE IIA                           5                            25
  STAGE IIB                          19                           102
  STAGE III                           1                             4
  STAGE IV                            1                             4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  AMP PEAK  4(2Q36.2) MUTATED     0   2  24   0
  AMP PEAK  4(2Q36.2) WILD-TYPE   7  22 123   4
D4V4, multiclass
    clus
vv   AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  T1                           0                             7
  T2                           2                            22
  T3                          24                           123
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V5, binary
                               cls
clus                              0   1
  AMP PEAK  4(2Q36.2) MUTATED     5  20
  AMP PEAK  4(2Q36.2) WILD-TYPE  45 109
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED      5   20
  AMP PEAK  4(2Q36.2) WILD-TYPE   45  109
   clus
vv  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  0                           5                            45
  1                          20                           109
[1] 2 2
[1] FALSE
D4V6, binary
                               cls
clus                             0  1
  AMP PEAK  4(2Q36.2) MUTATED   15  1
  AMP PEAK  4(2Q36.2) WILD-TYPE 70  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED     15    1
  AMP PEAK  4(2Q36.2) WILD-TYPE   70    4
   clus
vv  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  0                          15                            70
  1                           1                             4
[1] 2 2
[1] FALSE
D4V7, binary
                               cls
clus                             0  1
  AMP PEAK  4(2Q36.2) MUTATED    8 18
  AMP PEAK  4(2Q36.2) WILD-TYPE 75 83
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED      8   18
  AMP PEAK  4(2Q36.2) WILD-TYPE   75   83
        clus
vv       AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  FEMALE                           8                            75
  MALE                            18                            83
[1] 2 2
[1] FALSE
D4V8, binary
                               cls
clus                              0   1
  AMP PEAK  4(2Q36.2) MUTATED    17   9
  AMP PEAK  4(2Q36.2) WILD-TYPE 108  35
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED     17    9
  AMP PEAK  4(2Q36.2) WILD-TYPE  108   35
     clus
vv    AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  NO                           17                           108
  YES                           9                            35
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  4(2Q36.2) MUTATED                                    23
  AMP PEAK  4(2Q36.2) WILD-TYPE                                 130
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  4(2Q36.2) MUTATED                                       2
  AMP PEAK  4(2Q36.2) WILD-TYPE                                    23
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK  4(2Q36.2) MUTATED                                                  0
  AMP PEAK  4(2Q36.2) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK  4(2Q36.2) MUTATED                                     0
  AMP PEAK  4(2Q36.2) WILD-TYPE                                   1
D4V9, multiclass
                                                  clus
vv                                                 AMP PEAK  4(2Q36.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       23
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 AMP PEAK  4(2Q36.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        130
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       23
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V10, continuous
D4V11, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  4(2Q36.2) MUTATED   13  6  2  1
  AMP PEAK  4(2Q36.2) WILD-TYPE 98 47  3  3
D4V12, multiclass
    clus
vv   AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  R0                          13                            98
  R1                           6                            47
  R2                           2                             3
  RX                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  4(2Q36.2) MUTATED       3                         0    22
  AMP PEAK  4(2Q36.2) WILD-TYPE     8                         7   139
D4V14, multiclass
                           clus
vv                          AMP PEAK  4(2Q36.2) MUTATED
  ASIAN                                               3
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              22
                           clus
vv                          AMP PEAK  4(2Q36.2) WILD-TYPE
  ASIAN                                                 8
  BLACK OR AFRICAN AMERICAN                             7
  WHITE                                               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V15, binary
                               cls
clus                              0   1
  AMP PEAK  4(2Q36.2) MUTATED     0  19
  AMP PEAK  4(2Q36.2) WILD-TYPE   5 117
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED      0   19
  AMP PEAK  4(2Q36.2) WILD-TYPE    5  117
                        clus
vv                       AMP PEAK  4(2Q36.2) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                          19
                        clus
vv                       AMP PEAK  4(2Q36.2) WILD-TYPE
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           117
[1] 2 2
[1] FALSE

Clustering(5) Variable = AMP PEAK  5(3P12.2) MUTATION ANALYSIS
D5V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  5(3P12.2) MUTATED    4  8
  AMP PEAK  5(3P12.2) WILD-TYPE 79 92
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                           12                           171 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                            8                            92 
$`AMP PEAK  5(3P12.2) MUTATED`
TCGA-2J-AAB6 TCGA-3A-A9J0 TCGA-FB-A5VM TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FZ-5920 
        9.63        24.43        16.37        23.54         4.04         2.01 
TCGA-HZ-7918 TCGA-HZ-A9TJ TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7893 TCGA-IB-A6UG 
       31.86        19.82         4.77        21.90         3.85         1.35 

$`AMP PEAK  5(3P12.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL 
       15.65        15.12        12.92        17.26        14.14        16.37 
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE 
        2.17        23.97         2.63        20.61        19.96        22.22 
TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP 
       22.72        42.31        31.86        15.91        14.47        15.22 
TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ 
        9.11        21.44         4.70        22.49         3.39        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
        9.60        45.47        43.50        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
       33.57        68.52        63.85        50.70        32.81        15.06 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       36.26        34.09        10.13        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
        9.70        19.46         7.10        19.27         3.12        17.00 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ 
        5.88        24.07        12.33        11.61        15.95        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ2 TCGA-FB-AAQ3 
        7.50        12.53        34.82        15.55         5.03         1.02 
TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
       24.36         5.10        36.20        20.35        17.79        12.89 
TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL 
       22.06         4.21         7.63         9.50        66.94         8.28 
TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       32.15        30.25        17.49        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
       10.32        27.62        20.19        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
       19.59         3.95         9.83        12.43        14.93        17.92 
TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH 
       17.00         4.96        21.70        16.14        10.13         6.38 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7649 
        5.26        10.85         0.23        12.95        49.38        15.35 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 
       19.82        36.69        41.33         4.04         3.62        43.79 
TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 
       15.81        19.66        30.02        15.98        15.19        17.16 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7LX 
       12.00        15.85         7.20        20.88        21.90         8.22 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ 
       15.88         0.26         4.73         7.86        14.17         6.02 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
       11.11         7.40         9.44         8.05        13.28         7.56 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
        9.14        12.46        10.29        19.20         8.78        15.45 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM 
       13.68         3.12        15.32         9.40         0.30        24.23 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J 
       23.08        22.85        39.98        16.80         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D 
       13.81        12.99        12.03        31.27        23.67        11.51 
TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.76        66.28        15.35 

  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                         1.35                          0.13 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                        31.86                         90.12 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                        13.00                         15.35 
[1] "1.4 - 31.9 (13.0)" "0.1 - 90.1 (15.3)"
[1] "hr=" "1.5"
D5V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  5(3P12.2) MUTATED         0        0        1         2         8
  AMP PEAK  5(3P12.2) WILD-TYPE       1        5       14        28       113
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  5(3P12.2) MUTATED           0        1
  AMP PEAK  5(3P12.2) WILD-TYPE         5        4
D5V3, multiclass
           clus
vv          AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            1                            14
  STAGE IIA                           2                            28
  STAGE IIB                           8                           113
  STAGE III                           0                             5
  STAGE IV                            1                             4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  AMP PEAK  5(3P12.2) MUTATED     0   2  10   0
  AMP PEAK  5(3P12.2) WILD-TYPE   7  22 137   4
D5V4, multiclass
    clus
vv   AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  T1                           0                             7
  T2                           2                            22
  T3                          10                           137
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V5, binary
                               cls
clus                              0   1
  AMP PEAK  5(3P12.2) MUTATED     4   8
  AMP PEAK  5(3P12.2) WILD-TYPE  46 121
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED      4    8
  AMP PEAK  5(3P12.2) WILD-TYPE   46  121
   clus
vv  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  0                           4                            46
  1                           8                           121
[1] 2 2
[1] FALSE
D5V6, binary
                               cls
clus                             0  1
  AMP PEAK  5(3P12.2) MUTATED    8  1
  AMP PEAK  5(3P12.2) WILD-TYPE 77  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED      8    1
  AMP PEAK  5(3P12.2) WILD-TYPE   77    4
   clus
vv  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  0                           8                            77
  1                           1                             4
[1] 2 2
[1] FALSE
D5V7, binary
                               cls
clus                             0  1
  AMP PEAK  5(3P12.2) MUTATED    0 12
  AMP PEAK  5(3P12.2) WILD-TYPE 83 89
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED      0   12
  AMP PEAK  5(3P12.2) WILD-TYPE   83   89
        clus
vv       AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  FEMALE                           0                            83
  MALE                            12                            89
[1] 2 2
[1] FALSE
D5V8, binary
                               cls
clus                              0   1
  AMP PEAK  5(3P12.2) MUTATED    11   1
  AMP PEAK  5(3P12.2) WILD-TYPE 114  43
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED     11    1
  AMP PEAK  5(3P12.2) WILD-TYPE  114   43
     clus
vv    AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  NO                           11                           114
  YES                           1                            43
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  5(3P12.2) MUTATED                                    11
  AMP PEAK  5(3P12.2) WILD-TYPE                                 142
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  5(3P12.2) MUTATED                                       1
  AMP PEAK  5(3P12.2) WILD-TYPE                                    24
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK  5(3P12.2) MUTATED                                                  0
  AMP PEAK  5(3P12.2) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK  5(3P12.2) MUTATED                                     0
  AMP PEAK  5(3P12.2) WILD-TYPE                                   1
D5V9, multiclass
                                                  clus
vv                                                 AMP PEAK  5(3P12.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       11
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 AMP PEAK  5(3P12.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        142
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       24
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V10, continuous
[1] "Remove cluster labels:"      "AMP PEAK  5(3P12.2) MUTATED"
clus
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                            2                            54 
                   TCGA-3A-A9IJ                    TCGA-H6-A45N 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-HZ-A77Q                    TCGA-HZ-A8P0 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-A5SS                    TCGA-LB-A7SX 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-XD-AAUL                    TCGA-2J-AAB1 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2J-AABA                    TCGA-2J-AABE 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2J-AABF                    TCGA-2J-AABI 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2J-AABO                    TCGA-2J-AABV 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2L-AAQA                    TCGA-2L-AAQE 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-3A-A9I9                    TCGA-3A-A9IB 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-3A-A9IX                    TCGA-F2-6880 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-F2-A8YN                    TCGA-FB-A4P5 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-FB-A78T                    TCGA-FB-A7DR 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-FB-AAPQ                    TCGA-FB-AAPS 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-FB-AAPY                    TCGA-H6-8124 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-H8-A6C1                    TCGA-HV-AA8V 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-HZ-A8P1                    TCGA-IB-7644 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-7649                    TCGA-IB-7651 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-7885                    TCGA-IB-7886 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-7887                    TCGA-IB-7891 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-8126                    TCGA-IB-8127 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-A6UF                    TCGA-IB-A7M4 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-AAUQ                    TCGA-IB-AAUS 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-AAUT                    TCGA-IB-AAUU 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-AAUV                    TCGA-LB-A9Q5 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-OE-A75W                    TCGA-S4-A8RM 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-S4-A8RP                    TCGA-US-A774 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-XN-A8T5                    TCGA-YY-A8LH 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
D5V11, continuous
[1] "Remove cluster labels:"      "AMP PEAK  5(3P12.2) MUTATED"
clus
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                            2                            44 
                   TCGA-3A-A9IJ                    TCGA-HZ-A77Q 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-HZ-A8P0                    TCGA-IB-A5SS 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-LB-A7SX                    TCGA-XD-AAUL 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2J-AAB1                    TCGA-2J-AABE 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2J-AABF                    TCGA-2J-AABI 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2J-AABO                    TCGA-3A-A9IB 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-3A-A9IR                    TCGA-3A-A9IX 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-FB-A4P5                    TCGA-FB-A78T 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-FB-A7DR                    TCGA-FB-AAPQ 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-FB-AAPS                    TCGA-FB-AAPY 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-H6-8124                    TCGA-H8-A6C1 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-HZ-A8P1                    TCGA-IB-7644 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-7649                    TCGA-IB-7651 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-7885                    TCGA-IB-7886 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-7891                    TCGA-IB-8126 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-8127                    TCGA-IB-A6UF 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-A7M4                    TCGA-IB-AAUQ 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-AAUS                    TCGA-IB-AAUT 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-AAUV                    TCGA-LB-A9Q5 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-OE-A75W                    TCGA-S4-A8RM 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-US-A774                    TCGA-XD-AAUI 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-XN-A8T5                    TCGA-YY-A8LH 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                               vv
clus                             R0  R1  R2  RX
  AMP PEAK  5(3P12.2) MUTATED     8   4   0   0
  AMP PEAK  5(3P12.2) WILD-TYPE 103  49   5   4
D5V12, multiclass
    clus
vv   AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  R0                           8                           103
  R1                           4                            49
  R2                           0                             5
  RX                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  5(3P12.2) MUTATED       0                         1    11
  AMP PEAK  5(3P12.2) WILD-TYPE    11                         6   150
D5V14, multiclass
                           clus
vv                          AMP PEAK  5(3P12.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              11
                           clus
vv                          AMP PEAK  5(3P12.2) WILD-TYPE
  ASIAN                                                11
  BLACK OR AFRICAN AMERICAN                             6
  WHITE                                               150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V15, binary
                               cls
clus                              0   1
  AMP PEAK  5(3P12.2) MUTATED     0  11
  AMP PEAK  5(3P12.2) WILD-TYPE   5 125
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED      0   11
  AMP PEAK  5(3P12.2) WILD-TYPE    5  125
                        clus
vv                       AMP PEAK  5(3P12.2) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                          11
                        clus
vv                       AMP PEAK  5(3P12.2) WILD-TYPE
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           125
[1] 2 2
[1] FALSE

Clustering(6) Variable = AMP PEAK  6(3Q26.2) MUTATION ANALYSIS
D6V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  6(3Q26.2) MUTATED    8 24
  AMP PEAK  6(3Q26.2) WILD-TYPE 75 76
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           32                           151 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           24                            76 
$`AMP PEAK  6(3Q26.2) MUTATED`
TCGA-HZ-A4BK TCGA-LB-A7SX TCGA-US-A77E TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2L-AAQL 
       21.60        12.92        14.14         9.63         2.63         9.60 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-A7TX TCGA-FB-A5VM 
        7.36        24.26        10.13        24.43         3.12        16.37 
TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FZ-5920 TCGA-HV-A5A3 TCGA-HZ-7918 TCGA-HZ-7922 
       23.54         4.04         2.01         4.21        31.86         0.13 
TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A9TJ TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7887 
        3.95        17.92        19.82         4.77        21.90         3.62 
TCGA-IB-7890 TCGA-IB-7893 TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUO TCGA-L1-A7W4 
       19.66         3.85         1.35         8.22         7.86         9.14 
TCGA-M8-A5N4 TCGA-RB-A7B8 
       19.20        15.32 

$`AMP PEAK  6(3Q26.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A77Q TCGA-IB-7654 
        8.02        15.78        13.84        21.73         1.08        15.65 
TCGA-IB-A5SS TCGA-S4-A8RO TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB9 
       15.12        17.26        16.37         2.17        23.97        20.61 
TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK 
       19.96        22.22        22.72        42.31        31.86        15.91 
TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       14.47        15.22         9.11        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IH 
        3.39        12.95        45.47        43.50        20.84        33.57 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV 
       68.52        63.85        50.70        32.81        15.06        36.26 
TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 
       34.09        75.12        71.74        10.98         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T 
        7.10        19.27        17.00         5.88        24.07        12.33 
TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY 
       11.61        15.95        37.15         7.50        12.53        34.82 
TCGA-FB-AAQ0 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 
       15.55         5.03         1.02        24.36         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A5A5 
       20.35        17.79        12.89        22.06         7.63         9.50 
TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7919 
       66.94         8.28        32.15        30.25        17.49        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76        10.32        27.62        20.19        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 
       12.03        19.59         9.83        12.43        14.93        17.00 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O 
        4.96        21.70        16.14        10.13         6.38         5.26 
TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7649 TCGA-IB-7651 
       10.85         0.23        12.95        49.38        15.35        19.82 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 
       36.69        41.33         4.04        43.79        15.81        30.02 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98        15.19        17.16        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUP 
       20.88        21.90        15.88         0.26         4.73        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        6.02        11.11         7.40         9.44         8.05        13.28 
TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
        7.56        12.46        10.29         8.78        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 
        3.12         9.40         0.30        24.23        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       39.98        16.80         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH 
       12.03        31.27        23.67        11.51        12.76        66.28 
TCGA-Z5-AAPL 
       15.35 

  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                         0.13                          0.23 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                        31.86                         90.12 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                        9.615                        15.780 
[1] "0.1 - 31.9 (9.6)"  "0.2 - 90.1 (15.8)"
[1] "hr=" "2.4"
D6V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  6(3Q26.2) MUTATED         0        0        2         4        24
  AMP PEAK  6(3Q26.2) WILD-TYPE       1        5       13        26        97
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  6(3Q26.2) MUTATED           0        2
  AMP PEAK  6(3Q26.2) WILD-TYPE         5        3
D6V3, multiclass
           clus
vv          AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            2                            13
  STAGE IIA                           4                            26
  STAGE IIB                          24                            97
  STAGE III                           0                             5
  STAGE IV                            2                             3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  AMP PEAK  6(3Q26.2) MUTATED     0   3  29   0
  AMP PEAK  6(3Q26.2) WILD-TYPE   7  21 118   4
D6V4, multiclass
    clus
vv   AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  T1                           0                             7
  T2                           3                            21
  T3                          29                           118
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V5, binary
                               cls
clus                              0   1
  AMP PEAK  6(3Q26.2) MUTATED     7  24
  AMP PEAK  6(3Q26.2) WILD-TYPE  43 105
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED      7   24
  AMP PEAK  6(3Q26.2) WILD-TYPE   43  105
   clus
vv  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  0                           7                            43
  1                          24                           105
[1] 2 2
[1] FALSE
D6V6, binary
                               cls
clus                             0  1
  AMP PEAK  6(3Q26.2) MUTATED   15  2
  AMP PEAK  6(3Q26.2) WILD-TYPE 70  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED     15    2
  AMP PEAK  6(3Q26.2) WILD-TYPE   70    3
   clus
vv  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  0                          15                            70
  1                           2                             3
[1] 2 2
[1] FALSE
D6V7, binary
                               cls
clus                             0  1
  AMP PEAK  6(3Q26.2) MUTATED   10 22
  AMP PEAK  6(3Q26.2) WILD-TYPE 73 79
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED     10   22
  AMP PEAK  6(3Q26.2) WILD-TYPE   73   79
        clus
vv       AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  FEMALE                          10                            73
  MALE                            22                            79
[1] 2 2
[1] FALSE
D6V8, binary
                               cls
clus                              0   1
  AMP PEAK  6(3Q26.2) MUTATED    25   4
  AMP PEAK  6(3Q26.2) WILD-TYPE 100  40
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED     25    4
  AMP PEAK  6(3Q26.2) WILD-TYPE  100   40
     clus
vv    AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  NO                           25                           100
  YES                           4                            40
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  6(3Q26.2) MUTATED                                    28
  AMP PEAK  6(3Q26.2) WILD-TYPE                                 125
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  6(3Q26.2) MUTATED                                       4
  AMP PEAK  6(3Q26.2) WILD-TYPE                                    21
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK  6(3Q26.2) MUTATED                                                  0
  AMP PEAK  6(3Q26.2) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK  6(3Q26.2) MUTATED                                     0
  AMP PEAK  6(3Q26.2) WILD-TYPE                                   1
D6V9, multiclass
                                                  clus
vv                                                 AMP PEAK  6(3Q26.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       28
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 AMP PEAK  6(3Q26.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        125
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       21
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V10, continuous
D6V11, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  6(3Q26.2) MUTATED   14 15  1  1
  AMP PEAK  6(3Q26.2) WILD-TYPE 97 38  4  3
D6V12, multiclass
    clus
vv   AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  R0                          14                            97
  R1                          15                            38
  R2                           1                             4
  RX                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  6(3Q26.2) MUTATED       1                         2    27
  AMP PEAK  6(3Q26.2) WILD-TYPE    10                         5   134
D6V14, multiclass
                           clus
vv                          AMP PEAK  6(3Q26.2) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              27
                           clus
vv                          AMP PEAK  6(3Q26.2) WILD-TYPE
  ASIAN                                                10
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V15, binary
                               cls
clus                              0   1
  AMP PEAK  6(3Q26.2) MUTATED     1  24
  AMP PEAK  6(3Q26.2) WILD-TYPE   4 112
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED      1   24
  AMP PEAK  6(3Q26.2) WILD-TYPE    4  112
                        clus
vv                       AMP PEAK  6(3Q26.2) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          24
                        clus
vv                       AMP PEAK  6(3Q26.2) WILD-TYPE
  HISPANIC OR LATINO                                 4
  NOT HISPANIC OR LATINO                           112
[1] 2 2
[1] FALSE

Clustering(7) Variable = AMP PEAK  7(4P16.3) MUTATION ANALYSIS
D7V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  7(4P16.3) MUTATED    9  6
  AMP PEAK  7(4P16.3) WILD-TYPE 74 94
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                           15                           168 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                            6                            94 
$`AMP PEAK  7(4P16.3) MUTATED`
TCGA-IB-A5SS TCGA-2J-AAB6 TCGA-2J-AABP TCGA-2L-AAQM TCGA-3A-A9IN TCGA-3A-A9IS 
       15.12         9.63        15.22        45.47        68.52        32.81 
TCGA-3A-A9IV TCGA-FB-A7DR TCGA-FB-AAPP TCGA-HV-A7OL TCGA-HV-AA8X TCGA-HZ-7922 
       36.26        11.61        15.95         8.28        17.49         0.13 
TCGA-HZ-8637 TCGA-IB-AAUU TCGA-YB-A89D 
       17.00         8.05        11.51 

$`AMP PEAK  7(4P16.3) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 
       15.65        12.92        17.26        14.14        16.37         2.17 
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
       23.97         2.63        20.61        19.96        22.22        22.72 
TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABU TCGA-2J-AABV 
       42.31        31.86        15.91        14.47         9.11        21.44 
TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I7 
        4.70        22.49         3.39        12.95         9.60        43.50 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IO TCGA-3A-A9IR 
       20.84         7.36        24.26        33.57        63.85        50.70 
TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       15.06        34.09        10.13        24.43        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX 
       10.98         9.70        19.46         7.10        19.27         3.12 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPQ 
       17.00         5.88        24.07        16.37        12.33        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 
        7.50        12.53        34.82        23.54        15.55         4.04 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        5.03         1.02        24.36         2.01         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 
       20.35        17.79        12.89        22.06         4.21         7.63 
TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HZ-7918 TCGA-HZ-7919 
        9.50        66.94        32.15        30.25        31.86        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76        10.32        27.62        20.19        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
       12.03        19.59         3.95         9.83        12.43        14.93 
TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH 
       17.92         4.96        21.70        16.14        10.13         6.38 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 
        5.26        10.85         0.23        19.82        12.95        49.38 
TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
        4.77        21.90        15.35        19.82        36.69        41.33 
TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 
        4.04         3.62        43.79        15.81        19.66        30.02 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
        3.85        15.98        15.19        17.16        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 
        7.20        20.88        21.90         1.35         8.22        15.88 
TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
        0.26         4.73         7.86        14.17         6.02        11.11 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 
        7.40         9.44        13.28         7.56         9.14        12.46 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
       10.29        19.20         8.78        15.45        13.68         3.12 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 
       15.32         9.40         0.30        24.23        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       39.98        16.80         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        31.27        23.67        12.76        66.28        15.35 

  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                         0.13                          0.23 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                        68.52                         90.12 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                        15.22                         15.35 
[1] "0.1 - 68.5 (15.2)" "0.2 - 90.1 (15.3)"
[1] "hr=" "1.5"
D7V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  7(4P16.3) MUTATED         0        0        3         3         9
  AMP PEAK  7(4P16.3) WILD-TYPE       1        5       12        27       112
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  7(4P16.3) MUTATED           0        0
  AMP PEAK  7(4P16.3) WILD-TYPE         5        5
D7V3, multiclass
           clus
vv          AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            3                            12
  STAGE IIA                           3                            27
  STAGE IIB                           9                           112
  STAGE III                           0                             5
  STAGE IV                            0                             5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  AMP PEAK  7(4P16.3) MUTATED     0   4  11   0
  AMP PEAK  7(4P16.3) WILD-TYPE   7  20 136   4
D7V4, multiclass
    clus
vv   AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  T1                           0                             7
  T2                           4                            20
  T3                          11                           136
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V5, binary
                               cls
clus                              0   1
  AMP PEAK  7(4P16.3) MUTATED     4   9
  AMP PEAK  7(4P16.3) WILD-TYPE  46 120
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED      4    9
  AMP PEAK  7(4P16.3) WILD-TYPE   46  120
   clus
vv  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  0                           4                            46
  1                           9                           120
[1] 2 2
[1] FALSE
D7V6, binary
                               cls
clus                             0  1
  AMP PEAK  7(4P16.3) MUTATED    5  0
  AMP PEAK  7(4P16.3) WILD-TYPE 80  5
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED      5    0
  AMP PEAK  7(4P16.3) WILD-TYPE   80    5
   clus
vv  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  0                           5                            80
  1                           0                             5
[1] 2 2
[1] FALSE
D7V7, binary
                               cls
clus                             0  1
  AMP PEAK  7(4P16.3) MUTATED    7  8
  AMP PEAK  7(4P16.3) WILD-TYPE 76 93
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED      7    8
  AMP PEAK  7(4P16.3) WILD-TYPE   76   93
        clus
vv       AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  FEMALE                           7                            76
  MALE                             8                            93
[1] 2 2
[1] FALSE
D7V8, binary
                               cls
clus                              0   1
  AMP PEAK  7(4P16.3) MUTATED    10   4
  AMP PEAK  7(4P16.3) WILD-TYPE 115  40
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED     10    4
  AMP PEAK  7(4P16.3) WILD-TYPE  115   40
     clus
vv    AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  NO                           10                           115
  YES                           4                            40
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  7(4P16.3) MUTATED                                     9
  AMP PEAK  7(4P16.3) WILD-TYPE                                 144
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  7(4P16.3) MUTATED                                       4
  AMP PEAK  7(4P16.3) WILD-TYPE                                    21
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK  7(4P16.3) MUTATED                                                  1
  AMP PEAK  7(4P16.3) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK  7(4P16.3) MUTATED                                     1
  AMP PEAK  7(4P16.3) WILD-TYPE                                   0
D7V9, multiclass
                                                  clus
vv                                                 AMP PEAK  7(4P16.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        9
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 AMP PEAK  7(4P16.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        144
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       21
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V10, continuous
D7V11, continuous
[1] "Remove cluster labels:"      "AMP PEAK  7(4P16.3) MUTATED"
clus
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                            2                            44 
                   TCGA-3A-A9IJ                    TCGA-HZ-A77Q 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-HZ-A8P0                    TCGA-LB-A7SX 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-XD-AAUL                    TCGA-2J-AAB1 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-2J-AABE                    TCGA-2J-AABF 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-2J-AABI                    TCGA-2J-AABO 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-3A-A9IB                    TCGA-3A-A9IR 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-3A-A9IX                    TCGA-FB-A4P5 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-FB-A5VM                    TCGA-FB-A78T 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-FB-AAPQ                    TCGA-FB-AAPS 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-FB-AAPY                    TCGA-H6-8124 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-H8-A6C1                    TCGA-HZ-A8P1 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-IB-7644                    TCGA-IB-7649 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-IB-7651                    TCGA-IB-7885 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-IB-7886                    TCGA-IB-7891 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-IB-8126                    TCGA-IB-8127 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-IB-A6UF                    TCGA-IB-A6UG 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-IB-A7M4                    TCGA-IB-AAUQ 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-IB-AAUS                    TCGA-IB-AAUT 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-IB-AAUV                    TCGA-LB-A9Q5 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-OE-A75W                    TCGA-S4-A8RM 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-US-A774                    TCGA-XD-AAUI 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-XN-A8T5                    TCGA-YY-A8LH 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                               vv
clus                             R0  R1  R2  RX
  AMP PEAK  7(4P16.3) MUTATED    11   2   2   0
  AMP PEAK  7(4P16.3) WILD-TYPE 100  51   3   4
D7V12, multiclass
    clus
vv   AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  R0                          11                           100
  R1                           2                            51
  R2                           2                             3
  RX                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  7(4P16.3) MUTATED       3                         0    12
  AMP PEAK  7(4P16.3) WILD-TYPE     8                         7   149
D7V14, multiclass
                           clus
vv                          AMP PEAK  7(4P16.3) MUTATED
  ASIAN                                               3
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              12
                           clus
vv                          AMP PEAK  7(4P16.3) WILD-TYPE
  ASIAN                                                 8
  BLACK OR AFRICAN AMERICAN                             7
  WHITE                                               149
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V15, binary
                               cls
clus                              0   1
  AMP PEAK  7(4P16.3) MUTATED     1   9
  AMP PEAK  7(4P16.3) WILD-TYPE   4 127
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED      1    9
  AMP PEAK  7(4P16.3) WILD-TYPE    4  127
                        clus
vv                       AMP PEAK  7(4P16.3) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                           9
                        clus
vv                       AMP PEAK  7(4P16.3) WILD-TYPE
  HISPANIC OR LATINO                                 4
  NOT HISPANIC OR LATINO                           127
[1] 2 2
[1] FALSE

Clustering(8) Variable = AMP PEAK  8(6P21.31) MUTATION ANALYSIS
D8V1, survival
                                sevent
clus2                             0  1
  AMP PEAK  8(6P21.31) MUTATED    6  6
  AMP PEAK  8(6P21.31) WILD-TYPE 77 94
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                            12                            171 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             6                             94 
$`AMP PEAK  8(6P21.31) MUTATED`
TCGA-2J-AABF TCGA-3A-A9IO TCGA-FB-AAPZ TCGA-HV-A5A6 TCGA-HZ-8005 TCGA-HZ-8636 
       22.72        63.85        23.54        66.94         3.95        17.92 
TCGA-HZ-A77O TCGA-HZ-A9TJ TCGA-IB-AAUN TCGA-LB-A8F3 TCGA-US-A776 TCGA-XN-A8T3 
        5.26        19.82         4.73        12.46        39.98        31.27 

$`AMP PEAK  8(6P21.31) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL 
       15.65        15.12        12.92        17.26        14.14        16.37 
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA 
        2.17        23.97         9.63         2.63        20.61        19.96 
TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP 
       22.22        42.31        31.86        15.91        14.47        15.22 
TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ 
        9.11        21.44         4.70        22.49         3.39        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
        9.60        45.47        43.50        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV 
       33.57        68.52        50.70        32.81        15.06        36.26 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       34.09        10.13        24.43        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
        9.70        19.46         7.10        19.27         3.12        17.00 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP 
        5.88        24.07        16.37        12.33        11.61        15.95 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 
       37.15         7.50        12.53        34.82        15.55         4.04 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        5.03         1.02        24.36         2.01         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 
       20.35        17.79        12.89        22.06         4.21         7.63 
TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 
        9.50         8.28        32.15        30.25        17.49        31.86 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
       19.50         7.76         0.13        10.32        27.62        20.19 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
       17.03        23.21        12.03        19.59         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       14.93        17.00         4.96        21.70        16.14        10.13 
TCGA-HZ-A4BH TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 
        6.38        10.85         0.23        12.95        49.38         4.77 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 
       21.90        15.35        19.82        36.69        41.33         4.04 
TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 
        3.62        43.79        15.81        19.66        30.02         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98        15.19        17.16        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM 
       20.88        21.90         1.35         8.22        15.88         0.26 
TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        7.86        14.17         6.02        11.11         7.40         9.44 
TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-M8-A5N4 
        8.05        13.28         7.56         9.14        10.29        19.20 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
        8.78        15.45        13.68         3.12        15.32         9.40 
TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77G 
        0.30        24.23        23.08        22.85        16.80         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T5 TCGA-YB-A89D 
       18.67        13.81        12.99        12.03        23.67        11.51 
TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.76        66.28        15.35 

  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                          3.95                           0.13 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                         66.94                          90.12 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                         21.27                          15.22 
[1] "4.0 - 66.9 (21.3)" "0.1 - 90.1 (15.2)"
[1] "hr=" "1.5"
D8V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  8(6P21.31) MUTATED         0        0        2         2         5
  AMP PEAK  8(6P21.31) WILD-TYPE       1        5       13        28       116
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK  8(6P21.31) MUTATED           0        2
  AMP PEAK  8(6P21.31) WILD-TYPE         5        3
D8V3, multiclass
           clus
vv          AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              5
  STAGE IB                             2                             13
  STAGE IIA                            2                             28
  STAGE IIB                            5                            116
  STAGE III                            0                              5
  STAGE IV                             2                              3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  AMP PEAK  8(6P21.31) MUTATED     0   4   7   0
  AMP PEAK  8(6P21.31) WILD-TYPE   7  20 140   4
D8V4, multiclass
    clus
vv   AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  T1                            0                              7
  T2                            4                             20
  T3                            7                            140
  T4                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V5, binary
                                cls
clus                               0   1
  AMP PEAK  8(6P21.31) MUTATED     6   5
  AMP PEAK  8(6P21.31) WILD-TYPE  44 124
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      6    5
  AMP PEAK  8(6P21.31) WILD-TYPE   44  124
   clus
vv  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  0                            6                             44
  1                            5                            124
[1] 2 2
[1] FALSE
D8V6, binary
                                cls
clus                              0  1
  AMP PEAK  8(6P21.31) MUTATED    4  2
  AMP PEAK  8(6P21.31) WILD-TYPE 81  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      4    2
  AMP PEAK  8(6P21.31) WILD-TYPE   81    3
   clus
vv  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  0                            4                             81
  1                            2                              3
[1] 2 2
[1] FALSE
D8V7, binary
                                cls
clus                              0  1
  AMP PEAK  8(6P21.31) MUTATED    5  7
  AMP PEAK  8(6P21.31) WILD-TYPE 78 94
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      5    7
  AMP PEAK  8(6P21.31) WILD-TYPE   78   94
        clus
vv       AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  FEMALE                            5                             78
  MALE                              7                             94
[1] 2 2
[1] FALSE
D8V8, binary
                                cls
clus                               0   1
  AMP PEAK  8(6P21.31) MUTATED     8   3
  AMP PEAK  8(6P21.31) WILD-TYPE 117  41
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      8    3
  AMP PEAK  8(6P21.31) WILD-TYPE  117   41
     clus
vv    AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  NO                             8                            117
  YES                            3                             41
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  8(6P21.31) MUTATED                                     9
  AMP PEAK  8(6P21.31) WILD-TYPE                                 144
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  8(6P21.31) MUTATED                                       2
  AMP PEAK  8(6P21.31) WILD-TYPE                                    23
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK  8(6P21.31) MUTATED                                                  1
  AMP PEAK  8(6P21.31) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK  8(6P21.31) MUTATED                                     0
  AMP PEAK  8(6P21.31) WILD-TYPE                                   1
D8V9, multiclass
                                                  clus
vv                                                 AMP PEAK  8(6P21.31) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         9
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK  8(6P21.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         144
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        23
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V10, continuous
[1] "Remove cluster labels:"       "AMP PEAK  8(6P21.31) MUTATED"
clus
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             1                             55 
                    TCGA-3A-A9IJ                     TCGA-H6-A45N 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-HZ-A77Q                     TCGA-HZ-A8P0 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-A5SS                     TCGA-LB-A7SX 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-XD-AAUL                     TCGA-2J-AAB1 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-2J-AABA                     TCGA-2J-AABE 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-2J-AABI                     TCGA-2J-AABO 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-2J-AABV                     TCGA-2L-AAQA 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-2L-AAQE                     TCGA-3A-A9I9 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-3A-A9IB                     TCGA-3A-A9IX 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-F2-6880                     TCGA-F2-A8YN 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-FB-A4P5                     TCGA-FB-A5VM 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-FB-A78T                     TCGA-FB-A7DR 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-FB-AAPQ                     TCGA-FB-AAPS 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-FB-AAPY                     TCGA-H6-8124 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-H8-A6C1                     TCGA-HV-AA8V 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-HZ-A8P1                     TCGA-IB-7644 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-7649                     TCGA-IB-7651 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-7885                     TCGA-IB-7886 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-7887                     TCGA-IB-7891 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-8126                     TCGA-IB-8127 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-A6UF                     TCGA-IB-A6UG 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-A7M4                     TCGA-IB-AAUQ 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-AAUS                     TCGA-IB-AAUT 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-AAUU                     TCGA-IB-AAUV 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-LB-A9Q5                     TCGA-OE-A75W 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-S4-A8RM                     TCGA-S4-A8RP 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-US-A774                     TCGA-XN-A8T5 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-YY-A8LH 
"AMP PEAK  8(6P21.31) WILD-TYPE" 
D8V11, continuous
[1] "Remove cluster labels:"       "AMP PEAK  8(6P21.31) MUTATED"
clus
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             1                             45 
                    TCGA-3A-A9IJ                     TCGA-HZ-A77Q 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-HZ-A8P0                     TCGA-IB-A5SS 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-LB-A7SX                     TCGA-XD-AAUL 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-2J-AAB1                     TCGA-2J-AABE 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-2J-AABI                     TCGA-2J-AABO 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-3A-A9IB                     TCGA-3A-A9IR 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-3A-A9IX                     TCGA-FB-A4P5 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-FB-A5VM                     TCGA-FB-A78T 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-FB-A7DR                     TCGA-FB-AAPQ 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-FB-AAPS                     TCGA-FB-AAPY 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-H6-8124                     TCGA-H8-A6C1 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-HZ-A8P1                     TCGA-IB-7644 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-7649                     TCGA-IB-7651 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-7885                     TCGA-IB-7886 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-7891                     TCGA-IB-8126 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-8127                     TCGA-IB-A6UF 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-A6UG                     TCGA-IB-A7M4 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-AAUQ                     TCGA-IB-AAUS 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-AAUT                     TCGA-IB-AAUV 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-LB-A9Q5                     TCGA-OE-A75W 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-S4-A8RM                     TCGA-US-A774 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-XD-AAUI                     TCGA-XN-A8T5 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-YY-A8LH 
"AMP PEAK  8(6P21.31) WILD-TYPE" 
                                vv
clus                              R0  R1  R2  RX
  AMP PEAK  8(6P21.31) MUTATED     7   5   0   0
  AMP PEAK  8(6P21.31) WILD-TYPE 104  48   5   4
D8V12, multiclass
    clus
vv   AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  R0                            7                            104
  R1                            5                             48
  R2                            0                              5
  RX                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  8(6P21.31) MUTATED       1                         1    10
  AMP PEAK  8(6P21.31) WILD-TYPE    10                         6   151
D8V14, multiclass
                           clus
vv                          AMP PEAK  8(6P21.31) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               10
                           clus
vv                          AMP PEAK  8(6P21.31) WILD-TYPE
  ASIAN                                                 10
  BLACK OR AFRICAN AMERICAN                              6
  WHITE                                                151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V15, binary
                                cls
clus                               0   1
  AMP PEAK  8(6P21.31) MUTATED     1   9
  AMP PEAK  8(6P21.31) WILD-TYPE   4 127
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      1    9
  AMP PEAK  8(6P21.31) WILD-TYPE    4  127
                        clus
vv                       AMP PEAK  8(6P21.31) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                            9
                        clus
vv                       AMP PEAK  8(6P21.31) WILD-TYPE
  HISPANIC OR LATINO                                  4
  NOT HISPANIC OR LATINO                            127
[1] 2 2
[1] FALSE

Clustering(9) Variable = AMP PEAK  9(7Q22.1) MUTATION ANALYSIS
D9V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  9(7Q22.1) MUTATED   23 33
  AMP PEAK  9(7Q22.1) WILD-TYPE 60 67
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           56                           127 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           33                            67 
$`AMP PEAK  9(7Q22.1) MUTATED`
TCGA-2J-AABT TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-HZ-7289 TCGA-LB-A7SX TCGA-US-A77E 
       10.49        60.95        90.12        21.73        12.92        14.14 
TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2L-AAQL 
       16.37         2.17         9.63         2.63        22.72         9.60 
TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IV 
       45.47        43.50        20.84        68.52        63.85        36.26 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-A7TX TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPU 
       10.13        24.43         3.12        24.07        15.95        12.53 
TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5923 
       23.54        15.55         4.04        24.36         5.10        20.35 
TCGA-H6-8124 TCGA-HV-A5A6 TCGA-HZ-7926 TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A4BH 
       12.89        66.94        17.03         3.95        17.92         6.38 
TCGA-HZ-A77O TCGA-HZ-A9TJ TCGA-IB-7645 TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-7889 
        5.26        19.82        49.38        36.69         4.04        15.81 
TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUQ 
        3.85        17.16        15.85         1.35         8.22         6.02 
TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-RB-A7B8 TCGA-S4-A8RM 
        8.05         9.14        19.20        15.45        15.32        24.23 
TCGA-US-A776 TCGA-YB-A89D 
       39.98        11.51 

$`AMP PEAK  9(7Q22.1) WILD-TYPE`
TCGA-2J-AABR TCGA-3A-A9I5 TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N 
       14.40        58.98         7.66         8.02        15.78        13.84 
TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS TCGA-S4-A8RO TCGA-2J-AAB4 
       21.60         1.08        15.65        15.12        17.26        23.97 
TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK 
       20.61        19.96        22.22        42.31        31.86        15.91 
TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       14.47        15.22         9.11        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IR 
        3.39        12.95         7.36        24.26        33.57        50.70 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       32.81        15.06        34.09        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
        9.70        19.46         7.10        19.27        17.00         5.88 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY 
       16.37        12.33        11.61        37.15         7.50        34.82 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5926 TCGA-H8-A6C1 
        5.03         1.02         2.01        36.20        17.79        22.06 
TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V 
        4.21         7.63         9.50         8.28        32.15        30.25 
TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       17.49        31.86        19.50         7.76         0.13        10.32 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 
       27.62        20.19        23.21        12.03        19.59         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       12.43        14.93        17.00         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7646 TCGA-IB-7647 
       10.13        10.85         0.23        12.95         4.77        21.90 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7890 
       15.35        19.82        41.33         3.62        43.79        19.66 
TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST 
       30.02        15.98        15.19        12.00         7.20        20.88 
TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP 
       21.90        15.88         0.26         4.73         7.86        14.17 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 
       11.11         7.40         9.44        13.28         7.56        12.46 
TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-RL-AAAS 
       10.29         8.78        13.68         3.12         9.40         0.30 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG 
       23.08        22.85        16.80         0.39        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YH-A8SY TCGA-YY-A8LH 
       12.99        12.03        31.27        23.67        12.76        66.28 
TCGA-Z5-AAPL 
       15.35 

  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                         1.35                          0.13 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                        90.12                         75.12 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                        15.83                         15.12 
[1] "1.4 - 90.1 (15.8)" "0.1 - 75.1 (15.1)"
[1] "hr=" "1"  
D9V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  9(7Q22.1) MUTATED         1        0        3         9        39
  AMP PEAK  9(7Q22.1) WILD-TYPE       0        5       12        21        82
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  9(7Q22.1) MUTATED           0        3
  AMP PEAK  9(7Q22.1) WILD-TYPE         5        2
D9V3, multiclass
           clus
vv          AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            0                             5
  STAGE IB                            3                            12
  STAGE IIA                           9                            21
  STAGE IIB                          39                            82
  STAGE III                           0                             5
  STAGE IV                            3                             2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            T1 T2 T3 T4
  AMP PEAK  9(7Q22.1) MUTATED    1  5 48  1
  AMP PEAK  9(7Q22.1) WILD-TYPE  6 19 99  3
D9V4, multiclass
    clus
vv   AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  T1                           1                             6
  T2                           5                            19
  T3                          48                            99
  T4                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V5, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q22.1) MUTATED   13 40
  AMP PEAK  9(7Q22.1) WILD-TYPE 37 89
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED     13   40
  AMP PEAK  9(7Q22.1) WILD-TYPE   37   89
   clus
vv  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  0                          13                            37
  1                          40                            89
[1] 2 2
[1] FALSE
D9V6, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q22.1) MUTATED   22  3
  AMP PEAK  9(7Q22.1) WILD-TYPE 63  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED     22    3
  AMP PEAK  9(7Q22.1) WILD-TYPE   63    2
   clus
vv  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  0                          22                            63
  1                           3                             2
[1] 2 2
[1] FALSE
D9V7, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q22.1) MUTATED   20 36
  AMP PEAK  9(7Q22.1) WILD-TYPE 63 65
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED     20   36
  AMP PEAK  9(7Q22.1) WILD-TYPE   63   65
        clus
vv       AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  FEMALE                          20                            63
  MALE                            36                            65
[1] 2 2
[1] FALSE
D9V8, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q22.1) MUTATED   40 11
  AMP PEAK  9(7Q22.1) WILD-TYPE 85 33
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED     40   11
  AMP PEAK  9(7Q22.1) WILD-TYPE   85   33
     clus
vv    AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  NO                           40                            85
  YES                          11                            33
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  9(7Q22.1) MUTATED                                    44
  AMP PEAK  9(7Q22.1) WILD-TYPE                                 109
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  9(7Q22.1) MUTATED                                      11
  AMP PEAK  9(7Q22.1) WILD-TYPE                                    14
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK  9(7Q22.1) MUTATED                                                  1
  AMP PEAK  9(7Q22.1) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK  9(7Q22.1) MUTATED                                     0
  AMP PEAK  9(7Q22.1) WILD-TYPE                                   1
D9V9, multiclass
                                                  clus
vv                                                 AMP PEAK  9(7Q22.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       44
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     11
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 AMP PEAK  9(7Q22.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        109
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       14
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V10, continuous
D9V11, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  9(7Q22.1) MUTATED   28 20  1  3
  AMP PEAK  9(7Q22.1) WILD-TYPE 83 33  4  1
D9V12, multiclass
    clus
vv   AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  R0                          28                            83
  R1                          20                            33
  R2                           1                             4
  RX                           3                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  9(7Q22.1) MUTATED       3                         3    47
  AMP PEAK  9(7Q22.1) WILD-TYPE     8                         4   114
D9V14, multiclass
                           clus
vv                          AMP PEAK  9(7Q22.1) MUTATED
  ASIAN                                               3
  BLACK OR AFRICAN AMERICAN                           3
  WHITE                                              47
                           clus
vv                          AMP PEAK  9(7Q22.1) WILD-TYPE
  ASIAN                                                 8
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                               114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V15, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q22.1) MUTATED    1 41
  AMP PEAK  9(7Q22.1) WILD-TYPE  4 95
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED      1   41
  AMP PEAK  9(7Q22.1) WILD-TYPE    4   95
                        clus
vv                       AMP PEAK  9(7Q22.1) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          41
                        clus
vv                       AMP PEAK  9(7Q22.1) WILD-TYPE
  HISPANIC OR LATINO                                 4
  NOT HISPANIC OR LATINO                            95
[1] 2 2
[1] FALSE

Clustering(10) Variable = AMP PEAK 10(8P11.22) MUTATION ANALYSIS
D10V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 10(8P11.22) MUTATED   14 20
  AMP PEAK 10(8P11.22) WILD-TYPE 69 80
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            34                            149 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            20                             80 
$`AMP PEAK 10(8P11.22) MUTATED`
TCGA-3A-A9I5 TCGA-S4-A8RO TCGA-2J-AAB6 TCGA-2J-AABF TCGA-2J-AABV TCGA-3A-A9IO 
       58.98        17.26         9.63        22.72        21.44        63.85 
TCGA-3A-A9IS TCGA-3A-A9IX TCGA-F2-A7TX TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAQ0 
       32.81        34.09         3.12        24.07        15.95        15.55 
TCGA-FB-AAQ1 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-HV-AA8V TCGA-HZ-8005 TCGA-HZ-8315 
        4.04         5.10        36.20        30.25         3.95         9.83 
TCGA-HZ-8637 TCGA-HZ-A77O TCGA-HZ-A77P TCGA-IB-7646 TCGA-IB-7886 TCGA-IB-7893 
       17.00         5.26        10.85         4.77         4.04         3.85 
TCGA-IB-8126 TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-M8-A5N4 TCGA-PZ-A5RE 
       15.19        15.85         1.35        15.88        19.20        15.45 
TCGA-S4-A8RM TCGA-XD-AAUI TCGA-YB-A89D TCGA-YH-A8SY 
       24.23        12.03        11.51        12.76 

$`AMP PEAK 10(8P11.22) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        60.95        90.12         7.66         8.02 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
       15.78        13.84        21.73        21.60         1.08        15.65 
TCGA-IB-A5SS TCGA-LB-A7SX TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 
       15.12        12.92        14.14        16.37         2.17        23.97 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI 
        2.63        20.61        19.96        22.22        42.31        31.86 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE 
       15.91        14.47        15.22         9.11         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 
        3.39        12.95         9.60        45.47        43.50        20.84 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IR TCGA-3A-A9IU 
        7.36        24.26        33.57        68.52        50.70        15.06 
TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       36.26        10.13        24.43        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
        9.70        19.46         7.10        19.27        17.00         5.88 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       16.37        12.33        11.61        37.15         7.50        12.53 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 
       34.82        23.54         5.03         1.02        24.36         2.01 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 
       20.35        17.79        12.89        22.06         4.21         7.63 
TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8X TCGA-HZ-7918 
        9.50        66.94         8.28        32.15        17.49        31.86 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
       19.50         7.76         0.13        10.32        27.62        20.19 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 
       17.03        23.21        12.03        19.59        12.43        14.93 
TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH 
       17.92         4.96        21.70        16.14        10.13         6.38 
TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 
        0.23        19.82        12.95        49.38        21.90        15.35 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       19.82        36.69        41.33         3.62        43.79        15.81 
TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ 
       19.66        30.02        15.98        17.16        12.00         7.20 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7LX TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO 
       20.88        21.90         8.22         0.26         4.73         7.86 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
       14.17         6.02        11.11         7.40         9.44         8.05 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-OE-A75W 
       13.28         7.56         9.14        12.46        10.29         8.78 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RP 
       13.68         3.12        15.32         9.40         0.30        23.08 
TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG 
       22.85        39.98        16.80         0.39        18.67        13.81 
TCGA-XD-AAUH TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.99        31.27        23.67        66.28        15.35 

  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                          1.35                           0.13 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                         63.85                          90.12 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                         15.50                          15.32 
[1] "1.4 - 63.9 (15.5)" "0.1 - 90.1 (15.3)"
[1] "hr=" "1.2"
D10V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 10(8P11.22) MUTATED         0        1        1         7        21
  AMP PEAK 10(8P11.22) WILD-TYPE       1        4       14        23       100
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 10(8P11.22) MUTATED           2        0
  AMP PEAK 10(8P11.22) WILD-TYPE         3        5
D10V3, multiclass
           clus
vv          AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              4
  STAGE IB                             1                             14
  STAGE IIA                            7                             23
  STAGE IIB                           21                            100
  STAGE III                            2                              3
  STAGE IV                             0                              5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  AMP PEAK 10(8P11.22) MUTATED     1   2  28   1
  AMP PEAK 10(8P11.22) WILD-TYPE   6  22 119   3
D10V4, multiclass
    clus
vv   AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  T1                            1                              6
  T2                            2                             22
  T3                           28                            119
  T4                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V5, binary
                                cls
clus                               0   1
  AMP PEAK 10(8P11.22) MUTATED    10  23
  AMP PEAK 10(8P11.22) WILD-TYPE  40 106
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED     10   23
  AMP PEAK 10(8P11.22) WILD-TYPE   40  106
   clus
vv  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  0                           10                             40
  1                           23                            106
[1] 2 2
[1] FALSE
D10V6, binary
                                cls
clus                              0  1
  AMP PEAK 10(8P11.22) MUTATED   14  0
  AMP PEAK 10(8P11.22) WILD-TYPE 71  5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED     14    0
  AMP PEAK 10(8P11.22) WILD-TYPE   71    5
   clus
vv  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  0                           14                             71
  1                            0                              5
[1] 2 2
[1] FALSE
D10V7, binary
                                cls
clus                              0  1
  AMP PEAK 10(8P11.22) MUTATED   11 23
  AMP PEAK 10(8P11.22) WILD-TYPE 72 78
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED     11   23
  AMP PEAK 10(8P11.22) WILD-TYPE   72   78
        clus
vv       AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  FEMALE                           11                             72
  MALE                             23                             78
[1] 2 2
[1] FALSE
D10V8, binary
                                cls
clus                               0   1
  AMP PEAK 10(8P11.22) MUTATED    21  12
  AMP PEAK 10(8P11.22) WILD-TYPE 104  32
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED     21   12
  AMP PEAK 10(8P11.22) WILD-TYPE  104   32
     clus
vv    AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  NO                            21                            104
  YES                           12                             32
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 10(8P11.22) MUTATED                                    30
  AMP PEAK 10(8P11.22) WILD-TYPE                                 123
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 10(8P11.22) MUTATED                                       3
  AMP PEAK 10(8P11.22) WILD-TYPE                                    22
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 10(8P11.22) MUTATED                                                  0
  AMP PEAK 10(8P11.22) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 10(8P11.22) MUTATED                                     0
  AMP PEAK 10(8P11.22) WILD-TYPE                                   1
D10V9, multiclass
                                                  clus
vv                                                 AMP PEAK 10(8P11.22) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        30
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK 10(8P11.22) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         123
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        22
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V10, continuous
D10V11, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 10(8P11.22) MUTATED   15 14  1  0
  AMP PEAK 10(8P11.22) WILD-TYPE 96 39  4  4
D10V12, multiclass
    clus
vv   AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  R0                           15                             96
  R1                           14                             39
  R2                            1                              4
  RX                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 10(8P11.22) MUTATED       1                         0    31
  AMP PEAK 10(8P11.22) WILD-TYPE    10                         7   130
D10V14, multiclass
                           clus
vv                          AMP PEAK 10(8P11.22) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               31
                           clus
vv                          AMP PEAK 10(8P11.22) WILD-TYPE
  ASIAN                                                 10
  BLACK OR AFRICAN AMERICAN                              7
  WHITE                                                130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V15, binary
                                cls
clus                               0   1
  AMP PEAK 10(8P11.22) MUTATED     1  25
  AMP PEAK 10(8P11.22) WILD-TYPE   4 111
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED      1   25
  AMP PEAK 10(8P11.22) WILD-TYPE    4  111
                        clus
vv                       AMP PEAK 10(8P11.22) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           25
                        clus
vv                       AMP PEAK 10(8P11.22) WILD-TYPE
  HISPANIC OR LATINO                                  4
  NOT HISPANIC OR LATINO                            111
[1] 2 2
[1] FALSE

Clustering(11) Variable = AMP PEAK 11(8P11.21) MUTATION ANALYSIS
D11V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 11(8P11.21) MUTATED   16 18
  AMP PEAK 11(8P11.21) WILD-TYPE 67 82
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            34                            149 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            18                             82 
$`AMP PEAK 11(8P11.21) MUTATED`
TCGA-3A-A9I5 TCGA-S4-A8RO TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABP TCGA-3A-A9IO 
       58.98        17.26         2.63        22.72        15.22        63.85 
TCGA-3A-A9IS TCGA-3A-A9IX TCGA-F2-A7TX TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPZ 
       32.81        34.09         3.12        24.07        15.95        23.54 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-HV-A5A6 TCGA-HV-AA8V 
       15.55         4.04         5.10        36.20        66.94        30.25 
TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8637 TCGA-HZ-A77O TCGA-HZ-A77P TCGA-IB-7646 
        3.95         9.83        17.00         5.26        10.85         4.77 
TCGA-IB-7649 TCGA-IB-7886 TCGA-IB-7893 TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-AAUU 
       15.35         4.04         3.85        15.85         1.35         8.05 
TCGA-M8-A5N4 TCGA-S4-A8RM TCGA-YB-A89D TCGA-YH-A8SY 
       19.20        24.23        11.51        12.76 

$`AMP PEAK 11(8P11.21) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        60.95        90.12         7.66         8.02 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
       15.78        13.84        21.73        21.60         1.08        15.65 
TCGA-IB-A5SS TCGA-LB-A7SX TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 
       15.12        12.92        14.14        16.37         2.17        23.97 
TCGA-2J-AAB6 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI 
        9.63        20.61        19.96        22.22        42.31        31.86 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       15.91        14.47         9.11        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 
        3.39        12.95         9.60        45.47        43.50        20.84 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IR TCGA-3A-A9IU 
        7.36        24.26        33.57        68.52        50.70        15.06 
TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       36.26        10.13        24.43        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
        9.70        19.46         7.10        19.27        17.00         5.88 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       16.37        12.33        11.61        37.15         7.50        12.53 
TCGA-FB-AAPY TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5923 
       34.82         5.03         1.02        24.36         2.01        20.35 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 
       17.79        12.89        22.06         4.21         7.63         9.50 
TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 
        8.28        32.15        17.49        31.86        19.50         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        0.13        10.32        27.62        20.19        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
       12.03        19.59        12.43        14.93        17.92         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A8P1 TCGA-HZ-A9TJ 
       21.70        16.14        10.13         6.38         0.23        19.82 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
       12.95        49.38        21.90        19.82        36.69        41.33 
TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 
        3.62        43.79        15.81        19.66        30.02        15.98 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF 
       15.19        17.16        12.00         7.20        20.88        21.90 
TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP 
        8.22        15.88         0.26         4.73         7.86        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        6.02        11.11         7.40         9.44        13.28         7.56 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
        9.14        12.46        10.29         8.78        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RP TCGA-US-A774 
        3.12        15.32         9.40         0.30        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       39.98        16.80         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        31.27        23.67        66.28        15.35 

  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                          1.35                           0.13 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                         66.94                          90.12 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                         15.45                          15.32 
[1] "1.4 - 66.9 (15.4)" "0.1 - 90.1 (15.3)"
[1] "hr=" "1"  
D11V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 11(8P11.21) MUTATED         0        1        1         6        23
  AMP PEAK 11(8P11.21) WILD-TYPE       1        4       14        24        98
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 11(8P11.21) MUTATED           1        0
  AMP PEAK 11(8P11.21) WILD-TYPE         4        5
D11V3, multiclass
           clus
vv          AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              4
  STAGE IB                             1                             14
  STAGE IIA                            6                             24
  STAGE IIB                           23                             98
  STAGE III                            1                              4
  STAGE IV                             0                              5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  AMP PEAK 11(8P11.21) MUTATED     1   3  28   0
  AMP PEAK 11(8P11.21) WILD-TYPE   6  21 119   4
D11V4, multiclass
    clus
vv   AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  T1                            1                              6
  T2                            3                             21
  T3                           28                            119
  T4                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V5, binary
                                cls
clus                               0   1
  AMP PEAK 11(8P11.21) MUTATED     9  24
  AMP PEAK 11(8P11.21) WILD-TYPE  41 105
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED      9   24
  AMP PEAK 11(8P11.21) WILD-TYPE   41  105
   clus
vv  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  0                            9                             41
  1                           24                            105
[1] 2 2
[1] FALSE
D11V6, binary
                                cls
clus                              0  1
  AMP PEAK 11(8P11.21) MUTATED   16  0
  AMP PEAK 11(8P11.21) WILD-TYPE 69  5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED     16    0
  AMP PEAK 11(8P11.21) WILD-TYPE   69    5
   clus
vv  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  0                           16                             69
  1                            0                              5
[1] 2 2
[1] FALSE
D11V7, binary
                                cls
clus                              0  1
  AMP PEAK 11(8P11.21) MUTATED   11 23
  AMP PEAK 11(8P11.21) WILD-TYPE 72 78
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED     11   23
  AMP PEAK 11(8P11.21) WILD-TYPE   72   78
        clus
vv       AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  FEMALE                           11                             72
  MALE                             23                             78
[1] 2 2
[1] FALSE
D11V8, binary
                                cls
clus                               0   1
  AMP PEAK 11(8P11.21) MUTATED    21  11
  AMP PEAK 11(8P11.21) WILD-TYPE 104  33
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED     21   11
  AMP PEAK 11(8P11.21) WILD-TYPE  104   33
     clus
vv    AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  NO                            21                            104
  YES                           11                             33
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 11(8P11.21) MUTATED                                    29
  AMP PEAK 11(8P11.21) WILD-TYPE                                 124
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 11(8P11.21) MUTATED                                       3
  AMP PEAK 11(8P11.21) WILD-TYPE                                    22
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 11(8P11.21) MUTATED                                                  0
  AMP PEAK 11(8P11.21) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 11(8P11.21) MUTATED                                     1
  AMP PEAK 11(8P11.21) WILD-TYPE                                   0
D11V9, multiclass
                                                  clus
vv                                                 AMP PEAK 11(8P11.21) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        29
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 11(8P11.21) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         124
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        22
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V10, continuous
D11V11, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 11(8P11.21) MUTATED   17 13  1  0
  AMP PEAK 11(8P11.21) WILD-TYPE 94 40  4  4
D11V12, multiclass
    clus
vv   AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  R0                           17                             94
  R1                           13                             40
  R2                            1                              4
  RX                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 11(8P11.21) MUTATED       2                         0    29
  AMP PEAK 11(8P11.21) WILD-TYPE     9                         7   132
D11V14, multiclass
                           clus
vv                          AMP PEAK 11(8P11.21) MUTATED
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               29
                           clus
vv                          AMP PEAK 11(8P11.21) WILD-TYPE
  ASIAN                                                  9
  BLACK OR AFRICAN AMERICAN                              7
  WHITE                                                132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V15, binary
                                cls
clus                               0   1
  AMP PEAK 11(8P11.21) MUTATED     1  23
  AMP PEAK 11(8P11.21) WILD-TYPE   4 113
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED      1   23
  AMP PEAK 11(8P11.21) WILD-TYPE    4  113
                        clus
vv                       AMP PEAK 11(8P11.21) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           23
                        clus
vv                       AMP PEAK 11(8P11.21) WILD-TYPE
  HISPANIC OR LATINO                                  4
  NOT HISPANIC OR LATINO                            113
[1] 2 2
[1] FALSE

Clustering(12) Variable = AMP PEAK 12(8Q24.21) MUTATION ANALYSIS
D12V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 12(8Q24.21) MUTATED   27 47
  AMP PEAK 12(8Q24.21) WILD-TYPE 56 53
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            74                            109 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            47                             53 
$`AMP PEAK 12(8Q24.21) MUTATED`
TCGA-3A-A9I5 TCGA-FB-AAQ6 TCGA-HZ-7289 TCGA-IB-7654 TCGA-IB-A5SS TCGA-S4-A8RO 
       58.98         8.02        21.73        15.65        15.12        17.26 
TCGA-2J-AAB4 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABP TCGA-2L-AAQE TCGA-2L-AAQI 
       23.97        22.72        42.31        15.22        22.49         3.39 
TCGA-2L-AAQJ TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IO TCGA-3A-A9IS TCGA-3A-A9IX 
       12.95         7.36        33.57        63.85        32.81        34.09 
TCGA-3A-A9IZ TCGA-F2-6879 TCGA-F2-A7TX TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
       10.13        10.98         3.12        24.07        16.37        12.33 
TCGA-FB-AAPP TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 
       15.95        12.53        23.54        15.55         4.04         5.03 
TCGA-FB-AAQ3 TCGA-FZ-5921 TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A6 
        1.02         5.10        17.79        22.06         4.21        66.94 
TCGA-HV-AA8V TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8005 TCGA-HZ-8315 
       30.25        31.86         0.13        20.19         3.95         9.83 
TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7646 
       17.92        17.00         5.26         0.23        19.82         4.77 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-7890 
       21.90        15.35        36.69         4.04        15.81        19.66 
TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX 
        3.85        17.16        15.85        21.90         1.35         8.22 
TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUQ TCGA-L1-A7W4 TCGA-M8-A5N4 TCGA-OE-A75W 
       15.88         4.73         6.02         9.14        19.20         8.78 
TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A776 TCGA-US-A779 TCGA-XD-AAUI TCGA-XN-A8T3 
       24.23        23.08        39.98        16.80        12.03        31.27 
TCGA-YB-A89D TCGA-YH-A8SY 
       11.51        12.76 

$`AMP PEAK 12(8Q24.21) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-FZ-5924 
       14.40        10.49        60.95        90.12         7.66        15.78 
TCGA-H6-A45N TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-LB-A7SX TCGA-US-A77E TCGA-XD-AAUL 
       13.84        21.60         1.08        12.92        14.14        16.37 
TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE 
        2.17         9.63         2.63        20.61        19.96        22.22 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       31.86        15.91        14.47         9.11        21.44         4.70 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IN 
        9.60        45.47        43.50        20.84        24.26        68.52 
TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       50.70        15.06        36.26        24.43        75.12        71.74 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
        9.70        19.46         7.10        19.27        17.00         5.88 
TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FZ-5919 TCGA-FZ-5920 
       11.61        37.15         7.50        34.82        24.36         2.01 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-H6-8124 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL 
       36.20        20.35        12.89         7.63         9.50         8.28 
TCGA-HV-A7OP TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 
       32.15        17.49        19.50         7.76        10.32        27.62 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 
       17.03        23.21        12.03        19.59        12.43        14.93 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77P 
        4.96        21.70        16.14        10.13         6.38        10.85 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 
       12.95        49.38        19.82        41.33         3.62        43.79 
TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST 
       30.02        15.98        15.19        12.00         7.20        20.88 
TCGA-IB-AAUM TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        0.26         7.86        14.17        11.11         7.40         9.44 
TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-PZ-A5RE 
        8.05        13.28         7.56        12.46        10.29        15.45 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-US-A774 
       13.68         3.12        15.32         9.40         0.30        22.85 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XN-A8T5 TCGA-YY-A8LH 
        0.39        18.67        13.81        12.99        23.67        66.28 
TCGA-Z5-AAPL 
       15.35 

  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                          0.13                           0.26 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                         66.94                          90.12 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                         15.83                          14.93 
[1] "0.1 - 66.9 (15.8)" "0.3 - 90.1 (14.9)"
[1] "hr=" "1.4"
D12V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 12(8Q24.21) MUTATED         0        3        6        11        47
  AMP PEAK 12(8Q24.21) WILD-TYPE       1        2        9        19        74
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 12(8Q24.21) MUTATED           3        2
  AMP PEAK 12(8Q24.21) WILD-TYPE         2        3
D12V3, multiclass
           clus
vv          AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             3                              2
  STAGE IB                             6                              9
  STAGE IIA                           11                             19
  STAGE IIB                           47                             74
  STAGE III                            3                              2
  STAGE IV                             2                              3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             T1 T2 T3 T4
  AMP PEAK 12(8Q24.21) MUTATED    3 10 58  1
  AMP PEAK 12(8Q24.21) WILD-TYPE  4 14 89  3
D12V4, multiclass
    clus
vv   AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  T1                            3                              4
  T2                           10                             14
  T3                           58                             89
  T4                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V5, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED   23 49
  AMP PEAK 12(8Q24.21) WILD-TYPE 27 80
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     23   49
  AMP PEAK 12(8Q24.21) WILD-TYPE   27   80
   clus
vv  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  0                           23                             27
  1                           49                             80
[1] 2 2
[1] FALSE
D12V6, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED   34  2
  AMP PEAK 12(8Q24.21) WILD-TYPE 51  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     34    2
  AMP PEAK 12(8Q24.21) WILD-TYPE   51    3
   clus
vv  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  0                           34                             51
  1                            2                              3
[1] 2 2
[1] FALSE
D12V7, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED   29 45
  AMP PEAK 12(8Q24.21) WILD-TYPE 54 56
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     29   45
  AMP PEAK 12(8Q24.21) WILD-TYPE   54   56
        clus
vv       AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  FEMALE                           29                             54
  MALE                             45                             56
[1] 2 2
[1] FALSE
D12V8, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED   54 15
  AMP PEAK 12(8Q24.21) WILD-TYPE 71 29
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     54   15
  AMP PEAK 12(8Q24.21) WILD-TYPE   71   29
     clus
vv    AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  NO                            54                             71
  YES                           15                             29
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 12(8Q24.21) MUTATED                                    63
  AMP PEAK 12(8Q24.21) WILD-TYPE                                  90
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 12(8Q24.21) MUTATED                                       8
  AMP PEAK 12(8Q24.21) WILD-TYPE                                    17
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 12(8Q24.21) MUTATED                                                  1
  AMP PEAK 12(8Q24.21) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 12(8Q24.21) MUTATED                                     1
  AMP PEAK 12(8Q24.21) WILD-TYPE                                   0
D12V9, multiclass
                                                  clus
vv                                                 AMP PEAK 12(8Q24.21) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        63
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 12(8Q24.21) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          90
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        17
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V10, continuous
D12V11, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 12(8Q24.21) MUTATED   41 26  2  1
  AMP PEAK 12(8Q24.21) WILD-TYPE 70 27  3  3
D12V12, multiclass
    clus
vv   AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  R0                           41                             70
  R1                           26                             27
  R2                            2                              3
  RX                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 12(8Q24.21) MUTATED       5                         0    65
  AMP PEAK 12(8Q24.21) WILD-TYPE     6                         7    96
D12V14, multiclass
                           clus
vv                          AMP PEAK 12(8Q24.21) MUTATED
  ASIAN                                                5
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               65
                           clus
vv                          AMP PEAK 12(8Q24.21) WILD-TYPE
  ASIAN                                                  6
  BLACK OR AFRICAN AMERICAN                              7
  WHITE                                                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V15, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED    3 53
  AMP PEAK 12(8Q24.21) WILD-TYPE  2 83
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED      3   53
  AMP PEAK 12(8Q24.21) WILD-TYPE    2   83
                        clus
vv                       AMP PEAK 12(8Q24.21) MUTATED
  HISPANIC OR LATINO                                3
  NOT HISPANIC OR LATINO                           53
                        clus
vv                       AMP PEAK 12(8Q24.21) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                             83
[1] 2 2
[1] FALSE

Clustering(13) Variable = AMP PEAK 13(9P13.3) MUTATION ANALYSIS
D13V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 13(9P13.3) MUTATED   11 12
  AMP PEAK 13(9P13.3) WILD-TYPE 72 88
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                           23                           160 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                           12                            88 
$`AMP PEAK 13(9P13.3) MUTATED`
TCGA-2J-AABT TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQM TCGA-3A-A9IN TCGA-3A-A9IV 
       10.49        15.22         9.11        45.47        68.52        36.26 
TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FZ-5920 
       15.95        37.15        23.54        15.55         4.04         2.01 
TCGA-H8-A6C1 TCGA-HZ-7925 TCGA-HZ-8636 TCGA-IB-7646 TCGA-IB-7893 TCGA-IB-8126 
       22.06        20.19        17.92         4.77         3.85        15.19 
TCGA-IB-A7LX TCGA-IB-AAUP TCGA-M8-A5N4 TCGA-US-A779 TCGA-XN-A8T3 
        8.22        14.17        19.20        16.80        31.27 

$`AMP PEAK 13(9P13.3) WILD-TYPE`
TCGA-2J-AABR TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        58.98        60.95        90.12         7.66         8.02 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
       15.78        13.84        21.73        21.60         1.08        15.65 
TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 
       15.12        12.92        17.26        14.14        16.37         2.17 
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE 
       23.97         9.63         2.63        20.61        19.96        22.22 
TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABV 
       22.72        42.31        31.86        15.91        14.47        21.44 
TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I7 
        4.70        22.49         3.39        12.95         9.60        43.50 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IO TCGA-3A-A9IR 
       20.84         7.36        24.26        33.57        63.85        50.70 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY 
       32.81        15.06        34.09        10.13        24.43        75.12 
TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H 
       71.74        10.98         9.70        19.46         7.10        19.27 
TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
        3.12        17.00         5.88        24.07        16.37        12.33 
TCGA-FB-A7DR TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ2 TCGA-FB-AAQ3 
       11.61         7.50        12.53        34.82         5.03         1.02 
TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
       24.36         5.10        36.20        20.35        17.79        12.89 
TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP 
        4.21         7.63         9.50        66.94         8.28        32.15 
TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       30.25        17.49        31.86        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
       10.32        27.62        17.03        23.21        12.03        19.59 
TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 
        3.95         9.83        12.43        14.93        17.00         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P 
       21.70        16.14        10.13         6.38         5.26        10.85 
TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 
        0.23        19.82        12.95        49.38        21.90        15.35 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 
       19.82        36.69        41.33         4.04         3.62        43.79 
TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8127 TCGA-IB-A5SO 
       15.81        19.66        30.02        15.98        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 
       15.85         7.20        20.88        21.90         1.35        15.88 
TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
        0.26         4.73         7.86         6.02        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 
        9.44         8.05        13.28         7.56         9.14        12.46 
TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
       10.29         8.78        15.45        13.68         3.12        15.32 
TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 
        9.40         0.30        24.23        23.08        22.85        39.98 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T5 
        0.39        18.67        13.81        12.99        12.03        23.67 
TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        12.76        66.28        15.35 

  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                         2.01                          0.13 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                        68.52                         90.12 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                        15.95                         15.22 
[1] "2.0 - 68.5 (15.9)" "0.1 - 90.1 (15.2)"
[1] "hr=" "1.1"
D13V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 13(9P13.3) MUTATED         0        0        3         4        15
  AMP PEAK 13(9P13.3) WILD-TYPE       1        5       12        26       106
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK 13(9P13.3) MUTATED           1        1
  AMP PEAK 13(9P13.3) WILD-TYPE         4        4
D13V3, multiclass
           clus
vv          AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            3                            12
  STAGE IIA                           4                            26
  STAGE IIB                          15                           106
  STAGE III                           1                             4
  STAGE IV                            1                             4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  AMP PEAK 13(9P13.3) MUTATED     0   4  19   1
  AMP PEAK 13(9P13.3) WILD-TYPE   7  20 128   3
D13V4, multiclass
    clus
vv   AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  T1                           0                             7
  T2                           4                            20
  T3                          19                           128
  T4                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V5, binary
                               cls
clus                              0   1
  AMP PEAK 13(9P13.3) MUTATED     7  16
  AMP PEAK 13(9P13.3) WILD-TYPE  43 113
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED      7   16
  AMP PEAK 13(9P13.3) WILD-TYPE   43  113
   clus
vv  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  0                           7                            43
  1                          16                           113
[1] 2 2
[1] FALSE
D13V6, binary
                               cls
clus                             0  1
  AMP PEAK 13(9P13.3) MUTATED   10  1
  AMP PEAK 13(9P13.3) WILD-TYPE 75  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED     10    1
  AMP PEAK 13(9P13.3) WILD-TYPE   75    4
   clus
vv  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  0                          10                            75
  1                           1                             4
[1] 2 2
[1] FALSE
D13V7, binary
                               cls
clus                             0  1
  AMP PEAK 13(9P13.3) MUTATED    8 16
  AMP PEAK 13(9P13.3) WILD-TYPE 75 85
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED      8   16
  AMP PEAK 13(9P13.3) WILD-TYPE   75   85
        clus
vv       AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  FEMALE                           8                            75
  MALE                            16                            85
[1] 2 2
[1] FALSE
D13V8, binary
                               cls
clus                              0   1
  AMP PEAK 13(9P13.3) MUTATED    16   4
  AMP PEAK 13(9P13.3) WILD-TYPE 109  40
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED     16    4
  AMP PEAK 13(9P13.3) WILD-TYPE  109   40
     clus
vv    AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  NO                           16                           109
  YES                           4                            40
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 13(9P13.3) MUTATED                                    19
  AMP PEAK 13(9P13.3) WILD-TYPE                                 134
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 13(9P13.3) MUTATED                                       4
  AMP PEAK 13(9P13.3) WILD-TYPE                                    21
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 13(9P13.3) MUTATED                                                  0
  AMP PEAK 13(9P13.3) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 13(9P13.3) MUTATED                                     1
  AMP PEAK 13(9P13.3) WILD-TYPE                                   0
D13V9, multiclass
                                                  clus
vv                                                 AMP PEAK 13(9P13.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       19
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 AMP PEAK 13(9P13.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        134
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       21
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V10, continuous
D13V11, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK 13(9P13.3) MUTATED   15  9  0  0
  AMP PEAK 13(9P13.3) WILD-TYPE 96 44  5  4
D13V12, multiclass
    clus
vv   AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  R0                          15                            96
  R1                           9                            44
  R2                           0                             5
  RX                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 13(9P13.3) MUTATED       0                         1    22
  AMP PEAK 13(9P13.3) WILD-TYPE    11                         6   139
D13V14, multiclass
                           clus
vv                          AMP PEAK 13(9P13.3) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              22
                           clus
vv                          AMP PEAK 13(9P13.3) WILD-TYPE
  ASIAN                                                11
  BLACK OR AFRICAN AMERICAN                             6
  WHITE                                               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V15, binary
                               cls
clus                              0   1
  AMP PEAK 13(9P13.3) MUTATED     1  18
  AMP PEAK 13(9P13.3) WILD-TYPE   4 118
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED      1   18
  AMP PEAK 13(9P13.3) WILD-TYPE    4  118
                        clus
vv                       AMP PEAK 13(9P13.3) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          18
                        clus
vv                       AMP PEAK 13(9P13.3) WILD-TYPE
  HISPANIC OR LATINO                                 4
  NOT HISPANIC OR LATINO                           118
[1] 2 2
[1] FALSE

Clustering(14) Variable = AMP PEAK 14(12P13.33) MUTATION ANALYSIS
D14V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 14(12P13.33) MUTATED   18 21
  AMP PEAK 14(12P13.33) WILD-TYPE 65 79
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             39                             144 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             21                              79 
$`AMP PEAK 14(12P13.33) MUTATED`
TCGA-3A-A9I5 TCGA-3A-A9IL TCGA-FZ-5924 TCGA-HZ-7289 TCGA-IB-7654 TCGA-LB-A7SX 
       58.98        90.12        15.78        21.73        15.65        12.92 
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABI TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9IB 
        2.63        22.72        31.86         9.60        45.47         7.36 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IS TCGA-3A-A9IV TCGA-F2-6879 TCGA-F2-A7TX 
       68.52        63.85        32.81        36.26        10.98         3.12 
TCGA-FB-AAPP TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 
       15.95        12.53        23.54        15.55         4.04         5.03 
TCGA-HV-A5A3 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-A77O TCGA-HZ-A9TJ TCGA-IB-7646 
        4.21         0.13         3.95         5.26        19.82         4.77 
TCGA-IB-7890 TCGA-IB-8127 TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUT 
       19.66        17.16        21.90         1.35         8.22         9.44 
TCGA-Q3-AA2A TCGA-US-A776 TCGA-YH-A8SY 
        3.12        39.98        12.76 

$`AMP PEAK 14(12P13.33) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-H6-A45N 
       14.40        10.49        60.95         7.66         8.02        13.84 
TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-A5SS TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL 
       21.60         1.08        15.12        17.26        14.14        16.37 
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE 
        2.17        23.97         9.63        20.61        19.96        22.22 
TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV 
       42.31        15.91        14.47        15.22         9.11        21.44 
TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I7 TCGA-3A-A9I9 
        4.70        22.49         3.39        12.95        43.50        20.84 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ 
       24.26        33.57        50.70        15.06        34.09        10.13 
TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 
       24.43        75.12        71.74         9.70        19.46         7.10 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
       19.27        17.00         5.88        24.07        16.37        12.33 
TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAQ3 TCGA-FZ-5919 
       11.61        37.15         7.50        34.82         1.02        24.36 
TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
        2.01         5.10        36.20        20.35        17.79        12.89 
TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP 
       22.06         7.63         9.50        66.94         8.28        32.15 
TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 
       30.25        17.49        31.86        19.50         7.76        10.32 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
       27.62        20.19        17.03        23.21        12.03        19.59 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 
        9.83        12.43        14.93        17.92        17.00         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77P TCGA-HZ-A8P1 
       21.70        16.14        10.13         6.38        10.85         0.23 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
       12.95        49.38        21.90        15.35        19.82        36.69 
TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 
       41.33         4.04         3.62        43.79        15.81        30.02 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
        3.85        15.98        15.19        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP 
       20.88        15.88         0.26         4.73         7.86        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
        6.02        11.11         7.40         8.05        13.28         7.56 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
        9.14        12.46        10.29        19.20         8.78        15.45 
TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP 
       13.68        15.32         9.40         0.30        24.23        23.08 
TCGA-US-A774 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       22.85        16.80         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        31.27        23.67        11.51        66.28        15.35 

  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                           0.13                            0.23 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                          90.12                           75.12 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                         15.550                          15.335 
[1] "0.1 - 90.1 (15.6)" "0.2 - 75.1 (15.3)"
[1] "hr=" "1"  
D14V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 14(12P13.33) MUTATED         1        0        5         6        23
  AMP PEAK 14(12P13.33) WILD-TYPE       0        5       10        24        98
                                 vv
clus                              STAGE III STAGE IV
  AMP PEAK 14(12P13.33) MUTATED           1        1
  AMP PEAK 14(12P13.33) WILD-TYPE         4        4
D14V3, multiclass
           clus
vv          AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  STAGE I                               1                               0
  STAGE IA                              0                               5
  STAGE IB                              5                              10
  STAGE IIA                             6                              24
  STAGE IIB                            23                              98
  STAGE III                             1                               4
  STAGE IV                              1                               4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                               T1  T2  T3  T4
  AMP PEAK 14(12P13.33) MUTATED     1   8  28   0
  AMP PEAK 14(12P13.33) WILD-TYPE   6  16 119   4
D14V4, multiclass
    clus
vv   AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  T1                             1                               6
  T2                             8                              16
  T3                            28                             119
  T4                             0                               4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V5, binary
                                 cls
clus                                0   1
  AMP PEAK 14(12P13.33) MUTATED     9  26
  AMP PEAK 14(12P13.33) WILD-TYPE  41 103
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED      9   26
  AMP PEAK 14(12P13.33) WILD-TYPE   41  103
   clus
vv  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  0                             9                              41
  1                            26                             103
[1] 2 2
[1] FALSE
D14V6, binary
                                 cls
clus                               0  1
  AMP PEAK 14(12P13.33) MUTATED   13  1
  AMP PEAK 14(12P13.33) WILD-TYPE 72  4
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED     13    1
  AMP PEAK 14(12P13.33) WILD-TYPE   72    4
   clus
vv  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  0                            13                              72
  1                             1                               4
[1] 2 2
[1] FALSE
D14V7, binary
                                 cls
clus                               0  1
  AMP PEAK 14(12P13.33) MUTATED   12 27
  AMP PEAK 14(12P13.33) WILD-TYPE 71 74
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED     12   27
  AMP PEAK 14(12P13.33) WILD-TYPE   71   74
        clus
vv       AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  FEMALE                            12                              71
  MALE                              27                              74
[1] 2 2
[1] FALSE
D14V8, binary
                                 cls
clus                               0  1
  AMP PEAK 14(12P13.33) MUTATED   31  6
  AMP PEAK 14(12P13.33) WILD-TYPE 94 38
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED     31    6
  AMP PEAK 14(12P13.33) WILD-TYPE   94   38
     clus
vv    AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  NO                             31                              94
  YES                             6                              38
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 14(12P13.33) MUTATED                                    26
  AMP PEAK 14(12P13.33) WILD-TYPE                                 127
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 14(12P13.33) MUTATED                                      10
  AMP PEAK 14(12P13.33) WILD-TYPE                                    15
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 14(12P13.33) MUTATED                                                  2
  AMP PEAK 14(12P13.33) WILD-TYPE                                                2
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 14(12P13.33) MUTATED                                     0
  AMP PEAK 14(12P13.33) WILD-TYPE                                   1
D14V9, multiclass
                                                  clus
vv                                                 AMP PEAK 14(12P13.33) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         26
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       10
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 AMP PEAK 14(12P13.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          127
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         15
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                               2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                            1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V10, continuous
D14V11, continuous
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 14(12P13.33) MUTATED   19 15  0  3
  AMP PEAK 14(12P13.33) WILD-TYPE 92 38  5  1
D14V12, multiclass
    clus
vv   AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  R0                            19                              92
  R1                            15                              38
  R2                             0                               5
  RX                             3                               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V13, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 14(12P13.33) MUTATED       2                         1    35
  AMP PEAK 14(12P13.33) WILD-TYPE     9                         6   126
D14V14, multiclass
                           clus
vv                          AMP PEAK 14(12P13.33) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                35
                           clus
vv                          AMP PEAK 14(12P13.33) WILD-TYPE
  ASIAN                                                   9
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V15, binary
                                 cls
clus                                0   1
  AMP PEAK 14(12P13.33) MUTATED     0  30
  AMP PEAK 14(12P13.33) WILD-TYPE   5 106
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED      0   30
  AMP PEAK 14(12P13.33) WILD-TYPE    5  106
                        clus
vv                       AMP PEAK 14(12P13.33) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            30
                        clus
vv                       AMP PEAK 14(12P13.33) WILD-TYPE
  HISPANIC OR LATINO                                   5
  NOT HISPANIC OR LATINO                             106
[1] 2 2
[1] FALSE

Clustering(15) Variable = AMP PEAK 15(12P11.21) MUTATION ANALYSIS
D15V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 15(12P11.21) MUTATED   21 22
  AMP PEAK 15(12P11.21) WILD-TYPE 62 78
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             43                             140 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             22                              78 
$`AMP PEAK 15(12P11.21) MUTATED`
TCGA-3A-A9I5 TCGA-3A-A9IL TCGA-FZ-5924 TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-2J-AAB8 
       58.98        90.12        15.78        21.73        21.60         2.63 
TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABU TCGA-2L-AAQJ TCGA-2L-AAQL 
       22.72        31.86        14.47         9.11        12.95         9.60 
TCGA-2L-AAQM TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IS 
       45.47         7.36        33.57        68.52        63.85        32.81 
TCGA-3A-A9IV TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-AAPP TCGA-FB-AAPZ TCGA-FB-AAQ0 
       36.26         3.12        17.00        15.95        23.54        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5920 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HZ-7922 
        4.04         5.03         2.01         4.21         7.63         0.13 
TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A9TJ TCGA-IB-7646 
        3.95        17.92         6.38         5.26        19.82         4.77 
TCGA-IB-7886 TCGA-IB-7890 TCGA-IB-8127 TCGA-IB-A6UG TCGA-IB-A7LX TCGA-Q3-AA2A 
        4.04        19.66        17.16         1.35         8.22         3.12 
TCGA-YH-A8SY 
       12.76 

$`AMP PEAK 15(12P11.21) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-H6-A45N 
       14.40        10.49        60.95         7.66         8.02        13.84 
TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E 
        1.08        15.65        15.12        12.92        17.26        14.14 
TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB9 TCGA-2J-AABA 
       16.37         2.17        23.97         9.63        20.61        19.96 
TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABV TCGA-2L-AAQA 
       22.22        42.31        15.91        15.22        21.44         4.70 
TCGA-2L-AAQE TCGA-2L-AAQI TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IR 
       22.49         3.39        43.50        20.84        24.26        50.70 
TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       15.06        34.09        10.13        24.43        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-FB-A4P5 
       10.98         9.70        19.46         7.10        19.27         5.88 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS 
       24.07        16.37        12.33        11.61        37.15         7.50 
TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 
       12.53        34.82         1.02        24.36         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A5 TCGA-HV-A5A6 
       20.35        17.79        12.89        22.06         9.50        66.94 
TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 
        8.28        32.15        30.25        17.49        31.86        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76        10.32        27.62        20.19        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 
       12.03        19.59         9.83        12.43        14.93        17.00 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77P TCGA-HZ-A8P1 
        4.96        21.70        16.14        10.13        10.85         0.23 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
       12.95        49.38        21.90        15.35        19.82        36.69 
TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7893 
       41.33         3.62        43.79        15.81        30.02         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST 
       15.98        15.19        12.00        15.85         7.20        20.88 
TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP 
       21.90        15.88         0.26         4.73         7.86        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        6.02        11.11         7.40         9.44         8.05        13.28 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
        7.56         9.14        12.46        10.29        19.20         8.78 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM 
       15.45        13.68        15.32         9.40         0.30        24.23 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J 
       23.08        22.85        39.98        16.80         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D 
       13.81        12.99        12.03        31.27        23.67        11.51 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28        15.35 

  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                           0.13                            0.23 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                          90.12                           75.12 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                          14.47                           15.35 
[1] "0.1 - 90.1 (14.5)" "0.2 - 75.1 (15.3)"
[1] "hr=" "1"  
D15V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 15(12P11.21) MUTATED         1        1        5         6        24
  AMP PEAK 15(12P11.21) WILD-TYPE       0        4       10        24        97
                                 vv
clus                              STAGE III STAGE IV
  AMP PEAK 15(12P11.21) MUTATED           2        2
  AMP PEAK 15(12P11.21) WILD-TYPE         3        3
D15V3, multiclass
           clus
vv          AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  STAGE I                               1                               0
  STAGE IA                              1                               4
  STAGE IB                              5                              10
  STAGE IIA                             6                              24
  STAGE IIB                            24                              97
  STAGE III                             2                               3
  STAGE IV                              2                               3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                               T1  T2  T3  T4
  AMP PEAK 15(12P11.21) MUTATED     2   6  32   1
  AMP PEAK 15(12P11.21) WILD-TYPE   5  18 115   3
D15V4, multiclass
    clus
vv   AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  T1                             2                               5
  T2                             6                              18
  T3                            32                             115
  T4                             1                               3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V5, binary
                                 cls
clus                                0   1
  AMP PEAK 15(12P11.21) MUTATED    12  27
  AMP PEAK 15(12P11.21) WILD-TYPE  38 102
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED     12   27
  AMP PEAK 15(12P11.21) WILD-TYPE   38  102
   clus
vv  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  0                            12                              38
  1                            27                             102
[1] 2 2
[1] FALSE
D15V6, binary
                                 cls
clus                               0  1
  AMP PEAK 15(12P11.21) MUTATED   14  2
  AMP PEAK 15(12P11.21) WILD-TYPE 71  3
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED     14    2
  AMP PEAK 15(12P11.21) WILD-TYPE   71    3
   clus
vv  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  0                            14                              71
  1                             2                               3
[1] 2 2
[1] FALSE
D15V7, binary
                                 cls
clus                               0  1
  AMP PEAK 15(12P11.21) MUTATED   14 29
  AMP PEAK 15(12P11.21) WILD-TYPE 69 72
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED     14   29
  AMP PEAK 15(12P11.21) WILD-TYPE   69   72
        clus
vv       AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  FEMALE                            14                              69
  MALE                              29                              72
[1] 2 2
[1] FALSE
D15V8, binary
                                 cls
clus                               0  1
  AMP PEAK 15(12P11.21) MUTATED   31  8
  AMP PEAK 15(12P11.21) WILD-TYPE 94 36
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED     31    8
  AMP PEAK 15(12P11.21) WILD-TYPE   94   36
     clus
vv    AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  NO                             31                              94
  YES                             8                              36
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 15(12P11.21) MUTATED                                    32
  AMP PEAK 15(12P11.21) WILD-TYPE                                 121
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 15(12P11.21) MUTATED                                      10
  AMP PEAK 15(12P11.21) WILD-TYPE                                    15
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 15(12P11.21) MUTATED                                                  0
  AMP PEAK 15(12P11.21) WILD-TYPE                                                4
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 15(12P11.21) MUTATED                                     0
  AMP PEAK 15(12P11.21) WILD-TYPE                                   1
D15V9, multiclass
                                                  clus
vv                                                 AMP PEAK 15(12P11.21) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         32
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       10
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 AMP PEAK 15(12P11.21) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          121
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         15
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                               4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                            1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V10, continuous
D15V11, continuous
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 15(12P11.21) MUTATED   20 17  0  3
  AMP PEAK 15(12P11.21) WILD-TYPE 91 36  5  1
D15V12, multiclass
    clus
vv   AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  R0                            20                              91
  R1                            17                              36
  R2                             0                               5
  RX                             3                               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V13, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 15(12P11.21) MUTATED       2                         1    39
  AMP PEAK 15(12P11.21) WILD-TYPE     9                         6   122
D15V14, multiclass
                           clus
vv                          AMP PEAK 15(12P11.21) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                39
                           clus
vv                          AMP PEAK 15(12P11.21) WILD-TYPE
  ASIAN                                                   9
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V15, binary
                                 cls
clus                                0   1
  AMP PEAK 15(12P11.21) MUTATED     0  30
  AMP PEAK 15(12P11.21) WILD-TYPE   5 106
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED      0   30
  AMP PEAK 15(12P11.21) WILD-TYPE    5  106
                        clus
vv                       AMP PEAK 15(12P11.21) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            30
                        clus
vv                       AMP PEAK 15(12P11.21) WILD-TYPE
  HISPANIC OR LATINO                                   5
  NOT HISPANIC OR LATINO                             106
[1] 2 2
[1] FALSE

Clustering(16) Variable = AMP PEAK 16(12Q15) MUTATION ANALYSIS
D16V1, survival
                              sevent
clus2                           0  1
  AMP PEAK 16(12Q15) MUTATED   14 15
  AMP PEAK 16(12Q15) WILD-TYPE 69 85
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                          29                          154 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                          15                           85 
$`AMP PEAK 16(12Q15) MUTATED`
TCGA-3A-A9I5 TCGA-3A-A9IL TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-IB-A5SS TCGA-2L-AAQL 
       58.98        90.12        21.73        21.60        15.12         9.60 
TCGA-2L-AAQM TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IS 
       45.47         7.36        33.57        68.52        63.85        32.81 
TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-AAPP TCGA-FB-AAPZ 
       36.26        10.13         3.12        17.00        15.95        23.54 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FZ-5920 TCGA-HV-A5A3 TCGA-HZ-7922 TCGA-HZ-8005 
       15.55         4.04         2.01         4.21         0.13         3.95 
TCGA-IB-7649 TCGA-IB-8127 TCGA-IB-A6UG TCGA-IB-A7LX TCGA-Q3-AA2A 
       15.35        17.16         1.35         8.22         3.12 

$`AMP PEAK 16(12Q15) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-FZ-5924 
       14.40        10.49        60.95         7.66         8.02        15.78 
TCGA-H6-A45N TCGA-HZ-A77Q TCGA-IB-7654 TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E 
       13.84         1.08        15.65        12.92        17.26        14.14 
TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 
       16.37         2.17        23.97         9.63         2.63        20.61 
TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK 
       19.96        22.22        22.72        42.31        31.86        15.91 
TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       14.47        15.22         9.11        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IR 
        3.39        12.95        43.50        20.84        24.26        50.70 
TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       15.06        34.09        24.43        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 
        9.70        19.46         7.10        19.27         5.88        24.07 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       16.37        12.33        11.61        37.15         7.50        12.53 
TCGA-FB-AAPY TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 
       34.82         5.03         1.02        24.36         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A5A5 
       20.35        17.79        12.89        22.06         7.63         9.50 
TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 
       66.94         8.28        32.15        30.25        17.49        31.86 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
       19.50         7.76        10.32        27.62        20.19        17.03 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
       23.21        12.03        19.59         9.83        12.43        14.93 
TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       17.92        17.00         4.96        21.70        16.14        10.13 
TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 
        6.38         5.26        10.85         0.23        19.82        12.95 
TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
       49.38         4.77        21.90        19.82        36.69        41.33 
TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 
        4.04         3.62        43.79        15.81        19.66        30.02 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
        3.85        15.98        15.19        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO 
       20.88        21.90        15.88         0.26         4.73         7.86 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
       14.17         6.02        11.11         7.40         9.44         8.05 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
       13.28         7.56         9.14        12.46        10.29        19.20 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS 
        8.78        15.45        13.68        15.32         9.40         0.30 
TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G 
       24.23        23.08        22.85        39.98        16.80         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 
       18.67        13.81        12.99        12.03        31.27        23.67 
TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        12.76        66.28        15.35 

  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                        0.13                         0.23 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                       90.12                        75.12 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                       15.55                        15.27 
[1] "0.1 - 90.1 (15.6)" "0.2 - 75.1 (15.3)"
[1] "hr=" "1.2"
D16V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 16(12Q15) MUTATED         1        1        4         3        18
  AMP PEAK 16(12Q15) WILD-TYPE       0        4       11        27       103
                              vv
clus                           STAGE III STAGE IV
  AMP PEAK 16(12Q15) MUTATED           0        0
  AMP PEAK 16(12Q15) WILD-TYPE         5        5
D16V3, multiclass
           clus
vv          AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  STAGE I                            1                            0
  STAGE IA                           1                            4
  STAGE IB                           4                           11
  STAGE IIA                          3                           27
  STAGE IIB                         18                          103
  STAGE III                          0                            5
  STAGE IV                           0                            5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                              vv
clus                            T1  T2  T3  T4
  AMP PEAK 16(12Q15) MUTATED     2   4  21   0
  AMP PEAK 16(12Q15) WILD-TYPE   5  20 126   4
D16V4, multiclass
    clus
vv   AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  T1                          2                            5
  T2                          4                           20
  T3                         21                          126
  T4                          0                            4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V5, binary
                              cls
clus                             0   1
  AMP PEAK 16(12Q15) MUTATED     6  19
  AMP PEAK 16(12Q15) WILD-TYPE  44 110
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED      6   19
  AMP PEAK 16(12Q15) WILD-TYPE   44  110
   clus
vv  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  0                          6                           44
  1                         19                          110
[1] 2 2
[1] FALSE
D16V6, binary
                              cls
clus                            0  1
  AMP PEAK 16(12Q15) MUTATED    7  0
  AMP PEAK 16(12Q15) WILD-TYPE 78  5
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED      7    0
  AMP PEAK 16(12Q15) WILD-TYPE   78    5
   clus
vv  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  0                          7                           78
  1                          0                            5
[1] 2 2
[1] FALSE
D16V7, binary
                              cls
clus                            0  1
  AMP PEAK 16(12Q15) MUTATED    9 20
  AMP PEAK 16(12Q15) WILD-TYPE 74 81
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED      9   20
  AMP PEAK 16(12Q15) WILD-TYPE   74   81
        clus
vv       AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  FEMALE                          9                           74
  MALE                           20                           81
[1] 2 2
[1] FALSE
D16V8, binary
                              cls
clus                             0   1
  AMP PEAK 16(12Q15) MUTATED    24   4
  AMP PEAK 16(12Q15) WILD-TYPE 101  40
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED     24    4
  AMP PEAK 16(12Q15) WILD-TYPE  101   40
     clus
vv    AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  NO                          24                          101
  YES                          4                           40
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 16(12Q15) MUTATED                                    21
  AMP PEAK 16(12Q15) WILD-TYPE                                 132
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 16(12Q15) MUTATED                                       8
  AMP PEAK 16(12Q15) WILD-TYPE                                    17
                              vv
clus                           PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 16(12Q15) MUTATED                                                  0
  AMP PEAK 16(12Q15) WILD-TYPE                                                4
                              vv
clus                           PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 16(12Q15) MUTATED                                     0
  AMP PEAK 16(12Q15) WILD-TYPE                                   1
D16V9, multiclass
                                                  clus
vv                                                 AMP PEAK 16(12Q15) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      21
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                          0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                       0
                                                  clus
vv                                                 AMP PEAK 16(12Q15) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       132
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      17
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V10, continuous
D16V11, continuous
                              vv
clus                           R0 R1 R2 RX
  AMP PEAK 16(12Q15) MUTATED   14 11  0  3
  AMP PEAK 16(12Q15) WILD-TYPE 97 42  5  1
D16V12, multiclass
    clus
vv   AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  R0                         14                           97
  R1                         11                           42
  R2                          0                            5
  RX                          3                            1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V13, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 16(12Q15) MUTATED       1                         1    26
  AMP PEAK 16(12Q15) WILD-TYPE    10                         6   135
D16V14, multiclass
                           clus
vv                          AMP PEAK 16(12Q15) MUTATED
  ASIAN                                              1
  BLACK OR AFRICAN AMERICAN                          1
  WHITE                                             26
                           clus
vv                          AMP PEAK 16(12Q15) WILD-TYPE
  ASIAN                                               10
  BLACK OR AFRICAN AMERICAN                            6
  WHITE                                              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V15, binary
                              cls
clus                             0   1
  AMP PEAK 16(12Q15) MUTATED     1  23
  AMP PEAK 16(12Q15) WILD-TYPE   4 113
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED      1   23
  AMP PEAK 16(12Q15) WILD-TYPE    4  113
                        clus
vv                       AMP PEAK 16(12Q15) MUTATED
  HISPANIC OR LATINO                              1
  NOT HISPANIC OR LATINO                         23
                        clus
vv                       AMP PEAK 16(12Q15) WILD-TYPE
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                          113
[1] 2 2
[1] FALSE

Clustering(17) Variable = AMP PEAK 17(15Q26.1) MUTATION ANALYSIS
D17V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 17(15Q26.1) MUTATED    9 13
  AMP PEAK 17(15Q26.1) WILD-TYPE 74 87
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                            22                            161 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                            13                             87 
$`AMP PEAK 17(15Q26.1) MUTATED`
TCGA-3A-A9IL TCGA-IB-7654 TCGA-LB-A7SX TCGA-2J-AABO TCGA-2J-AABP TCGA-2L-AAQL 
       90.12        15.65        12.92        14.47        15.22         9.60 
TCGA-3A-A9I9 TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-A7TX TCGA-FB-AAPU TCGA-FZ-5921 
       20.84        10.13        24.43         3.12        12.53         5.10 
TCGA-HV-A5A5 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-7889 
        9.50         0.13         3.95        36.69         4.04        15.81 
TCGA-IB-AAUU TCGA-RB-A7B8 TCGA-S4-A8RP TCGA-US-A776 
        8.05        15.32        23.08        39.98 

$`AMP PEAK 17(15Q26.1) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-A5SS 
       15.78        13.84        21.73        21.60         1.08        15.12 
TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 
       17.26        14.14        16.37         2.17        23.97         9.63 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        2.63        20.61        19.96        22.22        22.72        42.31 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       31.86        15.91         9.11        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IC 
        3.39        12.95        45.47        43.50         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
       33.57        68.52        63.85        50.70        32.81        15.06 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       36.26        34.09        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
       19.46         7.10        19.27        17.00         5.88        24.07 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS 
       16.37        12.33        11.61        15.95        37.15         7.50 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 
       34.82        23.54        15.55         4.04         5.03         1.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
       24.36         2.01        36.20        20.35        17.79        12.89 
TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP 
       22.06         4.21         7.63        66.94         8.28        32.15 
TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 
       30.25        17.49        31.86        19.50         7.76        10.32 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
       27.62        20.19        17.03        23.21        12.03        19.59 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 
        9.83        12.43        14.93        17.92        17.00         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P 
       21.70        16.14        10.13         6.38         5.26        10.85 
TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 
        0.23        19.82        12.95        49.38         4.77        21.90 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7890 
       15.35        19.82        41.33         3.62        43.79        19.66 
TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO 
       30.02         3.85        15.98        15.19        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX 
       15.85         7.20        20.88        21.90         1.35         8.22 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ 
       15.88         0.26         4.73         7.86        14.17         6.02 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
       11.11         7.40         9.44        13.28         7.56         9.14 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
       12.46        10.29        19.20         8.78        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-US-A774 TCGA-US-A779 
        3.12         9.40         0.30        24.23        22.85        16.80 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 
        0.39        18.67        13.81        12.99        12.03        31.27 
TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       23.67        11.51        12.76        66.28        15.35 

  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                          0.13                           0.23 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                         90.12                          75.12 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                        13.695                         15.550 
[1] "0.1 - 90.1 (13.7)" "0.2 - 75.1 (15.6)"
[1] "hr=" "1.2"
D17V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 17(15Q26.1) MUTATED         1        0        0         3        18
  AMP PEAK 17(15Q26.1) WILD-TYPE       0        5       15        27       103
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 17(15Q26.1) MUTATED           0        0
  AMP PEAK 17(15Q26.1) WILD-TYPE         5        5
D17V3, multiclass
           clus
vv          AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             0                              5
  STAGE IB                             0                             15
  STAGE IIA                            3                             27
  STAGE IIB                           18                            103
  STAGE III                            0                              5
  STAGE IV                             0                              5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  AMP PEAK 17(15Q26.1) MUTATED     1   1  20   0
  AMP PEAK 17(15Q26.1) WILD-TYPE   6  23 127   4
D17V4, multiclass
    clus
vv   AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  T1                            1                              6
  T2                            1                             23
  T3                           20                            127
  T4                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V5, binary
                                cls
clus                               0   1
  AMP PEAK 17(15Q26.1) MUTATED     3  18
  AMP PEAK 17(15Q26.1) WILD-TYPE  47 111
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED      3   18
  AMP PEAK 17(15Q26.1) WILD-TYPE   47  111
   clus
vv  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  0                            3                             47
  1                           18                            111
[1] 2 2
[1] FALSE
D17V6, binary
                                cls
clus                              0  1
  AMP PEAK 17(15Q26.1) MUTATED   10  0
  AMP PEAK 17(15Q26.1) WILD-TYPE 75  5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED     10    0
  AMP PEAK 17(15Q26.1) WILD-TYPE   75    5
   clus
vv  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  0                           10                             75
  1                            0                              5
[1] 2 2
[1] FALSE
D17V7, binary
                                cls
clus                              0  1
  AMP PEAK 17(15Q26.1) MUTATED   11 11
  AMP PEAK 17(15Q26.1) WILD-TYPE 72 90
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED     11   11
  AMP PEAK 17(15Q26.1) WILD-TYPE   72   90
        clus
vv       AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  FEMALE                           11                             72
  MALE                             11                             90
[1] 2 2
[1] FALSE
D17V8, binary
                                cls
clus                               0   1
  AMP PEAK 17(15Q26.1) MUTATED    17   4
  AMP PEAK 17(15Q26.1) WILD-TYPE 108  40
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED     17    4
  AMP PEAK 17(15Q26.1) WILD-TYPE  108   40
     clus
vv    AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  NO                            17                            108
  YES                            4                             40
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 17(15Q26.1) MUTATED                                    18
  AMP PEAK 17(15Q26.1) WILD-TYPE                                 135
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 17(15Q26.1) MUTATED                                       2
  AMP PEAK 17(15Q26.1) WILD-TYPE                                    23
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 17(15Q26.1) MUTATED                                                  1
  AMP PEAK 17(15Q26.1) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 17(15Q26.1) MUTATED                                     1
  AMP PEAK 17(15Q26.1) WILD-TYPE                                   0
D17V9, multiclass
                                                  clus
vv                                                 AMP PEAK 17(15Q26.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        18
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 17(15Q26.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         135
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        23
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V10, continuous
D17V11, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 17(15Q26.1) MUTATED   12  7  0  1
  AMP PEAK 17(15Q26.1) WILD-TYPE 99 46  5  3
D17V12, multiclass
    clus
vv   AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  R0                           12                             99
  R1                            7                             46
  R2                            0                              5
  RX                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 17(15Q26.1) MUTATED       3                         1    17
  AMP PEAK 17(15Q26.1) WILD-TYPE     8                         6   144
D17V14, multiclass
                           clus
vv                          AMP PEAK 17(15Q26.1) MUTATED
  ASIAN                                                3
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               17
                           clus
vv                          AMP PEAK 17(15Q26.1) WILD-TYPE
  ASIAN                                                  8
  BLACK OR AFRICAN AMERICAN                              6
  WHITE                                                144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V15, binary
                                cls
clus                               0   1
  AMP PEAK 17(15Q26.1) MUTATED     1  14
  AMP PEAK 17(15Q26.1) WILD-TYPE   4 122
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED      1   14
  AMP PEAK 17(15Q26.1) WILD-TYPE    4  122
                        clus
vv                       AMP PEAK 17(15Q26.1) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           14
                        clus
vv                       AMP PEAK 17(15Q26.1) WILD-TYPE
  HISPANIC OR LATINO                                  4
  NOT HISPANIC OR LATINO                            122
[1] 2 2
[1] FALSE

Clustering(18) Variable = AMP PEAK 18(17P11.2) MUTATION ANALYSIS
D18V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 18(17P11.2) MUTATED   10  5
  AMP PEAK 18(17P11.2) WILD-TYPE 73 95
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                            15                            168 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                             5                             95 
$`AMP PEAK 18(17P11.2) MUTATED`
TCGA-3A-A9I5 TCGA-3A-A9IL TCGA-IB-7654 TCGA-2J-AABP TCGA-2L-AAQA TCGA-2L-AAQM 
       58.98        90.12        15.65        15.22         4.70        45.47 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IV TCGA-FB-A545 TCGA-FB-AAPQ TCGA-FB-AAPZ 
       68.52        63.85        36.26        24.07        37.15        23.54 
TCGA-HV-A7OL TCGA-HZ-8315 TCGA-LB-A8F3 
        8.28         9.83        12.46 

$`AMP PEAK 18(17P11.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-FZ-5924 
       14.40        10.49        60.95         7.66         8.02        15.78 
TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-A5SS TCGA-LB-A7SX 
       13.84        21.73        21.60         1.08        15.12        12.92 
TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 
       17.26        14.14        16.37         2.17        23.97         9.63 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        2.63        20.61        19.96        22.22        22.72        42.31 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQE 
       31.86        15.91        14.47         9.11        21.44        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
        3.39        12.95         9.60        43.50        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IX 
       24.26        33.57        50.70        32.81        15.06        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       10.13        24.43        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 
       19.46         7.10        19.27         3.12        17.00         5.88 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAPU 
       16.37        12.33        11.61        15.95         7.50        12.53 
TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 
       34.82        15.55         4.04         5.03         1.02        24.36 
TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
        2.01         5.10        36.20        20.35        17.79        12.89 
TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OP 
       22.06         4.21         7.63         9.50        66.94        32.15 
TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       30.25        17.49        31.86        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
       10.32        27.62        20.19        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 
       19.59         3.95        12.43        14.93        17.92        17.00 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O 
        4.96        21.70        16.14        10.13         6.38         5.26 
TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 
       10.85         0.23        19.82        12.95        49.38         4.77 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 
       21.90        15.35        19.82        36.69        41.33         4.04 
TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 
        3.62        43.79        15.81        19.66        30.02         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98        15.19        17.16        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM 
       20.88        21.90         1.35         8.22        15.88         0.26 
TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
        4.73         7.86        14.17         6.02        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 
        9.44         8.05        13.28         7.56         9.14        10.29 
TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
       19.20         8.78        15.45        13.68         3.12        15.32 
TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 
        9.40         0.30        24.23        23.08        22.85        39.98 
TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI 
       16.80         0.39        18.67        13.81        12.99        12.03 
TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       31.27        23.67        11.51        12.76        66.28        15.35 

  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                          4.70                           0.13 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                         90.12                          75.12 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                        24.070                         15.155 
[1] "4.7 - 90.1 (24.1)" "0.1 - 75.1 (15.2)"
[1] "hr=" "3"  
D18V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 18(17P11.2) MUTATED         1        0        2         3         7
  AMP PEAK 18(17P11.2) WILD-TYPE       0        5       13        27       114
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 18(17P11.2) MUTATED           0        0
  AMP PEAK 18(17P11.2) WILD-TYPE         5        5
D18V3, multiclass
           clus
vv          AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             0                              5
  STAGE IB                             2                             13
  STAGE IIA                            3                             27
  STAGE IIB                            7                            114
  STAGE III                            0                              5
  STAGE IV                             0                              5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  AMP PEAK 18(17P11.2) MUTATED     1   4   8   0
  AMP PEAK 18(17P11.2) WILD-TYPE   6  20 139   4
D18V4, multiclass
    clus
vv   AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  T1                            1                              6
  T2                            4                             20
  T3                            8                            139
  T4                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V5, binary
                                cls
clus                               0   1
  AMP PEAK 18(17P11.2) MUTATED     5   7
  AMP PEAK 18(17P11.2) WILD-TYPE  45 122
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED      5    7
  AMP PEAK 18(17P11.2) WILD-TYPE   45  122
   clus
vv  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  0                            5                             45
  1                            7                            122
[1] 2 2
[1] FALSE
D18V6, binary
                                cls
clus                              0  1
  AMP PEAK 18(17P11.2) MUTATED    3  0
  AMP PEAK 18(17P11.2) WILD-TYPE 82  5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED      3    0
  AMP PEAK 18(17P11.2) WILD-TYPE   82    5
   clus
vv  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  0                            3                             82
  1                            0                              5
[1] 2 2
[1] FALSE
D18V7, binary
                                cls
clus                              0  1
  AMP PEAK 18(17P11.2) MUTATED    7  8
  AMP PEAK 18(17P11.2) WILD-TYPE 76 93
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED      7    8
  AMP PEAK 18(17P11.2) WILD-TYPE   76   93
        clus
vv       AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  FEMALE                            7                             76
  MALE                              8                             93
[1] 2 2
[1] FALSE
D18V8, binary
                                cls
clus                               0   1
  AMP PEAK 18(17P11.2) MUTATED    10   4
  AMP PEAK 18(17P11.2) WILD-TYPE 115  40
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED     10    4
  AMP PEAK 18(17P11.2) WILD-TYPE  115   40
     clus
vv    AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  NO                            10                            115
  YES                            4                             40
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 18(17P11.2) MUTATED                                     9
  AMP PEAK 18(17P11.2) WILD-TYPE                                 144
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 18(17P11.2) MUTATED                                       5
  AMP PEAK 18(17P11.2) WILD-TYPE                                    20
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 18(17P11.2) MUTATED                                                  0
  AMP PEAK 18(17P11.2) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 18(17P11.2) MUTATED                                     1
  AMP PEAK 18(17P11.2) WILD-TYPE                                   0
D18V9, multiclass
                                                  clus
vv                                                 AMP PEAK 18(17P11.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         9
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 18(17P11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         144
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        20
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V10, continuous
[1] "Remove cluster labels:"       "AMP PEAK 18(17P11.2) MUTATED"
clus
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                             2                             54 
                    TCGA-3A-A9IJ                     TCGA-H6-A45N 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-HZ-A77Q                     TCGA-HZ-A8P0 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-A5SS                     TCGA-LB-A7SX 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-XD-AAUL                     TCGA-2J-AAB1 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-2J-AABA                     TCGA-2J-AABE 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-2J-AABF                     TCGA-2J-AABI 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-2J-AABO                     TCGA-2J-AABV 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-2L-AAQE                     TCGA-3A-A9I9 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-3A-A9IB                     TCGA-3A-A9IX 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-F2-6880                     TCGA-F2-A8YN 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-FB-A4P5                     TCGA-FB-A5VM 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-FB-A78T                     TCGA-FB-A7DR 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-FB-AAPS                     TCGA-FB-AAPY 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-H6-8124                     TCGA-H8-A6C1 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-HV-AA8V                     TCGA-HZ-A8P1 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-7644                     TCGA-IB-7649 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-7651                     TCGA-IB-7885 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-7886                     TCGA-IB-7887 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-7891                     TCGA-IB-8126 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-8127                     TCGA-IB-A6UF 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-A6UG                     TCGA-IB-A7M4 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-AAUQ                     TCGA-IB-AAUS 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-AAUT                     TCGA-IB-AAUU 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-AAUV                     TCGA-LB-A9Q5 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-OE-A75W                     TCGA-S4-A8RM 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-S4-A8RP                     TCGA-US-A774 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-XN-A8T5                     TCGA-YY-A8LH 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
D18V11, continuous
[1] "Remove cluster labels:"       "AMP PEAK 18(17P11.2) MUTATED"
clus
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                             1                             45 
                    TCGA-3A-A9IJ                     TCGA-HZ-A77Q 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-HZ-A8P0                     TCGA-IB-A5SS 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-LB-A7SX                     TCGA-XD-AAUL 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-2J-AAB1                     TCGA-2J-AABE 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-2J-AABF                     TCGA-2J-AABI 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-2J-AABO                     TCGA-3A-A9IB 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-3A-A9IR                     TCGA-3A-A9IX 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-FB-A4P5                     TCGA-FB-A5VM 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-FB-A78T                     TCGA-FB-A7DR 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-FB-AAPS                     TCGA-FB-AAPY 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-H6-8124                     TCGA-H8-A6C1 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-HZ-A8P1                     TCGA-IB-7644 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-7649                     TCGA-IB-7651 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-7885                     TCGA-IB-7886 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-7891                     TCGA-IB-8126 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-8127                     TCGA-IB-A6UF 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-A6UG                     TCGA-IB-A7M4 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-AAUQ                     TCGA-IB-AAUS 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-AAUT                     TCGA-IB-AAUV 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-LB-A9Q5                     TCGA-OE-A75W 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-S4-A8RM                     TCGA-US-A774 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-XD-AAUI                     TCGA-XN-A8T5 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-YY-A8LH 
"AMP PEAK 18(17P11.2) WILD-TYPE" 
                                vv
clus                              R0  R1  R2  RX
  AMP PEAK 18(17P11.2) MUTATED     9   4   1   0
  AMP PEAK 18(17P11.2) WILD-TYPE 102  49   4   4
D18V12, multiclass
    clus
vv   AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  R0                            9                            102
  R1                            4                             49
  R2                            1                              4
  RX                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 18(17P11.2) MUTATED       1                         1    13
  AMP PEAK 18(17P11.2) WILD-TYPE    10                         6   148
D18V14, multiclass
                           clus
vv                          AMP PEAK 18(17P11.2) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               13
                           clus
vv                          AMP PEAK 18(17P11.2) WILD-TYPE
  ASIAN                                                 10
  BLACK OR AFRICAN AMERICAN                              6
  WHITE                                                148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V15, binary
                                cls
clus                               0   1
  AMP PEAK 18(17P11.2) MUTATED     0  11
  AMP PEAK 18(17P11.2) WILD-TYPE   5 125
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED      0   11
  AMP PEAK 18(17P11.2) WILD-TYPE    5  125
                        clus
vv                       AMP PEAK 18(17P11.2) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           11
                        clus
vv                       AMP PEAK 18(17P11.2) WILD-TYPE
  HISPANIC OR LATINO                                  5
  NOT HISPANIC OR LATINO                            125
[1] 2 2
[1] FALSE

Clustering(19) Variable = AMP PEAK 19(17Q12) MUTATION ANALYSIS
D19V1, survival
                              sevent
clus2                           0  1
  AMP PEAK 19(17Q12) MUTATED   18 13
  AMP PEAK 19(17Q12) WILD-TYPE 65 87
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          31                          152 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          13                           87 
$`AMP PEAK 19(17Q12) MUTATED`
TCGA-3A-A9I5 TCGA-3A-A9IL TCGA-LB-A7SX TCGA-S4-A8RO TCGA-2J-AAB1 TCGA-2J-AABI 
       58.98        90.12        12.92        17.26         2.17        31.86 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2L-AAQA TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM 
       15.91        14.47         4.70        12.95         9.60        45.47 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IV TCGA-3A-A9J0 TCGA-FB-A545 TCGA-FB-AAQ0 
       68.52        63.85        36.26        24.43        24.07        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-HV-AA8X TCGA-HZ-7922 TCGA-HZ-A4BH TCGA-HZ-A9TJ 
        4.04         1.02        17.49         0.13         6.38        19.82 
TCGA-IB-7646 TCGA-IB-7893 TCGA-IB-A7M4 TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-XD-AAUI 
        4.77         3.85        15.88        12.46        19.20        12.03 
TCGA-YH-A8SY 
       12.76 

$`AMP PEAK 19(17Q12) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-FZ-5924 
       14.40        10.49        60.95         7.66         8.02        15.78 
TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS 
       13.84        21.73        21.60         1.08        15.65        15.12 
TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 
       14.14        16.37        23.97         9.63         2.63        20.61 
TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABP TCGA-2J-AABU 
       19.96        22.22        22.72        42.31        15.22         9.11 
TCGA-2J-AABV TCGA-2L-AAQE TCGA-2L-AAQI TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
       21.44        22.49         3.39        43.50        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IX 
       24.26        33.57        50.70        32.81        15.06        34.09 
TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 
       10.13        75.12        71.74        10.98         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM 
        7.10        19.27         3.12        17.00         5.88        16.37 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       12.33        11.61        15.95        37.15         7.50        12.53 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ2 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 
       34.82        23.54         5.03        24.36         2.01         5.10 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 
       36.20        20.35        17.79        12.89        22.06         4.21 
TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V 
        7.63         9.50        66.94         8.28        32.15        30.25 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
       31.86        19.50         7.76        10.32        27.62        20.19 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 
       17.03        23.21        12.03        19.59         3.95         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G 
       12.43        14.93        17.92        17.00         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 
       16.14        10.13         5.26        10.85         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
       49.38        21.90        15.35        19.82        36.69        41.33 
TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 
        4.04         3.62        43.79        15.81        19.66        30.02 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98        15.19        17.16        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUM TCGA-IB-AAUN 
       20.88        21.90         1.35         8.22         0.26         4.73 
TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        7.86        14.17         6.02        11.11         7.40         9.44 
TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-OE-A75W 
        8.05        13.28         7.56         9.14        10.29         8.78 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS 
       15.45        13.68         3.12        15.32         9.40         0.30 
TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G 
       24.23        23.08        22.85        39.98        16.80         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D 
       18.67        13.81        12.99        31.27        23.67        11.51 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28        15.35 

  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                        0.13                         0.23 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                       90.12                        75.12 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                      15.550                       15.335 
[1] "0.1 - 90.1 (15.6)" "0.2 - 75.1 (15.3)"
[1] "hr=" "1.5"
D19V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 19(17Q12) MUTATED         1        0        2         5        18
  AMP PEAK 19(17Q12) WILD-TYPE       0        5       13        25       103
                              vv
clus                           STAGE III STAGE IV
  AMP PEAK 19(17Q12) MUTATED           2        1
  AMP PEAK 19(17Q12) WILD-TYPE         3        4
D19V3, multiclass
           clus
vv          AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  STAGE I                            1                            0
  STAGE IA                           0                            5
  STAGE IB                           2                           13
  STAGE IIA                          5                           25
  STAGE IIB                         18                          103
  STAGE III                          2                            3
  STAGE IV                           1                            4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                              vv
clus                            T1  T2  T3  T4
  AMP PEAK 19(17Q12) MUTATED     1   3  24   1
  AMP PEAK 19(17Q12) WILD-TYPE   6  21 123   3
D19V4, multiclass
    clus
vv   AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  T1                          1                            6
  T2                          3                           21
  T3                         24                          123
  T4                          1                            3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V5, binary
                              cls
clus                             0   1
  AMP PEAK 19(17Q12) MUTATED     9  19
  AMP PEAK 19(17Q12) WILD-TYPE  41 110
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED      9   19
  AMP PEAK 19(17Q12) WILD-TYPE   41  110
   clus
vv  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  0                          9                           41
  1                         19                          110
[1] 2 2
[1] FALSE
D19V6, binary
                              cls
clus                            0  1
  AMP PEAK 19(17Q12) MUTATED    8  1
  AMP PEAK 19(17Q12) WILD-TYPE 77  4
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED      8    1
  AMP PEAK 19(17Q12) WILD-TYPE   77    4
   clus
vv  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  0                          8                           77
  1                          1                            4
[1] 2 2
[1] FALSE
D19V7, binary
                              cls
clus                            0  1
  AMP PEAK 19(17Q12) MUTATED   15 16
  AMP PEAK 19(17Q12) WILD-TYPE 68 85
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED     15   16
  AMP PEAK 19(17Q12) WILD-TYPE   68   85
        clus
vv       AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  FEMALE                         15                           68
  MALE                           16                           85
[1] 2 2
[1] FALSE
D19V8, binary
                              cls
clus                             0   1
  AMP PEAK 19(17Q12) MUTATED    19  10
  AMP PEAK 19(17Q12) WILD-TYPE 106  34
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED     19   10
  AMP PEAK 19(17Q12) WILD-TYPE  106   34
     clus
vv    AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  NO                          19                          106
  YES                         10                           34
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 19(17Q12) MUTATED                                    22
  AMP PEAK 19(17Q12) WILD-TYPE                                 131
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 19(17Q12) MUTATED                                       8
  AMP PEAK 19(17Q12) WILD-TYPE                                    17
                              vv
clus                           PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 19(17Q12) MUTATED                                                  0
  AMP PEAK 19(17Q12) WILD-TYPE                                                4
                              vv
clus                           PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 19(17Q12) MUTATED                                     0
  AMP PEAK 19(17Q12) WILD-TYPE                                   1
D19V9, multiclass
                                                  clus
vv                                                 AMP PEAK 19(17Q12) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      22
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                          0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                       0
                                                  clus
vv                                                 AMP PEAK 19(17Q12) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       131
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      17
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V10, continuous
D19V11, continuous
                              vv
clus                           R0 R1 R2 RX
  AMP PEAK 19(17Q12) MUTATED   15 12  1  1
  AMP PEAK 19(17Q12) WILD-TYPE 96 41  4  3
D19V12, multiclass
    clus
vv   AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  R0                         15                           96
  R1                         12                           41
  R2                          1                            4
  RX                          1                            3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V13, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 19(17Q12) MUTATED       1                         2    27
  AMP PEAK 19(17Q12) WILD-TYPE    10                         5   134
D19V14, multiclass
                           clus
vv                          AMP PEAK 19(17Q12) MUTATED
  ASIAN                                              1
  BLACK OR AFRICAN AMERICAN                          2
  WHITE                                             27
                           clus
vv                          AMP PEAK 19(17Q12) WILD-TYPE
  ASIAN                                               10
  BLACK OR AFRICAN AMERICAN                            5
  WHITE                                              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V15, binary
                              cls
clus                             0   1
  AMP PEAK 19(17Q12) MUTATED     0  20
  AMP PEAK 19(17Q12) WILD-TYPE   5 116
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED      0   20
  AMP PEAK 19(17Q12) WILD-TYPE    5  116
                        clus
vv                       AMP PEAK 19(17Q12) MUTATED
  HISPANIC OR LATINO                              0
  NOT HISPANIC OR LATINO                         20
                        clus
vv                       AMP PEAK 19(17Q12) WILD-TYPE
  HISPANIC OR LATINO                                5
  NOT HISPANIC OR LATINO                          116
[1] 2 2
[1] FALSE

Clustering(20) Variable = AMP PEAK 20(18Q11.2) MUTATION ANALYSIS
D20V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 20(18Q11.2) MUTATED   26 29
  AMP PEAK 20(18Q11.2) WILD-TYPE 57 71
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            55                            128 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            29                             71 
$`AMP PEAK 20(18Q11.2) MUTATED`
TCGA-2J-AABT TCGA-F2-A44G TCGA-HZ-A4BK TCGA-IB-7654 TCGA-2J-AAB4 TCGA-2J-AAB6 
       10.49         7.66        21.60        15.65        23.97         9.63 
TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2L-AAQE 
        2.63        42.31        15.91        14.47        15.22        22.49 
TCGA-2L-AAQM TCGA-3A-A9IN TCGA-3A-A9IV TCGA-F2-6879 TCGA-FB-A545 TCGA-FB-A78T 
       45.47        68.52        36.26        10.98        24.07        12.33 
TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FZ-5921 
       15.95        37.15        23.54        15.55         4.04         5.10 
TCGA-FZ-5923 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A5A6 TCGA-HV-A7OL 
       20.35        12.89        22.06         7.63        66.94         8.28 
TCGA-HV-A7OP TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7925 TCGA-HZ-8636 TCGA-HZ-A77O 
       32.15        17.49        19.50        20.19        17.92         5.26 
TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7886 TCGA-IB-7893 TCGA-IB-8126 
       19.82        12.95        15.35         4.04         3.85        15.19 
TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 
       17.16        12.00        15.85         1.35         8.22        15.88 
TCGA-IB-AAUU TCGA-OE-A75W TCGA-PZ-A5RE TCGA-S4-A8RM TCGA-US-A77G TCGA-YH-A8SY 
        8.05         8.78        15.45        24.23         0.39        12.76 
TCGA-YY-A8LH 
       66.28 

$`AMP PEAK 20(18Q11.2) WILD-TYPE`
TCGA-2J-AABR TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-FB-AAQ6 TCGA-FZ-5924 
       14.40        58.98        60.95        90.12         8.02        15.78 
TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A77Q TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO 
       13.84        21.73         1.08        15.12        12.92        17.26 
TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE 
       14.14        16.37         2.17        20.61        19.96        22.22 
TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI 
       22.72        31.86         9.11        21.44         4.70         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
       12.95         9.60        43.50        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IX 
       33.57        63.85        50.70        32.81        15.06        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 
       10.13        24.43        75.12        71.74         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM 
        7.10        19.27         3.12        17.00         5.88        16.37 
TCGA-FB-A7DR TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ2 TCGA-FB-AAQ3 
       11.61         7.50        12.53        34.82         5.03         1.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5926 TCGA-HV-A5A3 TCGA-HV-A5A5 
       24.36         2.01        36.20        17.79         4.21         9.50 
TCGA-HV-AA8V TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
       30.25        31.86         7.76         0.13        10.32        27.62 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 
       17.03        23.21        12.03        19.59         3.95         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       12.43        14.93        17.00         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7645 TCGA-IB-7646 
       10.13         6.38        10.85         0.23        49.38         4.77 
TCGA-IB-7647 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 
       21.90        19.82        36.69        41.33         3.62        43.79 
TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-A5SQ TCGA-IB-A5ST 
       15.81        19.66        30.02        15.98         7.20        20.88 
TCGA-IB-A6UF TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ 
       21.90         0.26         4.73         7.86        14.17         6.02 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
       11.11         7.40         9.44        13.28         7.56         9.14 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
       12.46        10.29        19.20        13.68         3.12        15.32 
TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 
        9.40         0.30        23.08        22.85        39.98        16.80 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 
       18.67        13.81        12.99        12.03        31.27        23.67 
TCGA-YB-A89D TCGA-Z5-AAPL 
       11.51        15.35 

  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                          0.39                           0.13 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                         68.52                          90.12 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                         15.55                          15.09 
[1] "0.4 - 68.5 (15.6)" "0.1 - 90.1 (15.1)"
[1] "hr=" "1"  
D20V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 20(18Q11.2) MUTATED         0        0        2         9        39
  AMP PEAK 20(18Q11.2) WILD-TYPE       1        5       13        21        82
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 20(18Q11.2) MUTATED           2        4
  AMP PEAK 20(18Q11.2) WILD-TYPE         3        1
D20V3, multiclass
           clus
vv          AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              5
  STAGE IB                             2                             13
  STAGE IIA                            9                             21
  STAGE IIB                           39                             82
  STAGE III                            2                              3
  STAGE IV                             4                              1
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  AMP PEAK 20(18Q11.2) MUTATED     0   7  47   2
  AMP PEAK 20(18Q11.2) WILD-TYPE   7  17 100   2
D20V4, multiclass
    clus
vv   AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  T1                            0                              7
  T2                            7                             17
  T3                           47                            100
  T4                            2                              2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V5, binary
                                cls
clus                              0  1
  AMP PEAK 20(18Q11.2) MUTATED   12 43
  AMP PEAK 20(18Q11.2) WILD-TYPE 38 86
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED     12   43
  AMP PEAK 20(18Q11.2) WILD-TYPE   38   86
   clus
vv  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  0                           12                             38
  1                           43                             86
[1] 2 2
[1] FALSE
D20V6, binary
                                cls
clus                              0  1
  AMP PEAK 20(18Q11.2) MUTATED   29  4
  AMP PEAK 20(18Q11.2) WILD-TYPE 56  1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED     29    4
  AMP PEAK 20(18Q11.2) WILD-TYPE   56    1
   clus
vv  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  0                           29                             56
  1                            4                              1
[1] 2 2
[1] FALSE
D20V7, binary
                                cls
clus                              0  1
  AMP PEAK 20(18Q11.2) MUTATED   21 35
  AMP PEAK 20(18Q11.2) WILD-TYPE 62 66
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED     21   35
  AMP PEAK 20(18Q11.2) WILD-TYPE   62   66
        clus
vv       AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  FEMALE                           21                             62
  MALE                             35                             66
[1] 2 2
[1] FALSE
D20V8, binary
                                cls
clus                              0  1
  AMP PEAK 20(18Q11.2) MUTATED   37 14
  AMP PEAK 20(18Q11.2) WILD-TYPE 88 30
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED     37   14
  AMP PEAK 20(18Q11.2) WILD-TYPE   88   30
     clus
vv    AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  NO                            37                             88
  YES                           14                             30
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 20(18Q11.2) MUTATED                                    44
  AMP PEAK 20(18Q11.2) WILD-TYPE                                 109
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 20(18Q11.2) MUTATED                                      10
  AMP PEAK 20(18Q11.2) WILD-TYPE                                    15
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 20(18Q11.2) MUTATED                                                  0
  AMP PEAK 20(18Q11.2) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 20(18Q11.2) MUTATED                                     1
  AMP PEAK 20(18Q11.2) WILD-TYPE                                   0
D20V9, multiclass
                                                  clus
vv                                                 AMP PEAK 20(18Q11.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        44
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      10
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 20(18Q11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         109
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        15
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V10, continuous
D20V11, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 20(18Q11.2) MUTATED   33 16  2  0
  AMP PEAK 20(18Q11.2) WILD-TYPE 78 37  3  4
D20V12, multiclass
    clus
vv   AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  R0                           33                             78
  R1                           16                             37
  R2                            2                              3
  RX                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 20(18Q11.2) MUTATED       5                         0    49
  AMP PEAK 20(18Q11.2) WILD-TYPE     6                         7   112
D20V14, multiclass
                           clus
vv                          AMP PEAK 20(18Q11.2) MUTATED
  ASIAN                                                5
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               49
                           clus
vv                          AMP PEAK 20(18Q11.2) WILD-TYPE
  ASIAN                                                  6
  BLACK OR AFRICAN AMERICAN                              7
  WHITE                                                112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V15, binary
                                cls
clus                               0   1
  AMP PEAK 20(18Q11.2) MUTATED     0  36
  AMP PEAK 20(18Q11.2) WILD-TYPE   5 100
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED      0   36
  AMP PEAK 20(18Q11.2) WILD-TYPE    5  100
                        clus
vv                       AMP PEAK 20(18Q11.2) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           36
                        clus
vv                       AMP PEAK 20(18Q11.2) WILD-TYPE
  HISPANIC OR LATINO                                  5
  NOT HISPANIC OR LATINO                            100
[1] 2 2
[1] FALSE

Clustering(21) Variable = AMP PEAK 21(19Q13.2) MUTATION ANALYSIS
D21V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 21(19Q13.2) MUTATED   24 23
  AMP PEAK 21(19Q13.2) WILD-TYPE 59 77
  AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE 
                            47                            136 
  AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE 
                            23                             77 
$`AMP PEAK 21(19Q13.2) MUTATED`
TCGA-IB-A5SS TCGA-LB-A7SX TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AABF 
       15.12        12.92        23.97         9.63         2.63        22.72 
TCGA-2J-AABH TCGA-2J-AABO TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9IC TCGA-3A-A9IN 
       42.31        14.47         9.60        45.47        24.26        68.52 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-F2-A7TX TCGA-FB-A545 TCGA-FB-A7DR 
       32.81        15.06        36.26         3.12        24.07        11.61 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FZ-5920 TCGA-H6-8124 TCGA-HV-A5A3 TCGA-HV-A5A5 
       34.82        23.54         2.01        12.89         4.21         9.50 
TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-8001 TCGA-HZ-A49I 
       66.94         8.28        31.86         0.13        23.21        10.13 
TCGA-HZ-A4BH TCGA-HZ-A9TJ TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-8127 
        6.38        19.82         4.04        30.02         3.85        17.16 
TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUU TCGA-L1-A7W4 
       15.85         1.35        14.17         6.02         8.05         9.14 
TCGA-PZ-A5RE TCGA-US-A776 TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-YB-A89D 
       15.45        39.98        12.03        31.27        11.51 

$`AMP PEAK 21(19Q13.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB9 
       15.65        17.26        14.14        16.37         2.17        20.61 
TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABU 
       19.96        22.22        31.86        15.91        15.22         9.11 
TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I7 
       21.44         4.70        22.49         3.39        12.95        43.50 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IX 
       20.84         7.36        33.57        63.85        50.70        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       10.13        24.43        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM 
       19.46         7.10        19.27        17.00         5.88        16.37 
TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAQ0 
       12.33        15.95        37.15         7.50        12.53        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 
        4.04         5.03         1.02        24.36         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A7OP TCGA-HV-AA8V 
       20.35        17.79        22.06         7.63        32.15        30.25 
TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
       17.49        19.50         7.76        10.32        27.62        20.19 
TCGA-HZ-7926 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 
       17.03        12.03        19.59         3.95         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       14.93        17.92        17.00         4.96        21.70        16.14 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 
        5.26        10.85         0.23        12.95        49.38         4.77 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7887 
       21.90        15.35        19.82        36.69        41.33         3.62 
TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO 
       43.79        15.81        19.66        15.98        15.19        12.00 
TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM 
        7.20        20.88        21.90         8.22        15.88         0.26 
TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV 
        4.73         7.86        11.11         7.40         9.44        13.28 
TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-Q3-A5QY 
        7.56        12.46        10.29        19.20         8.78        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP 
        3.12        15.32         9.40         0.30        24.23        23.08 
TCGA-US-A774 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       22.85        16.80         0.39        18.67        13.81        12.99 
TCGA-XN-A8T5 TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       23.67        12.76        66.28        15.35 

  AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE 
                          0.13                           0.23 
  AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE 
                         68.52                          90.12 
  AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE 
                         14.47                          15.60 
[1] "0.1 - 68.5 (14.5)" "0.2 - 90.1 (15.6)"
[1] "hr=" "1.2"
D21V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 21(19Q13.2) MUTATED         0        0        4         8        33
  AMP PEAK 21(19Q13.2) WILD-TYPE       1        5       11        22        88
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 21(19Q13.2) MUTATED           1        1
  AMP PEAK 21(19Q13.2) WILD-TYPE         4        4
D21V3, multiclass
           clus
vv          AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              5
  STAGE IB                             4                             11
  STAGE IIA                            8                             22
  STAGE IIB                           33                             88
  STAGE III                            1                              4
  STAGE IV                             1                              4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  AMP PEAK 21(19Q13.2) MUTATED     0   7  39   1
  AMP PEAK 21(19Q13.2) WILD-TYPE   7  17 108   3
D21V4, multiclass
    clus
vv   AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE
  T1                            0                              7
  T2                            7                             17
  T3                           39                            108
  T4                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V5, binary
                                cls
clus                              0  1
  AMP PEAK 21(19Q13.2) MUTATED   11 33
  AMP PEAK 21(19Q13.2) WILD-TYPE 39 96
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19Q13.2) MUTATED     11   33
  AMP PEAK 21(19Q13.2) WILD-TYPE   39   96
   clus
vv  AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE
  0                           11                             39
  1                           33                             96
[1] 2 2
[1] FALSE
D21V6, binary
                                cls
clus                              0  1
  AMP PEAK 21(19Q13.2) MUTATED   26  1
  AMP PEAK 21(19Q13.2) WILD-TYPE 59  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19Q13.2) MUTATED     26    1
  AMP PEAK 21(19Q13.2) WILD-TYPE   59    4
   clus
vv  AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE
  0                           26                             59
  1                            1                              4
[1] 2 2
[1] FALSE
D21V7, binary
                                cls
clus                              0  1
  AMP PEAK 21(19Q13.2) MUTATED   14 33
  AMP PEAK 21(19Q13.2) WILD-TYPE 69 68
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19Q13.2) MUTATED     14   33
  AMP PEAK 21(19Q13.2) WILD-TYPE   69   68
        clus
vv       AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE
  FEMALE                           14                             69
  MALE                             33                             68
[1] 2 2
[1] FALSE
D21V8, binary
                                cls
clus                              0  1
  AMP PEAK 21(19Q13.2) MUTATED   32 12
  AMP PEAK 21(19Q13.2) WILD-TYPE 93 32
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19Q13.2) MUTATED     32   12
  AMP PEAK 21(19Q13.2) WILD-TYPE   93   32
     clus
vv    AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE
  NO                            32                             93
  YES                           12                             32
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 21(19Q13.2) MUTATED                                    38
  AMP PEAK 21(19Q13.2) WILD-TYPE                                 115
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 21(19Q13.2) MUTATED                                       7
  AMP PEAK 21(19Q13.2) WILD-TYPE                                    18
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 21(19Q13.2) MUTATED                                                  2
  AMP PEAK 21(19Q13.2) WILD-TYPE                                                2
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 21(19Q13.2) MUTATED                                     0
  AMP PEAK 21(19Q13.2) WILD-TYPE                                   1
D21V9, multiclass
                                                  clus
vv                                                 AMP PEAK 21(19Q13.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        38
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       7
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK 21(19Q13.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         115
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        18
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V10, continuous
D21V11, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 21(19Q13.2) MUTATED   24 16  2  1
  AMP PEAK 21(19Q13.2) WILD-TYPE 87 37  3  3
D21V12, multiclass
    clus
vv   AMP PEAK 21(19Q13.2) MUTATED AMP PEAK 21(19Q13.2) WILD-TYPE
  R0                           24                             87
  R1                           16                             37
  R2                            2                              3
  RX                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 21(19Q13.2) MUTATED       5                         2    40
  AMP PEAK 21(19Q13.2) WILD-TYPE     6                         5   121
D21V14, multiclass
                           clus
vv                          AMP PEAK 21(19Q13.2) MUTATED
  ASIAN                                                5
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               40
                           clus
vv                          AMP PEAK 21(19Q13.2) WILD-TYPE
  ASIAN                                                  6
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V15, binary
                                cls
clus                               0   1
  AMP PEAK 21(19Q13.2) MUTATED     1  31
  AMP PEAK 21(19Q13.2) WILD-TYPE   4 105
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19Q13.2) MUTATED      1   31
  AMP PEAK 21(19Q13.2) WILD-TYPE    4  105
                        clus
vv                       AMP PEAK 21(19Q13.2) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           31
                        clus
vv                       AMP PEAK 21(19Q13.2) WILD-TYPE
  HISPANIC OR LATINO                                  4
  NOT HISPANIC OR LATINO                            105
[1] 2 2
[1] FALSE

Clustering(22) Variable = AMP PEAK 22(20P11.23) MUTATION ANALYSIS
D22V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 22(20P11.23) MUTATED   19 19
  AMP PEAK 22(20P11.23) WILD-TYPE 64 81
  AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE 
                             38                             145 
  AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE 
                             19                              81 
$`AMP PEAK 22(20P11.23) MUTATED`
TCGA-FB-AAQ6 TCGA-HZ-7289 TCGA-HZ-A77Q TCGA-S4-A8RO TCGA-US-A77E TCGA-2J-AAB6 
        8.02        21.73         1.08        17.26        14.14         9.63 
TCGA-2J-AABF TCGA-2J-AABP TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9IN 
       22.72        15.22        12.95         9.60        45.47        68.52 
TCGA-3A-A9IO TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9J0 TCGA-FB-A545 TCGA-FB-A5VM 
       63.85        32.81        36.26        24.43        24.07        16.37 
TCGA-FB-AAPP TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FZ-5921 TCGA-HZ-7922 
       15.95        23.54        15.55         4.04         5.10         0.13 
TCGA-HZ-8005 TCGA-HZ-A49G TCGA-HZ-A77O TCGA-IB-7646 TCGA-IB-7886 TCGA-IB-7890 
        3.95        21.70         5.26         4.77         4.04        19.66 
TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A7LX TCGA-IB-AAUU TCGA-LB-A8F3 TCGA-US-A776 
       17.16        15.85         8.22         8.05        12.46        39.98 
TCGA-YB-A89D TCGA-YY-A8LH 
       11.51        66.28 

$`AMP PEAK 22(20P11.23) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-A4BK TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX 
       15.78        13.84        21.60        15.65        15.12        12.92 
TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA 
       16.37         2.17        23.97         2.63        20.61        19.96 
TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABU 
       22.22        42.31        31.86        15.91        14.47         9.11 
TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-3A-A9I7 TCGA-3A-A9I9 
       21.44         4.70        22.49         3.39        43.50        20.84 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IX 
        7.36        24.26        33.57        50.70        15.06        34.09 
TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 
       10.13        75.12        71.74        10.98         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A78T 
        7.10        19.27         3.12        17.00         5.88        12.33 
TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ2 
       11.61        37.15         7.50        12.53        34.82         5.03 
TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 
        1.02        24.36         2.01        36.20        20.35        17.79 
TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 
       12.89        22.06         4.21         7.63         9.50        66.94 
TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 
        8.28        32.15        30.25        17.49        31.86        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76        10.32        27.62        20.19        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
       12.03        19.59         9.83        12.43        14.93        17.92 
TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77P 
       17.00         4.96        16.14        10.13         6.38        10.85 
TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 
        0.23        19.82        12.95        49.38        21.90        15.35 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       19.82        36.69        41.33         3.62        43.79        15.81 
TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ 
       30.02         3.85        15.98        15.19        12.00         7.20 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN 
       20.88        21.90         1.35        15.88         0.26         4.73 
TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        7.86        14.17         6.02        11.11         7.40         9.44 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
       13.28         7.56         9.14        10.29        19.20         8.78 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS 
       15.45        13.68         3.12        15.32         9.40         0.30 
TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J 
       24.23        23.08        22.85        16.80         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YH-A8SY 
       13.81        12.99        12.03        31.27        23.67        12.76 
TCGA-Z5-AAPL 
       15.35 

  AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE 
                           0.13                            0.23 
  AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE 
                          68.52                           90.12 
  AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE 
                          15.70                           15.32 
[1] "0.1 - 68.5 (15.7)" "0.2 - 90.1 (15.3)"
[1] "hr=" "1.2"
D22V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 22(20P11.23) MUTATED         0        1        5         5        25
  AMP PEAK 22(20P11.23) WILD-TYPE       1        4       10        25        96
                                 vv
clus                              STAGE III STAGE IV
  AMP PEAK 22(20P11.23) MUTATED           1        0
  AMP PEAK 22(20P11.23) WILD-TYPE         4        5
D22V3, multiclass
           clus
vv          AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE
  STAGE I                               0                               1
  STAGE IA                              1                               4
  STAGE IB                              5                              10
  STAGE IIA                             5                              25
  STAGE IIB                            25                              96
  STAGE III                             1                               4
  STAGE IV                              0                               5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                               T1  T2  T3  T4
  AMP PEAK 22(20P11.23) MUTATED     1   8  27   1
  AMP PEAK 22(20P11.23) WILD-TYPE   6  16 120   3
D22V4, multiclass
    clus
vv   AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE
  T1                             1                               6
  T2                             8                              16
  T3                            27                             120
  T4                             1                               3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V5, binary
                                 cls
clus                                0   1
  AMP PEAK 22(20P11.23) MUTATED    11  25
  AMP PEAK 22(20P11.23) WILD-TYPE  39 104
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 22(20P11.23) MUTATED     11   25
  AMP PEAK 22(20P11.23) WILD-TYPE   39  104
   clus
vv  AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE
  0                            11                              39
  1                            25                             104
[1] 2 2
[1] FALSE
D22V6, binary
                                 cls
clus                               0  1
  AMP PEAK 22(20P11.23) MUTATED   12  0
  AMP PEAK 22(20P11.23) WILD-TYPE 73  5
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 22(20P11.23) MUTATED     12    0
  AMP PEAK 22(20P11.23) WILD-TYPE   73    5
   clus
vv  AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE
  0                            12                              73
  1                             0                               5
[1] 2 2
[1] FALSE
D22V7, binary
                                 cls
clus                               0  1
  AMP PEAK 22(20P11.23) MUTATED   13 25
  AMP PEAK 22(20P11.23) WILD-TYPE 70 76
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 22(20P11.23) MUTATED     13   25
  AMP PEAK 22(20P11.23) WILD-TYPE   70   76
        clus
vv       AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE
  FEMALE                            13                              70
  MALE                              25                              76
[1] 2 2
[1] FALSE
D22V8, binary
                                 cls
clus                               0  1
  AMP PEAK 22(20P11.23) MUTATED   26 10
  AMP PEAK 22(20P11.23) WILD-TYPE 99 34
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 22(20P11.23) MUTATED     26   10
  AMP PEAK 22(20P11.23) WILD-TYPE   99   34
     clus
vv    AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE
  NO                             26                              99
  YES                            10                              34
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 22(20P11.23) MUTATED                                    28
  AMP PEAK 22(20P11.23) WILD-TYPE                                 125
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 22(20P11.23) MUTATED                                       8
  AMP PEAK 22(20P11.23) WILD-TYPE                                    17
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 22(20P11.23) MUTATED                                                  1
  AMP PEAK 22(20P11.23) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 22(20P11.23) MUTATED                                     1
  AMP PEAK 22(20P11.23) WILD-TYPE                                   0
D22V9, multiclass
                                                  clus
vv                                                 AMP PEAK 22(20P11.23) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         28
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
                                                  clus
vv                                                 AMP PEAK 22(20P11.23) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          125
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         17
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                               3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                            0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V10, continuous
D22V11, continuous
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 22(20P11.23) MUTATED   21 13  0  2
  AMP PEAK 22(20P11.23) WILD-TYPE 90 40  5  2
D22V12, multiclass
    clus
vv   AMP PEAK 22(20P11.23) MUTATED AMP PEAK 22(20P11.23) WILD-TYPE
  R0                            21                              90
  R1                            13                              40
  R2                             0                               5
  RX                             2                               2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V13, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 22(20P11.23) MUTATED       0                         1    35
  AMP PEAK 22(20P11.23) WILD-TYPE    11                         6   126
D22V14, multiclass
                           clus
vv                          AMP PEAK 22(20P11.23) MUTATED
  ASIAN                                                 0
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                35
                           clus
vv                          AMP PEAK 22(20P11.23) WILD-TYPE
  ASIAN                                                  11
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V15, binary
                                 cls
clus                                0   1
  AMP PEAK 22(20P11.23) MUTATED     0  29
  AMP PEAK 22(20P11.23) WILD-TYPE   5 107
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 22(20P11.23) MUTATED      0   29
  AMP PEAK 22(20P11.23) WILD-TYPE    5  107
                        clus
vv                       AMP PEAK 22(20P11.23) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            29
                        clus
vv                       AMP PEAK 22(20P11.23) WILD-TYPE
  HISPANIC OR LATINO                                   5
  NOT HISPANIC OR LATINO                             107
[1] 2 2
[1] FALSE

Clustering(23) Variable = AMP PEAK 23(XQ28) MUTATION ANALYSIS
D23V1, survival
                             sevent
clus2                          0  1
  AMP PEAK 23(XQ28) MUTATED   11  9
  AMP PEAK 23(XQ28) WILD-TYPE 72 91
  AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE 
                         20                         163 
  AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE 
                          9                          91 
$`AMP PEAK 23(XQ28) MUTATED`
TCGA-S4-A8RO TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2L-AAQM TCGA-3A-A9I9 TCGA-3A-A9IN 
       17.26        23.97         9.63        45.47        20.84        68.52 
TCGA-3A-A9IO TCGA-3A-A9IV TCGA-F2-6879 TCGA-FB-A78T TCGA-FB-AAPU TCGA-FB-AAPZ 
       63.85        36.26        10.98        12.33        12.53        23.54 
TCGA-FB-AAQ0 TCGA-HZ-7918 TCGA-HZ-8001 TCGA-HZ-8637 TCGA-HZ-A9TJ TCGA-IB-7652 
       15.55        31.86        23.21        17.00        19.82        36.69 
TCGA-IB-A6UG TCGA-IB-A7LX 
        1.35         8.22 

$`AMP PEAK 23(XQ28) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 
       15.65        15.12        12.92        14.14        16.37         2.17 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        2.63        20.61        19.96        22.22        22.72        42.31 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV 
       31.86        15.91        14.47        15.22         9.11        21.44 
TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I7 
        4.70        22.49         3.39        12.95         9.60        43.50 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
        7.36        24.26        33.57        50.70        32.81        15.06 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 
       34.09        10.13        24.43        75.12        71.74         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 
       19.46         7.10        19.27         3.12        17.00         5.88 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS 
       24.07        16.37        11.61        15.95        37.15         7.50 
TCGA-FB-AAPY TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 
       34.82         4.04         5.03         1.02        24.36         2.01 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 
        5.10        36.20        20.35        17.79        12.89        22.06 
TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP 
        4.21         7.63         9.50        66.94         8.28        32.15 
TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       30.25        17.49        19.50         7.76         0.13        10.32 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 
       27.62        20.19        17.03        12.03        19.59         3.95 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G 
        9.83        12.43        14.93        17.92         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 
       16.14        10.13         6.38         5.26        10.85         0.23 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 
       12.95        49.38         4.77        21.90        15.35        19.82 
TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 
       41.33         4.04         3.62        43.79        15.81        19.66 
TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO 
       30.02         3.85        15.98        15.19        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM 
       15.85         7.20        20.88        21.90        15.88         0.26 
TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
        4.73         7.86        14.17         6.02        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 
        9.44         8.05        13.28         7.56         9.14        12.46 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
       10.29        19.20         8.78        15.45        13.68         3.12 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 
       15.32         9.40         0.30        24.23        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       39.98        16.80         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH 
       12.03        31.27        23.67        11.51        12.76        66.28 
TCGA-Z5-AAPL 
       15.35 

  AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE 
                       1.35                        0.13 
  AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE 
                      68.52                       90.12 
  AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE 
                      20.33                       15.12 
[1] "1.4 - 68.5 (20.3)" "0.1 - 90.1 (15.1)"
[1] "hr=" "1.7"
D23V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 23(XQ28) MUTATED         0        0        2         4        11
  AMP PEAK 23(XQ28) WILD-TYPE       1        5       13        26       110
                             vv
clus                          STAGE III STAGE IV
  AMP PEAK 23(XQ28) MUTATED           1        1
  AMP PEAK 23(XQ28) WILD-TYPE         4        4
D23V3, multiclass
           clus
vv          AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE
  STAGE I                           0                           1
  STAGE IA                          0                           5
  STAGE IB                          2                          13
  STAGE IIA                         4                          26
  STAGE IIB                        11                         110
  STAGE III                         1                           4
  STAGE IV                          1                           4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                           T1  T2  T3  T4
  AMP PEAK 23(XQ28) MUTATED     0   4  14   1
  AMP PEAK 23(XQ28) WILD-TYPE   7  20 133   3
D23V4, multiclass
    clus
vv   AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE
  T1                         0                           7
  T2                         4                          20
  T3                        14                         133
  T4                         1                           3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V5, binary
                             cls
clus                            0   1
  AMP PEAK 23(XQ28) MUTATED     7  11
  AMP PEAK 23(XQ28) WILD-TYPE  43 118
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 23(XQ28) MUTATED      7   11
  AMP PEAK 23(XQ28) WILD-TYPE   43  118
   clus
vv  AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE
  0                         7                          43
  1                        11                         118
[1] 2 2
[1] FALSE
D23V6, binary
                             cls
clus                           0  1
  AMP PEAK 23(XQ28) MUTATED    7  1
  AMP PEAK 23(XQ28) WILD-TYPE 78  4
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 23(XQ28) MUTATED      7    1
  AMP PEAK 23(XQ28) WILD-TYPE   78    4
   clus
vv  AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE
  0                         7                          78
  1                         1                           4
[1] 2 2
[1] FALSE
D23V7, binary
                             cls
clus                           0  1
  AMP PEAK 23(XQ28) MUTATED    7 13
  AMP PEAK 23(XQ28) WILD-TYPE 76 88
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 23(XQ28) MUTATED      7   13
  AMP PEAK 23(XQ28) WILD-TYPE   76   88
        clus
vv       AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE
  FEMALE                         7                          76
  MALE                          13                          88
[1] 2 2
[1] FALSE
D23V8, binary
                             cls
clus                            0   1
  AMP PEAK 23(XQ28) MUTATED    15   5
  AMP PEAK 23(XQ28) WILD-TYPE 110  39
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 23(XQ28) MUTATED     15    5
  AMP PEAK 23(XQ28) WILD-TYPE  110   39
     clus
vv    AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE
  NO                         15                         110
  YES                         5                          39
[1] 2 2
[1] FALSE
                             vv
clus                          PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 23(XQ28) MUTATED                                    13
  AMP PEAK 23(XQ28) WILD-TYPE                                 140
                             vv
clus                          PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 23(XQ28) MUTATED                                       7
  AMP PEAK 23(XQ28) WILD-TYPE                                    18
                             vv
clus                          PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 23(XQ28) MUTATED                                                  0
  AMP PEAK 23(XQ28) WILD-TYPE                                                4
                             vv
clus                          PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 23(XQ28) MUTATED                                     0
  AMP PEAK 23(XQ28) WILD-TYPE                                   1
D23V9, multiclass
                                                  clus
vv                                                 AMP PEAK 23(XQ28) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                     13
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                    7
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                         0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                      0
                                                  clus
vv                                                 AMP PEAK 23(XQ28) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      140
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     18
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V10, continuous
D23V11, continuous
[1] "Remove cluster labels:"    "AMP PEAK 23(XQ28) MUTATED"
clus
  AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE 
                          2                          44 
                 TCGA-3A-A9IJ                  TCGA-HZ-A77Q 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-HZ-A8P0                  TCGA-IB-A5SS 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-LB-A7SX                  TCGA-XD-AAUL 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-2J-AAB1                  TCGA-2J-AABE 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-2J-AABF                  TCGA-2J-AABI 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-2J-AABO                  TCGA-3A-A9IB 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-3A-A9IR                  TCGA-3A-A9IX 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-FB-A4P5                  TCGA-FB-A5VM 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-FB-A7DR                  TCGA-FB-AAPQ 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-FB-AAPS                  TCGA-FB-AAPY 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-H6-8124                  TCGA-H8-A6C1 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-HZ-A8P1                  TCGA-IB-7644 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-IB-7649                  TCGA-IB-7651 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-IB-7885                  TCGA-IB-7886 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-IB-7891                  TCGA-IB-8126 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-IB-8127                  TCGA-IB-A6UF 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-IB-A7M4                  TCGA-IB-AAUQ 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-IB-AAUS                  TCGA-IB-AAUT 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-IB-AAUV                  TCGA-LB-A9Q5 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-OE-A75W                  TCGA-S4-A8RM 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-US-A774                  TCGA-XD-AAUI 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                 TCGA-XN-A8T5                  TCGA-YY-A8LH 
"AMP PEAK 23(XQ28) WILD-TYPE" "AMP PEAK 23(XQ28) WILD-TYPE" 
                             vv
clus                          R0 R1 R2 RX
  AMP PEAK 23(XQ28) MUTATED   14  6  0  0
  AMP PEAK 23(XQ28) WILD-TYPE 97 47  5  4
D23V12, multiclass
    clus
vv   AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE
  R0                        14                          97
  R1                         6                          47
  R2                         0                           5
  RX                         0                           4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V13, continuous
                             vv
clus                          ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 23(XQ28) MUTATED       2                         0    18
  AMP PEAK 23(XQ28) WILD-TYPE     9                         7   143
D23V14, multiclass
                           clus
vv                          AMP PEAK 23(XQ28) MUTATED
  ASIAN                                             2
  BLACK OR AFRICAN AMERICAN                         0
  WHITE                                            18
                           clus
vv                          AMP PEAK 23(XQ28) WILD-TYPE
  ASIAN                                               9
  BLACK OR AFRICAN AMERICAN                           7
  WHITE                                             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V15, binary
                             cls
clus                            0   1
  AMP PEAK 23(XQ28) MUTATED     1  15
  AMP PEAK 23(XQ28) WILD-TYPE   4 121
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 23(XQ28) MUTATED      1   15
  AMP PEAK 23(XQ28) WILD-TYPE    4  121
                        clus
vv                       AMP PEAK 23(XQ28) MUTATED AMP PEAK 23(XQ28) WILD-TYPE
  HISPANIC OR LATINO                             1                           4
  NOT HISPANIC OR LATINO                        15                         121
[1] 2 2
[1] FALSE

Clustering(24) Variable = DEL PEAK  1(1P36.11) MUTATION ANALYSIS
D24V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  1(1P36.11) MUTATED   26 42
  DEL PEAK  1(1P36.11) WILD-TYPE 57 58
  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE 
                            68                            115 
  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE 
                            42                             58 
$`DEL PEAK  1(1P36.11) MUTATED`
TCGA-3A-A9I5 TCGA-3A-A9IL TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-HZ-7289 TCGA-IB-7654 
       58.98        90.12         8.02        15.78        21.73        15.65 
TCGA-IB-A5SS TCGA-S4-A8RO TCGA-2J-AAB1 TCGA-2J-AABA TCGA-2J-AABF TCGA-2J-AABH 
       15.12        17.26         2.17        19.96        22.72        42.31 
TCGA-2J-AABI TCGA-2J-AABO TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ 
       31.86        14.47         4.70        22.49         3.39        12.95 
TCGA-2L-AAQL TCGA-3A-A9I9 TCGA-3A-A9IH TCGA-3A-A9IS TCGA-3A-A9IX TCGA-3E-AAAZ 
        9.60        20.84        33.57        32.81        34.09        71.74 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPU TCGA-FB-AAQ0 
       12.33        11.61        15.95        37.15        12.53        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5923 
        4.04         5.03         1.02         2.01        36.20        20.35 
TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OP TCGA-HZ-7918 TCGA-HZ-7925 
       22.06         7.63         9.50        32.15        31.86        20.19 
TCGA-HZ-8005 TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-IB-7646 TCGA-IB-7651 TCGA-IB-7652 
        3.95         5.26         0.23         4.77        19.82        36.69 
TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF 
        4.04        15.81         3.85        17.16        15.85        21.90 
TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUO TCGA-LB-A8F3 
        1.35         8.22        15.88         4.73         7.86        12.46 
TCGA-OE-A75W TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RP 
        8.78         3.12        15.32         9.40        24.23        23.08 
TCGA-US-A776 TCGA-YY-A8LH 
       39.98        66.28 

$`DEL PEAK  1(1P36.11) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-F2-A44G TCGA-H6-A45N TCGA-HZ-A4BK 
       14.40        10.49        60.95         7.66        13.84        21.60 
TCGA-HZ-A77Q TCGA-LB-A7SX TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB4 TCGA-2J-AAB6 
        1.08        12.92        14.14        16.37        23.97         9.63 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABE TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABU 
        2.63        20.61        22.22        15.91        15.22         9.11 
TCGA-2J-AABV TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IN 
       21.44        45.47        43.50         7.36        24.26        68.52 
TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-3A-A9J0 
       63.85        50.70        15.06        36.26        10.13        24.43 
TCGA-3E-AAAY TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H 
       75.12        10.98         9.70        19.46         7.10        19.27 
TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-AAPS 
        3.12        17.00         5.88        24.07        16.37         7.50 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5926 TCGA-H6-8124 
       34.82        23.54        24.36         5.10        17.79        12.89 
TCGA-HV-A5A3 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7919 
        4.21        66.94         8.28        30.25        17.49        19.50 
TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76         0.13        10.32        27.62        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
       12.03        19.59         9.83        12.43        14.93        17.92 
TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH 
       17.00         4.96        21.70        16.14        10.13         6.38 
TCGA-HZ-A77P TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 
       10.85        19.82        12.95        49.38        21.90        15.35 
TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 
       41.33         3.62        43.79        19.66        30.02        15.98 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-AAUM TCGA-IB-AAUP 
       15.19        12.00         7.20        20.88         0.26        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        6.02        11.11         7.40         9.44         8.05        13.28 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY 
        7.56         9.14        10.29        19.20        15.45        13.68 
TCGA-RL-AAAS TCGA-US-A774 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG 
        0.30        22.85        16.80         0.39        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY 
       12.99        12.03        31.27        23.67        11.51        12.76 
TCGA-Z5-AAPL 
       15.35 

  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE 
                          0.23                           0.13 
  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE 
                         90.12                          75.12 
  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE 
                        15.715                         15.190 
[1] "0.2 - 90.1 (15.7)" "0.1 - 75.1 (15.2)"
[1] "hr=" "1.2"
D24V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  1(1P36.11) MUTATED         1        3        4        16        41
  DEL PEAK  1(1P36.11) WILD-TYPE       0        2       11        14        80
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK  1(1P36.11) MUTATED           1        1
  DEL PEAK  1(1P36.11) WILD-TYPE         4        4
D24V3, multiclass
           clus
vv          DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             3                              2
  STAGE IB                             4                             11
  STAGE IIA                           16                             14
  STAGE IIB                           41                             80
  STAGE III                            1                              4
  STAGE IV                             1                              4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             T1 T2 T3 T4
  DEL PEAK  1(1P36.11) MUTATED    5  5 55  2
  DEL PEAK  1(1P36.11) WILD-TYPE  2 19 92  2
D24V4, multiclass
    clus
vv   DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  T1                            5                              2
  T2                            5                             19
  T3                           55                             92
  T4                            2                              2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V5, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.11) MUTATED   22 44
  DEL PEAK  1(1P36.11) WILD-TYPE 28 85
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.11) MUTATED     22   44
  DEL PEAK  1(1P36.11) WILD-TYPE   28   85
   clus
vv  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  0                           22                             28
  1                           44                             85
[1] 2 2
[1] FALSE
D24V6, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.11) MUTATED   30  1
  DEL PEAK  1(1P36.11) WILD-TYPE 55  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.11) MUTATED     30    1
  DEL PEAK  1(1P36.11) WILD-TYPE   55    4
   clus
vv  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  0                           30                             55
  1                            1                              4
[1] 2 2
[1] FALSE
D24V7, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.11) MUTATED   23 45
  DEL PEAK  1(1P36.11) WILD-TYPE 60 56
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.11) MUTATED     23   45
  DEL PEAK  1(1P36.11) WILD-TYPE   60   56
        clus
vv       DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  FEMALE                           23                             60
  MALE                             45                             56
[1] 2 2
[1] FALSE
D24V8, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.11) MUTATED   51 15
  DEL PEAK  1(1P36.11) WILD-TYPE 74 29
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.11) MUTATED     51   15
  DEL PEAK  1(1P36.11) WILD-TYPE   74   29
     clus
vv    DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  NO                            51                             74
  YES                           15                             29
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  1(1P36.11) MUTATED                                    57
  DEL PEAK  1(1P36.11) WILD-TYPE                                  96
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  1(1P36.11) MUTATED                                       9
  DEL PEAK  1(1P36.11) WILD-TYPE                                    16
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  1(1P36.11) MUTATED                                                  2
  DEL PEAK  1(1P36.11) WILD-TYPE                                                2
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  1(1P36.11) MUTATED                                     0
  DEL PEAK  1(1P36.11) WILD-TYPE                                   1
D24V9, multiclass
                                                  clus
vv                                                 DEL PEAK  1(1P36.11) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        57
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       9
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK  1(1P36.11) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          96
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        16
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V10, continuous
D24V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  1(1P36.11) MUTATED   43 19  0  3
  DEL PEAK  1(1P36.11) WILD-TYPE 68 34  5  1
D24V12, multiclass
    clus
vv   DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  R0                           43                             68
  R1                           19                             34
  R2                            0                              5
  RX                            3                              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  1(1P36.11) MUTATED       6                         2    60
  DEL PEAK  1(1P36.11) WILD-TYPE     5                         5   101
D24V14, multiclass
                           clus
vv                          DEL PEAK  1(1P36.11) MUTATED
  ASIAN                                                6
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               60
                           clus
vv                          DEL PEAK  1(1P36.11) WILD-TYPE
  ASIAN                                                  5
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V15, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.11) MUTATED    1 51
  DEL PEAK  1(1P36.11) WILD-TYPE  4 85
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.11) MUTATED      1   51
  DEL PEAK  1(1P36.11) WILD-TYPE    4   85
                        clus
vv                       DEL PEAK  1(1P36.11) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           51
                        clus
vv                       DEL PEAK  1(1P36.11) WILD-TYPE
  HISPANIC OR LATINO                                  4
  NOT HISPANIC OR LATINO                             85
[1] 2 2
[1] FALSE

Clustering(25) Variable = DEL PEAK  2(2Q14.3) MUTATION ANALYSIS
D25V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  2(2Q14.3) MUTATED    5  4
  DEL PEAK  2(2Q14.3) WILD-TYPE 78 96
  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE 
                            9                           174 
  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE 
                            4                            96 
$`DEL PEAK  2(2Q14.3) MUTATED`
TCGA-3A-A9IL TCGA-HZ-7289 TCGA-3A-A9IS TCGA-FB-AAPU TCGA-FB-AAQ1 TCGA-H6-8124 
       90.12        21.73        32.81        12.53         4.04        12.89 
TCGA-HZ-7918 TCGA-HZ-A49I TCGA-US-A776 
       31.86        10.13        39.98 

$`DEL PEAK  2(2Q14.3) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS 
       15.78        13.84        21.60         1.08        15.65        15.12 
TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 
       12.92        17.26        14.14        16.37         2.17        23.97 
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
        9.63         2.63        20.61        19.96        22.22        22.72 
TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU 
       42.31        31.86        15.91        14.47        15.22         9.11 
TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL 
       21.44         4.70        22.49         3.39        12.95         9.60 
TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH 
       45.47        43.50        20.84         7.36        24.26        33.57 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX 
       68.52        63.85        50.70        15.06        36.26        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       10.13        24.43        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 
       19.46         7.10        19.27         3.12        17.00         5.88 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ 
       24.07        16.37        12.33        11.61        15.95        37.15 
TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ2 TCGA-FB-AAQ3 
        7.50        34.82        23.54        15.55         5.03         1.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 
       24.36         2.01         5.10        36.20        20.35        17.79 
TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL 
       22.06         4.21         7.63         9.50        66.94         8.28 
TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       32.15        30.25        17.49        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
       10.32        27.62        20.19        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
       19.59         3.95         9.83        12.43        14.93        17.92 
TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A77O 
       17.00         4.96        21.70        16.14         6.38         5.26 
TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 
       10.85         0.23        19.82        12.95        49.38         4.77 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 
       21.90        15.35        19.82        36.69        41.33         4.04 
TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 
        3.62        43.79        15.81        19.66        30.02         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98        15.19        17.16        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM 
       20.88        21.90         1.35         8.22        15.88         0.26 
TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
        4.73         7.86        14.17         6.02        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 
        9.44         8.05        13.28         7.56         9.14        12.46 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
       10.29        19.20         8.78        15.45        13.68         3.12 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 
       15.32         9.40         0.30        24.23        23.08        22.85 
TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI 
       16.80         0.39        18.67        13.81        12.99        12.03 
TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       31.27        23.67        11.51        12.76        66.28        15.35 

  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE 
                         4.04                          0.13 
  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE 
                        90.12                         75.12 
  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE 
                       21.730                        15.335 
[1] "4.0 - 90.1 (21.7)" "0.1 - 75.1 (15.3)"
[1] "hr=" "1.8"
D25V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  2(2Q14.3) MUTATED         1        0        1         2         5
  DEL PEAK  2(2Q14.3) WILD-TYPE       0        5       14        28       116
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  2(2Q14.3) MUTATED           0        0
  DEL PEAK  2(2Q14.3) WILD-TYPE         5        5
D25V3, multiclass
           clus
vv          DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            0                             5
  STAGE IB                            1                            14
  STAGE IIA                           2                            28
  STAGE IIB                           5                           116
  STAGE III                           0                             5
  STAGE IV                            0                             5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  DEL PEAK  2(2Q14.3) MUTATED     1   1   7   0
  DEL PEAK  2(2Q14.3) WILD-TYPE   6  23 140   4
D25V4, multiclass
    clus
vv   DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE
  T1                           1                             6
  T2                           1                            23
  T3                           7                           140
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V5, binary
                               cls
clus                              0   1
  DEL PEAK  2(2Q14.3) MUTATED     3   5
  DEL PEAK  2(2Q14.3) WILD-TYPE  47 124
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(2Q14.3) MUTATED      3    5
  DEL PEAK  2(2Q14.3) WILD-TYPE   47  124
   clus
vv  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE
  0                           3                            47
  1                           5                           124
[1] 2 2
[1] FALSE
D25V6, binary
                               cls
clus                             0  1
  DEL PEAK  2(2Q14.3) MUTATED    2  0
  DEL PEAK  2(2Q14.3) WILD-TYPE 83  5
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(2Q14.3) MUTATED      2    0
  DEL PEAK  2(2Q14.3) WILD-TYPE   83    5
   clus
vv  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE
  0                           2                            83
  1                           0                             5
[1] 2 2
[1] FALSE
D25V7, binary
                               cls
clus                             0  1
  DEL PEAK  2(2Q14.3) MUTATED    3  6
  DEL PEAK  2(2Q14.3) WILD-TYPE 80 95
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(2Q14.3) MUTATED      3    6
  DEL PEAK  2(2Q14.3) WILD-TYPE   80   95
        clus
vv       DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE
  FEMALE                           3                            80
  MALE                             6                            95
[1] 2 2
[1] FALSE
D25V8, binary
                               cls
clus                              0   1
  DEL PEAK  2(2Q14.3) MUTATED     6   3
  DEL PEAK  2(2Q14.3) WILD-TYPE 119  41
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(2Q14.3) MUTATED      6    3
  DEL PEAK  2(2Q14.3) WILD-TYPE  119   41
     clus
vv    DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE
  NO                            6                           119
  YES                           3                            41
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  2(2Q14.3) MUTATED                                     5
  DEL PEAK  2(2Q14.3) WILD-TYPE                                 148
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  2(2Q14.3) MUTATED                                       3
  DEL PEAK  2(2Q14.3) WILD-TYPE                                    22
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  2(2Q14.3) MUTATED                                                  1
  DEL PEAK  2(2Q14.3) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  2(2Q14.3) MUTATED                                     0
  DEL PEAK  2(2Q14.3) WILD-TYPE                                   1
D25V9, multiclass
                                                  clus
vv                                                 DEL PEAK  2(2Q14.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        5
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK  2(2Q14.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        148
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       22
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V10, continuous
[1] "Remove cluster labels:"      "DEL PEAK  2(2Q14.3) MUTATED"
clus
  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE 
                            1                            55 
                   TCGA-3A-A9IJ                    TCGA-H6-A45N 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-HZ-A77Q                    TCGA-HZ-A8P0 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-A5SS                    TCGA-LB-A7SX 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-XD-AAUL                    TCGA-2J-AAB1 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AABA                    TCGA-2J-AABE 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AABF                    TCGA-2J-AABI 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AABO                    TCGA-2J-AABV 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-2L-AAQA                    TCGA-2L-AAQE 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-3A-A9I9                    TCGA-3A-A9IB 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-3A-A9IX                    TCGA-F2-6880 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-F2-A8YN                    TCGA-FB-A4P5 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-FB-A5VM                    TCGA-FB-A78T 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-FB-A7DR                    TCGA-FB-AAPQ 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-FB-AAPS                    TCGA-FB-AAPY 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-H8-A6C1                    TCGA-HV-AA8V 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-HZ-A8P1                    TCGA-IB-7644 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7649                    TCGA-IB-7651 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7885                    TCGA-IB-7886 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7887                    TCGA-IB-7891 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-8126                    TCGA-IB-8127 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-A6UF                    TCGA-IB-A6UG 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-A7M4                    TCGA-IB-AAUQ 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUS                    TCGA-IB-AAUT 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUU                    TCGA-IB-AAUV 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-LB-A9Q5                    TCGA-OE-A75W 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-S4-A8RM                    TCGA-S4-A8RP 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-US-A774                    TCGA-XN-A8T5 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-YY-A8LH 
"DEL PEAK  2(2Q14.3) WILD-TYPE" 
D25V11, continuous
[1] "Remove cluster labels:"      "DEL PEAK  2(2Q14.3) MUTATED"
clus
  DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE 
                            1                            45 
                   TCGA-3A-A9IJ                    TCGA-HZ-A77Q 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-HZ-A8P0                    TCGA-IB-A5SS 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-LB-A7SX                    TCGA-XD-AAUL 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AAB1                    TCGA-2J-AABE 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AABF                    TCGA-2J-AABI 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AABO                    TCGA-3A-A9IB 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-3A-A9IR                    TCGA-3A-A9IX 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-FB-A4P5                    TCGA-FB-A5VM 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-FB-A78T                    TCGA-FB-A7DR 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-FB-AAPQ                    TCGA-FB-AAPS 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-FB-AAPY                    TCGA-H8-A6C1 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-HZ-A8P1                    TCGA-IB-7644 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7649                    TCGA-IB-7651 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7885                    TCGA-IB-7886 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7891                    TCGA-IB-8126 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-8127                    TCGA-IB-A6UF 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-A6UG                    TCGA-IB-A7M4 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUQ                    TCGA-IB-AAUS 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUT                    TCGA-IB-AAUV 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-LB-A9Q5                    TCGA-OE-A75W 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-S4-A8RM                    TCGA-US-A774 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-XD-AAUI                    TCGA-XN-A8T5 
"DEL PEAK  2(2Q14.3) WILD-TYPE" "DEL PEAK  2(2Q14.3) WILD-TYPE" 
                   TCGA-YY-A8LH 
"DEL PEAK  2(2Q14.3) WILD-TYPE" 
                               vv
clus                             R0  R1  R2  RX
  DEL PEAK  2(2Q14.3) MUTATED     5   3   0   1
  DEL PEAK  2(2Q14.3) WILD-TYPE 106  50   5   3
D25V12, multiclass
    clus
vv   DEL PEAK  2(2Q14.3) MUTATED DEL PEAK  2(2Q14.3) WILD-TYPE
  R0                           5                           106
  R1                           3                            50
  R2                           0                             5
  RX                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  2(2Q14.3) MUTATED       1                         0     8
  DEL PEAK  2(2Q14.3) WILD-TYPE    10                         7   153
D25V14, multiclass
                           clus
vv                          DEL PEAK  2(2Q14.3) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                               8
                           clus
vv                          DEL PEAK  2(2Q14.3) WILD-TYPE
  ASIAN                                                10
  BLACK OR AFRICAN AMERICAN                             7
  WHITE                                               153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V15, binary
                               cls
clus                              0   1
  DEL PEAK  2(2Q14.3) MUTATED     0   9
  DEL PEAK  2(2Q14.3) WILD-TYPE   5 127
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(2Q14.3) MUTATED      0    9
  DEL PEAK  2(2Q14.3) WILD-TYPE    5  127
                        clus
vv                       DEL PEAK  2(2Q14.3) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                           9
                        clus
vv                       DEL PEAK  2(2Q14.3) WILD-TYPE
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           127
[1] 2 2
[1] FALSE

Clustering(26) Variable = DEL PEAK  3(3P21.31) MUTATION ANALYSIS
D26V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  3(3P21.31) MUTATED   21 30
  DEL PEAK  3(3P21.31) WILD-TYPE 62 70
  DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE 
                            51                            132 
  DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE 
                            30                             70 
$`DEL PEAK  3(3P21.31) MUTATED`
TCGA-3A-A9I5 TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-HZ-A4BK TCGA-IB-7654 TCGA-LB-A7SX 
       58.98         8.02        15.78        21.60        15.65        12.92 
TCGA-2J-AAB8 TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABU TCGA-2L-AAQI TCGA-2L-AAQJ 
        2.63        31.86        14.47         9.11         3.39        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IO TCGA-F2-A44H 
        9.60        45.47         7.36        24.26        63.85        19.27 
TCGA-FB-A5VM TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ 
       16.37        15.95        37.15        12.53        34.82        23.54 
TCGA-FB-AAQ1 TCGA-FZ-5922 TCGA-H8-A6C1 TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7922 
        4.04        36.20        22.06        17.49        31.86         0.13 
TCGA-HZ-7925 TCGA-HZ-8005 TCGA-HZ-8637 TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-IB-7646 
       20.19         3.95        17.00         5.26         0.23         4.77 
TCGA-IB-7647 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7890 TCGA-IB-8127 TCGA-IB-A5SP 
       21.90         4.04         3.62        19.66        17.16        15.85 
TCGA-IB-A7LX TCGA-IB-AAUO TCGA-IB-AAUU TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-RB-A7B8 
        8.22         7.86         8.05        12.46        19.20        15.32 
TCGA-RB-AA9M TCGA-YH-A8SY TCGA-YY-A8LH 
        9.40        12.76        66.28 

$`DEL PEAK  3(3P21.31) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-H6-A45N 
       14.40        10.49        60.95        90.12         7.66        13.84 
TCGA-HZ-7289 TCGA-HZ-A77Q TCGA-IB-A5SS TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL 
       21.73         1.08        15.12        17.26        14.14        16.37 
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE 
        2.17        23.97         9.63        20.61        19.96        22.22 
TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABV TCGA-2L-AAQA 
       22.72        42.31        15.91        15.22        21.44         4.70 
TCGA-2L-AAQE TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IR 
       22.49        43.50        20.84        33.57        68.52        50.70 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 
       32.81        15.06        36.26        34.09        10.13        24.43 
TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 
       75.12        71.74        10.98         9.70        19.46         7.10 
TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-A7DR 
        3.12        17.00         5.88        24.07        12.33        11.61 
TCGA-FB-AAPS TCGA-FB-AAQ0 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 
        7.50        15.55         5.03         1.02        24.36         2.01 
TCGA-FZ-5921 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-HV-A5A3 TCGA-HV-A5A4 
        5.10        20.35        17.79        12.89         4.21         7.63 
TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HZ-7919 
        9.50        66.94         8.28        32.15        30.25        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        7.76        10.32        27.62        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
       19.59         9.83        12.43        14.93        17.92         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77P TCGA-HZ-A9TJ 
       21.70        16.14        10.13         6.38        10.85        19.82 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
       12.95        49.38        15.35        19.82        36.69        41.33 
TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 
       43.79        15.81        30.02         3.85        15.98        15.19 
TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 
       12.00         7.20        20.88        21.90         1.35        15.88 
TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
        0.26         4.73        14.17         6.02        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-OE-A75W 
        9.44        13.28         7.56         9.14        10.29         8.78 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP 
       15.45        13.68         3.12         0.30        24.23        23.08 
TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG 
       22.85        39.98        16.80         0.39        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-Z5-AAPL 
       12.99        12.03        31.27        23.67        11.51        15.35 

  DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE 
                          0.13                           0.26 
  DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE 
                         66.28                          90.12 
  DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE 
                        15.650                         15.285 
[1] "0.1 - 66.3 (15.7)" "0.3 - 90.1 (15.3)"
[1] "hr=" "1.2"
D26V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  3(3P21.31) MUTATED         0        1        3         9        34
  DEL PEAK  3(3P21.31) WILD-TYPE       1        4       12        21        87
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK  3(3P21.31) MUTATED           2        0
  DEL PEAK  3(3P21.31) WILD-TYPE         3        5
D26V3, multiclass
           clus
vv          DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              4
  STAGE IB                             3                             12
  STAGE IIA                            9                             21
  STAGE IIB                           34                             87
  STAGE III                            2                              3
  STAGE IV                             0                              5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  DEL PEAK  3(3P21.31) MUTATED     2   8  38   1
  DEL PEAK  3(3P21.31) WILD-TYPE   5  16 109   3
D26V4, multiclass
    clus
vv   DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE
  T1                            2                              5
  T2                            8                             16
  T3                           38                            109
  T4                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V5, binary
                                cls
clus                              0  1
  DEL PEAK  3(3P21.31) MUTATED   14 36
  DEL PEAK  3(3P21.31) WILD-TYPE 36 93
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  3(3P21.31) MUTATED     14   36
  DEL PEAK  3(3P21.31) WILD-TYPE   36   93
   clus
vv  DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE
  0                           14                             36
  1                           36                             93
[1] 2 2
[1] FALSE
D26V6, binary
                                cls
clus                              0  1
  DEL PEAK  3(3P21.31) MUTATED   20  0
  DEL PEAK  3(3P21.31) WILD-TYPE 65  5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  3(3P21.31) MUTATED     20    0
  DEL PEAK  3(3P21.31) WILD-TYPE   65    5
   clus
vv  DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE
  0                           20                             65
  1                            0                              5
[1] 2 2
[1] FALSE
D26V7, binary
                                cls
clus                              0  1
  DEL PEAK  3(3P21.31) MUTATED   17 34
  DEL PEAK  3(3P21.31) WILD-TYPE 66 67
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  3(3P21.31) MUTATED     17   34
  DEL PEAK  3(3P21.31) WILD-TYPE   66   67
        clus
vv       DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE
  FEMALE                           17                             66
  MALE                             34                             67
[1] 2 2
[1] FALSE
D26V8, binary
                                cls
clus                              0  1
  DEL PEAK  3(3P21.31) MUTATED   33 15
  DEL PEAK  3(3P21.31) WILD-TYPE 92 29
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  3(3P21.31) MUTATED     33   15
  DEL PEAK  3(3P21.31) WILD-TYPE   92   29
     clus
vv    DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE
  NO                            33                             92
  YES                           15                             29
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  3(3P21.31) MUTATED                                    44
  DEL PEAK  3(3P21.31) WILD-TYPE                                 109
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  3(3P21.31) MUTATED                                       6
  DEL PEAK  3(3P21.31) WILD-TYPE                                    19
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  3(3P21.31) MUTATED                                                  0
  DEL PEAK  3(3P21.31) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  3(3P21.31) MUTATED                                     0
  DEL PEAK  3(3P21.31) WILD-TYPE                                   1
D26V9, multiclass
                                                  clus
vv                                                 DEL PEAK  3(3P21.31) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        44
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK  3(3P21.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         109
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        19
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V10, continuous
D26V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  3(3P21.31) MUTATED   31 17  1  1
  DEL PEAK  3(3P21.31) WILD-TYPE 80 36  4  3
D26V12, multiclass
    clus
vv   DEL PEAK  3(3P21.31) MUTATED DEL PEAK  3(3P21.31) WILD-TYPE
  R0                           31                             80
  R1                           17                             36
  R2                            1                              4
  RX                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  3(3P21.31) MUTATED       2                         2    45
  DEL PEAK  3(3P21.31) WILD-TYPE     9                         5   116
D26V14, multiclass
                           clus
vv                          DEL PEAK  3(3P21.31) MUTATED
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               45
                           clus
vv                          DEL PEAK  3(3P21.31) WILD-TYPE
  ASIAN                                                  9
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V15, binary
                                cls
clus                              0  1
  DEL PEAK  3(3P21.31) MUTATED    1 38
  DEL PEAK  3(3P21.31) WILD-TYPE  4 98
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  3(3P21.31) MUTATED      1   38
  DEL PEAK  3(3P21.31) WILD-TYPE    4   98
                        clus
vv                       DEL PEAK  3(3P21.31) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           38
                        clus
vv                       DEL PEAK  3(3P21.31) WILD-TYPE
  HISPANIC OR LATINO                                  4
  NOT HISPANIC OR LATINO                             98
[1] 2 2
[1] FALSE

Clustering(27) Variable = DEL PEAK  4(4Q22.1) MUTATION ANALYSIS
D27V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  4(4Q22.1) MUTATED   10 17
  DEL PEAK  4(4Q22.1) WILD-TYPE 73 83
  DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE 
                           27                           156 
  DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE 
                           17                            83 
$`DEL PEAK  4(4Q22.1) MUTATED`
TCGA-3A-A9I5 TCGA-2J-AABO TCGA-2J-AABP TCGA-2L-AAQA TCGA-2L-AAQE TCGA-3A-A9J0 
       58.98        14.47        15.22         4.70        22.49        24.43 
TCGA-3E-AAAZ TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ2 
       71.74        16.37        11.61        23.54        15.55         5.03 
TCGA-FZ-5920 TCGA-HV-A5A6 TCGA-HV-A7OP TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8637 
        2.01        66.94        32.15         0.13        20.19        17.00 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-IB-7886 TCGA-IB-A5SP TCGA-IB-A7LX TCGA-IB-AAUO 
       10.13         6.38         4.04        15.85         8.22         7.86 
TCGA-IB-AAUQ TCGA-RB-AA9M TCGA-XD-AAUI 
        6.02         9.40        12.03 

$`DEL PEAK  4(4Q22.1) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        60.95        90.12         7.66         8.02 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
       15.78        13.84        21.73        21.60         1.08        15.65 
TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 
       15.12        12.92        17.26        14.14        16.37         2.17 
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE 
       23.97         9.63         2.63        20.61        19.96        22.22 
TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABU TCGA-2J-AABV 
       22.72        42.31        31.86        15.91         9.11        21.44 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 
        3.39        12.95         9.60        45.47        43.50        20.84 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
        7.36        24.26        33.57        68.52        63.85        50.70 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY 
       32.81        15.06        36.26        34.09        10.13        75.12 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX 
       10.98         9.70        19.46         7.10        19.27         3.12 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ 
       17.00         5.88        24.07        12.33        15.95        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FZ-5919 
        7.50        12.53        34.82         4.04         1.02        24.36 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 
        5.10        36.20        20.35        17.79        12.89        22.06 
TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HV-AA8X 
        4.21         7.63         9.50         8.28        30.25        17.49 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 
       31.86        19.50         7.76        10.32        27.62        17.03 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 
       23.21        12.03        19.59         3.95         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A77O 
       14.93        17.92         4.96        21.70        16.14         5.26 
TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 
       10.85         0.23        19.82        12.95        49.38         4.77 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7887 
       21.90        15.35        19.82        36.69        41.33         3.62 
TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 
       43.79        15.81        19.66        30.02         3.85        15.98 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF 
       15.19        17.16        12.00         7.20        20.88        21.90 
TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUP TCGA-IB-AAUR 
        1.35        15.88         0.26         4.73        14.17        11.11 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
        7.40         9.44         8.05        13.28         7.56         9.14 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
       12.46        10.29        19.20         8.78        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 
        3.12        15.32         0.30        24.23        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       39.98        16.80         0.39        18.67        13.81        12.99 
TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       31.27        23.67        11.51        12.76        66.28        15.35 

  DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE 
                        71.74                         90.12 
  DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE 
                        14.47                         15.40 
[1] "0.1 - 71.7 (14.5)" "0.2 - 90.1 (15.4)"
[1] "hr=" "1.3"
D27V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  4(4Q22.1) MUTATED         0        0        1         4        21
  DEL PEAK  4(4Q22.1) WILD-TYPE       1        5       14        26       100
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  4(4Q22.1) MUTATED           0        0
  DEL PEAK  4(4Q22.1) WILD-TYPE         5        5
D27V3, multiclass
           clus
vv          DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            1                            14
  STAGE IIA                           4                            26
  STAGE IIB                          21                           100
  STAGE III                           0                             5
  STAGE IV                            0                             5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  DEL PEAK  4(4Q22.1) MUTATED     1   2  23   0
  DEL PEAK  4(4Q22.1) WILD-TYPE   6  22 124   4
D27V4, multiclass
    clus
vv   DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE
  T1                           1                             6
  T2                           2                            22
  T3                          23                           124
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V5, binary
                               cls
clus                              0   1
  DEL PEAK  4(4Q22.1) MUTATED     5  21
  DEL PEAK  4(4Q22.1) WILD-TYPE  45 108
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(4Q22.1) MUTATED      5   21
  DEL PEAK  4(4Q22.1) WILD-TYPE   45  108
   clus
vv  DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE
  0                           5                            45
  1                          21                           108
[1] 2 2
[1] FALSE
D27V6, binary
                               cls
clus                             0  1
  DEL PEAK  4(4Q22.1) MUTATED   12  0
  DEL PEAK  4(4Q22.1) WILD-TYPE 73  5
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(4Q22.1) MUTATED     12    0
  DEL PEAK  4(4Q22.1) WILD-TYPE   73    5
   clus
vv  DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE
  0                          12                            73
  1                           0                             5
[1] 2 2
[1] FALSE
D27V7, binary
                               cls
clus                             0  1
  DEL PEAK  4(4Q22.1) MUTATED    7 20
  DEL PEAK  4(4Q22.1) WILD-TYPE 76 81
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(4Q22.1) MUTATED      7   20
  DEL PEAK  4(4Q22.1) WILD-TYPE   76   81
        clus
vv       DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE
  FEMALE                           7                            76
  MALE                            20                            81
[1] 2 2
[1] FALSE
D27V8, binary
                               cls
clus                              0   1
  DEL PEAK  4(4Q22.1) MUTATED    18   6
  DEL PEAK  4(4Q22.1) WILD-TYPE 107  38
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(4Q22.1) MUTATED     18    6
  DEL PEAK  4(4Q22.1) WILD-TYPE  107   38
     clus
vv    DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE
  NO                           18                           107
  YES                           6                            38
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  4(4Q22.1) MUTATED                                    24
  DEL PEAK  4(4Q22.1) WILD-TYPE                                 129
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  4(4Q22.1) MUTATED                                       1
  DEL PEAK  4(4Q22.1) WILD-TYPE                                    24
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  4(4Q22.1) MUTATED                                                  1
  DEL PEAK  4(4Q22.1) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  4(4Q22.1) MUTATED                                     1
  DEL PEAK  4(4Q22.1) WILD-TYPE                                   0
D27V9, multiclass
                                                  clus
vv                                                 DEL PEAK  4(4Q22.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       24
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK  4(4Q22.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        129
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       24
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V10, continuous
D27V11, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  4(4Q22.1) MUTATED   17  9  0  0
  DEL PEAK  4(4Q22.1) WILD-TYPE 94 44  5  4
D27V12, multiclass
    clus
vv   DEL PEAK  4(4Q22.1) MUTATED DEL PEAK  4(4Q22.1) WILD-TYPE
  R0                          17                            94
  R1                           9                            44
  R2                           0                             5
  RX                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  4(4Q22.1) MUTATED       3                         1    23
  DEL PEAK  4(4Q22.1) WILD-TYPE     8                         6   138
D27V14, multiclass
                           clus
vv                          DEL PEAK  4(4Q22.1) MUTATED
  ASIAN                                               3
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              23
                           clus
vv                          DEL PEAK  4(4Q22.1) WILD-TYPE
  ASIAN                                                 8
  BLACK OR AFRICAN AMERICAN                             6
  WHITE                                               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V15, binary
                               cls
clus                              0   1
  DEL PEAK  4(4Q22.1) MUTATED     2  17
  DEL PEAK  4(4Q22.1) WILD-TYPE   3 119
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(4Q22.1) MUTATED      2   17
  DEL PEAK  4(4Q22.1) WILD-TYPE    3  119
                        clus
vv                       DEL PEAK  4(4Q22.1) MUTATED
  HISPANIC OR LATINO                               2
  NOT HISPANIC OR LATINO                          17
                        clus
vv                       DEL PEAK  4(4Q22.1) WILD-TYPE
  HISPANIC OR LATINO                                 3
  NOT HISPANIC OR LATINO                           119
[1] 2 2
[1] FALSE

Clustering(28) Variable = DEL PEAK  5(4Q34.3) MUTATION ANALYSIS
D28V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  5(4Q34.3) MUTATED   14 21
  DEL PEAK  5(4Q34.3) WILD-TYPE 69 79
  DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE 
                           35                           148 
  DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE 
                           21                            79 
$`DEL PEAK  5(4Q34.3) MUTATED`
TCGA-3A-A9I5 TCGA-LB-A7SX TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABO 
       58.98        12.92         9.63         2.63        42.31        14.47 
TCGA-2L-AAQE TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9J0 TCGA-3E-AAAZ TCGA-FB-A5VM 
       22.49        20.84         7.36        24.43        71.74        16.37 
TCGA-FB-A7DR TCGA-FB-AAPZ TCGA-FB-AAQ2 TCGA-FZ-5920 TCGA-H8-A6C1 TCGA-HV-A5A6 
       11.61        23.54         5.03         2.01        22.06        66.94 
TCGA-HV-A7OP TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8637 TCGA-HZ-A49G TCGA-HZ-A49I 
       32.15         0.13        20.19        17.00        21.70        10.13 
TCGA-HZ-A4BH TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-A5SP TCGA-IB-A7LX TCGA-IB-AAUO 
        6.38        36.69         4.04        15.85         8.22         7.86 
TCGA-IB-AAUQ TCGA-L1-A7W4 TCGA-OE-A75W TCGA-RB-AA9M TCGA-XD-AAUI 
        6.02         9.14         8.78         9.40        12.03 

$`DEL PEAK  5(4Q34.3) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        60.95        90.12         7.66         8.02 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
       15.78        13.84        21.73        21.60         1.08        15.65 
TCGA-IB-A5SS TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 
       15.12        17.26        14.14        16.37         2.17        23.97 
TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABK 
       20.61        19.96        22.22        22.72        31.86        15.91 
TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ 
       15.22         9.11        21.44         4.70         3.39        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN 
        9.60        45.47        43.50        24.26        33.57        68.52 
TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX 
       63.85        50.70        32.81        15.06        36.26        34.09 
TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 
       10.13        75.12        10.98         9.70        19.46         7.10 
TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T 
       19.27         3.12        17.00         5.88        24.07        12.33 
TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ0 
       15.95        37.15         7.50        12.53        34.82        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 
        4.04         1.02        24.36         5.10        36.20        20.35 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL 
       17.79        12.89         4.21         7.63         9.50         8.28 
TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 
       30.25        17.49        31.86        19.50         7.76        10.32 
TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 
       27.62        17.03        23.21        12.03        19.59         3.95 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49H 
        9.83        12.43        14.93        17.92         4.96        16.14 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 
        5.26        10.85         0.23        19.82        12.95        49.38 
TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7887 
        4.77        21.90        15.35        19.82        41.33         3.62 
TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 
       43.79        15.81        19.66        30.02         3.85        15.98 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF 
       15.19        17.16        12.00         7.20        20.88        21.90 
TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUP TCGA-IB-AAUR 
        1.35        15.88         0.26         4.73        14.17        11.11 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 
        7.40         9.44         8.05        13.28         7.56        12.46 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
       10.29        19.20        15.45        13.68         3.12        15.32 
TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 
        0.30        24.23        23.08        22.85        39.98        16.80 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XN-A8T3 TCGA-XN-A8T5 
        0.39        18.67        13.81        12.99        31.27        23.67 
TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        12.76        66.28        15.35 

  DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE 
                        71.74                         90.12 
  DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE 
                        12.92                         15.40 
[1] "0.1 - 71.7 (12.9)" "0.2 - 90.1 (15.4)"
[1] "hr=" "1.1"
D28V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  5(4Q34.3) MUTATED         0        0        1         8        25
  DEL PEAK  5(4Q34.3) WILD-TYPE       1        5       14        22        96
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  5(4Q34.3) MUTATED           0        0
  DEL PEAK  5(4Q34.3) WILD-TYPE         5        5
D28V3, multiclass
           clus
vv          DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            1                            14
  STAGE IIA                           8                            22
  STAGE IIB                          25                            96
  STAGE III                           0                             5
  STAGE IV                            0                             5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  DEL PEAK  5(4Q34.3) MUTATED     1   3  30   0
  DEL PEAK  5(4Q34.3) WILD-TYPE   6  21 117   4
D28V4, multiclass
    clus
vv   DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE
  T1                           1                             6
  T2                           3                            21
  T3                          30                           117
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V5, binary
                               cls
clus                              0   1
  DEL PEAK  5(4Q34.3) MUTATED     9  25
  DEL PEAK  5(4Q34.3) WILD-TYPE  41 104
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(4Q34.3) MUTATED      9   25
  DEL PEAK  5(4Q34.3) WILD-TYPE   41  104
   clus
vv  DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE
  0                           9                            41
  1                          25                           104
[1] 2 2
[1] FALSE
D28V6, binary
                               cls
clus                             0  1
  DEL PEAK  5(4Q34.3) MUTATED   17  0
  DEL PEAK  5(4Q34.3) WILD-TYPE 68  5
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(4Q34.3) MUTATED     17    0
  DEL PEAK  5(4Q34.3) WILD-TYPE   68    5
   clus
vv  DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE
  0                          17                            68
  1                           0                             5
[1] 2 2
[1] FALSE
D28V7, binary
                               cls
clus                             0  1
  DEL PEAK  5(4Q34.3) MUTATED   11 24
  DEL PEAK  5(4Q34.3) WILD-TYPE 72 77
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(4Q34.3) MUTATED     11   24
  DEL PEAK  5(4Q34.3) WILD-TYPE   72   77
        clus
vv       DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE
  FEMALE                          11                            72
  MALE                            24                            77
[1] 2 2
[1] FALSE
D28V8, binary
                               cls
clus                              0   1
  DEL PEAK  5(4Q34.3) MUTATED    22   9
  DEL PEAK  5(4Q34.3) WILD-TYPE 103  35
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(4Q34.3) MUTATED     22    9
  DEL PEAK  5(4Q34.3) WILD-TYPE  103   35
     clus
vv    DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE
  NO                           22                           103
  YES                           9                            35
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  5(4Q34.3) MUTATED                                    31
  DEL PEAK  5(4Q34.3) WILD-TYPE                                 122
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  5(4Q34.3) MUTATED                                       3
  DEL PEAK  5(4Q34.3) WILD-TYPE                                    22
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  5(4Q34.3) MUTATED                                                  1
  DEL PEAK  5(4Q34.3) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  5(4Q34.3) MUTATED                                     0
  DEL PEAK  5(4Q34.3) WILD-TYPE                                   1
D28V9, multiclass
                                                  clus
vv                                                 DEL PEAK  5(4Q34.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       31
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK  5(4Q34.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        122
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       22
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V10, continuous
D28V11, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  5(4Q34.3) MUTATED   21 12  1  0
  DEL PEAK  5(4Q34.3) WILD-TYPE 90 41  4  4
D28V12, multiclass
    clus
vv   DEL PEAK  5(4Q34.3) MUTATED DEL PEAK  5(4Q34.3) WILD-TYPE
  R0                          21                            90
  R1                          12                            41
  R2                           1                             4
  RX                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  5(4Q34.3) MUTATED       4                         2    29
  DEL PEAK  5(4Q34.3) WILD-TYPE     7                         5   132
D28V14, multiclass
                           clus
vv                          DEL PEAK  5(4Q34.3) MUTATED
  ASIAN                                               4
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              29
                           clus
vv                          DEL PEAK  5(4Q34.3) WILD-TYPE
  ASIAN                                                 7
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V15, binary
                               cls
clus                              0   1
  DEL PEAK  5(4Q34.3) MUTATED     2  24
  DEL PEAK  5(4Q34.3) WILD-TYPE   3 112
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(4Q34.3) MUTATED      2   24
  DEL PEAK  5(4Q34.3) WILD-TYPE    3  112
                        clus
vv                       DEL PEAK  5(4Q34.3) MUTATED
  HISPANIC OR LATINO                               2
  NOT HISPANIC OR LATINO                          24
                        clus
vv                       DEL PEAK  5(4Q34.3) WILD-TYPE
  HISPANIC OR LATINO                                 3
  NOT HISPANIC OR LATINO                           112
[1] 2 2
[1] FALSE

Clustering(29) Variable = DEL PEAK  6(5Q14.2) MUTATION ANALYSIS
D29V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  6(5Q14.2) MUTATED   12 23
  DEL PEAK  6(5Q14.2) WILD-TYPE 71 77
  DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE 
                           35                           148 
  DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE 
                           23                            77 
$`DEL PEAK  6(5Q14.2) MUTATED`
TCGA-HZ-7289 TCGA-LB-A7SX TCGA-XD-AAUL TCGA-2J-AABO TCGA-2J-AABP TCGA-2L-AAQI 
       21.73        12.92        16.37        14.47        15.22         3.39 
TCGA-2L-AAQJ TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IZ TCGA-FB-A545 TCGA-FB-A5VM 
       12.95        20.84        24.26        10.13        24.07        16.37 
TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FZ-5926 TCGA-HV-A5A6 TCGA-HV-A7OP TCGA-HZ-7918 
       12.53        23.54        17.79        66.94        32.15        31.86 
TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-8637 TCGA-HZ-A77O TCGA-IB-7652 TCGA-IB-7893 
        0.13         3.95        17.00         5.26        36.69         3.85 
TCGA-IB-8127 TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-L1-A7W4 TCGA-M8-A5N4 
       17.16         1.35         8.22        15.88         9.14        19.20 
TCGA-OE-A75W TCGA-S4-A8RP TCGA-US-A779 TCGA-XD-AAUI TCGA-XN-A8T3 
        8.78        23.08        16.80        12.03        31.27 

$`DEL PEAK  6(5Q14.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
        8.02        15.78        13.84        21.60         1.08        15.65 
TCGA-IB-A5SS TCGA-S4-A8RO TCGA-US-A77E TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 
       15.12        17.26        14.14         2.17        23.97         9.63 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        2.63        20.61        19.96        22.22        22.72        42.31 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       31.86        15.91         9.11        21.44         4.70        22.49 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IN 
        9.60        45.47        43.50         7.36        33.57        68.52 
TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX 
       63.85        50.70        32.81        15.06        36.26        34.09 
TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 
       24.43        75.12        71.74        10.98         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A78T 
        7.10        19.27         3.12        17.00         5.88        12.33 
TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAQ0 
       11.61        15.95        37.15         7.50        34.82        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 
        4.04         5.03         1.02        24.36         2.01         5.10 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 
       36.20        20.35        12.89        22.06         4.21         7.63 
TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7920 
        9.50         8.28        30.25        17.49        19.50         7.76 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
       10.32        27.62        20.19        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
       19.59         9.83        12.43        14.93        17.92         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77P TCGA-HZ-A8P1 
       21.70        16.14        10.13         6.38        10.85         0.23 
TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 
       19.82        12.95        49.38         4.77        21.90        15.35 
TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       19.82        41.33         4.04         3.62        43.79        15.81 
TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP 
       19.66        30.02        15.98        15.19        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO 
        7.20        20.88        21.90         0.26         4.73         7.86 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
       14.17         6.02        11.11         7.40         9.44         8.05 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-PZ-A5RE TCGA-Q3-A5QY 
       13.28         7.56        12.46        10.29        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-US-A774 
        3.12        15.32         9.40         0.30        24.23        22.85 
TCGA-US-A776 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XN-A8T5 
       39.98         0.39        18.67        13.81        12.99        23.67 
TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        12.76        66.28        15.35 

  DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE 
                        66.94                         90.12 
  DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE 
                       16.370                        15.255 
[1] "0.1 - 66.9 (16.4)" "0.2 - 90.1 (15.3)"
[1] "hr=" "1.3"
D29V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  6(5Q14.2) MUTATED         0        0        2         6        25
  DEL PEAK  6(5Q14.2) WILD-TYPE       1        5       13        24        96
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  6(5Q14.2) MUTATED           2        0
  DEL PEAK  6(5Q14.2) WILD-TYPE         3        5
D29V3, multiclass
           clus
vv          DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            2                            13
  STAGE IIA                           6                            24
  STAGE IIB                          25                            96
  STAGE III                           2                             3
  STAGE IV                            0                             5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  DEL PEAK  6(5Q14.2) MUTATED     0   4  30   1
  DEL PEAK  6(5Q14.2) WILD-TYPE   7  20 117   3
D29V4, multiclass
    clus
vv   DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE
  T1                           0                             7
  T2                           4                            20
  T3                          30                           117
  T4                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V5, binary
                               cls
clus                              0   1
  DEL PEAK  6(5Q14.2) MUTATED     9  26
  DEL PEAK  6(5Q14.2) WILD-TYPE  41 103
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(5Q14.2) MUTATED      9   26
  DEL PEAK  6(5Q14.2) WILD-TYPE   41  103
   clus
vv  DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE
  0                           9                            41
  1                          26                           103
[1] 2 2
[1] FALSE
D29V6, binary
                               cls
clus                             0  1
  DEL PEAK  6(5Q14.2) MUTATED   16  0
  DEL PEAK  6(5Q14.2) WILD-TYPE 69  5
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(5Q14.2) MUTATED     16    0
  DEL PEAK  6(5Q14.2) WILD-TYPE   69    5
   clus
vv  DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE
  0                          16                            69
  1                           0                             5
[1] 2 2
[1] FALSE
D29V7, binary
                               cls
clus                             0  1
  DEL PEAK  6(5Q14.2) MUTATED   17 18
  DEL PEAK  6(5Q14.2) WILD-TYPE 66 83
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(5Q14.2) MUTATED     17   18
  DEL PEAK  6(5Q14.2) WILD-TYPE   66   83
        clus
vv       DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE
  FEMALE                          17                            66
  MALE                            18                            83
[1] 2 2
[1] FALSE
D29V8, binary
                               cls
clus                              0   1
  DEL PEAK  6(5Q14.2) MUTATED    22  11
  DEL PEAK  6(5Q14.2) WILD-TYPE 103  33
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(5Q14.2) MUTATED     22   11
  DEL PEAK  6(5Q14.2) WILD-TYPE  103   33
     clus
vv    DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE
  NO                           22                           103
  YES                          11                            33
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  6(5Q14.2) MUTATED                                    32
  DEL PEAK  6(5Q14.2) WILD-TYPE                                 121
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  6(5Q14.2) MUTATED                                       2
  DEL PEAK  6(5Q14.2) WILD-TYPE                                    23
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  6(5Q14.2) MUTATED                                                  0
  DEL PEAK  6(5Q14.2) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  6(5Q14.2) MUTATED                                     1
  DEL PEAK  6(5Q14.2) WILD-TYPE                                   0
D29V9, multiclass
                                                  clus
vv                                                 DEL PEAK  6(5Q14.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       32
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK  6(5Q14.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        121
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       23
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V10, continuous
D29V11, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  6(5Q14.2) MUTATED   20 12  1  1
  DEL PEAK  6(5Q14.2) WILD-TYPE 91 41  4  3
D29V12, multiclass
    clus
vv   DEL PEAK  6(5Q14.2) MUTATED DEL PEAK  6(5Q14.2) WILD-TYPE
  R0                          20                            91
  R1                          12                            41
  R2                           1                             4
  RX                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  6(5Q14.2) MUTATED       4                         1    29
  DEL PEAK  6(5Q14.2) WILD-TYPE     7                         6   132
D29V14, multiclass
                           clus
vv                          DEL PEAK  6(5Q14.2) MUTATED
  ASIAN                                               4
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              29
                           clus
vv                          DEL PEAK  6(5Q14.2) WILD-TYPE
  ASIAN                                                 7
  BLACK OR AFRICAN AMERICAN                             6
  WHITE                                               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V15, binary
                               cls
clus                              0   1
  DEL PEAK  6(5Q14.2) MUTATED     3  24
  DEL PEAK  6(5Q14.2) WILD-TYPE   2 112
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(5Q14.2) MUTATED      3   24
  DEL PEAK  6(5Q14.2) WILD-TYPE    2  112
                        clus
vv                       DEL PEAK  6(5Q14.2) MUTATED
  HISPANIC OR LATINO                               3
  NOT HISPANIC OR LATINO                          24
                        clus
vv                       DEL PEAK  6(5Q14.2) WILD-TYPE
  HISPANIC OR LATINO                                 2
  NOT HISPANIC OR LATINO                           112
[1] 2 2
[1] FALSE

Clustering(30) Variable = DEL PEAK  7(6P25.2) MUTATION ANALYSIS
D30V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  7(6P25.2) MUTATED   30 44
  DEL PEAK  7(6P25.2) WILD-TYPE 53 56
  DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE 
                           74                           109 
  DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE 
                           44                            56 
$`DEL PEAK  7(6P25.2) MUTATED`
TCGA-3A-A9IL TCGA-FZ-5924 TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
       90.12        15.78        21.73        21.60         1.08        15.65 
TCGA-IB-A5SS TCGA-LB-A7SX TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABA TCGA-2J-AABH 
       15.12        12.92         2.17        23.97        19.96        42.31 
TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE 
       31.86        14.47        15.22         9.11         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQM TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IS 
        3.39        45.47         7.36        24.26        33.57        32.81 
TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-AAPP 
       71.74        10.98        19.27        17.00        24.07        15.95 
TCGA-FB-AAPQ TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5919 
       37.15        34.82        15.55         4.04         5.03        24.36 
TCGA-FZ-5920 TCGA-FZ-5921 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A6 
        2.01         5.10        12.89        22.06         4.21        66.94 
TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 
        8.28        30.25        17.49        31.86        19.50         0.13 
TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-A77O TCGA-HZ-A77P TCGA-IB-7646 TCGA-IB-7647 
       23.21         9.83         5.26        10.85         4.77        21.90 
TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7893 TCGA-IB-8127 
        4.04         3.62        15.81        19.66         3.85        17.16 
TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUU 
       15.85        21.90         1.35         4.73         7.86         8.05 
TCGA-PZ-A5RE TCGA-Q3-AA2A TCGA-S4-A8RM TCGA-US-A779 TCGA-US-A77G TCGA-XN-A8T3 
       15.45         3.12        24.23        16.80         0.39        31.27 
TCGA-YB-A89D TCGA-YY-A8LH 
       11.51        66.28 

$`DEL PEAK  7(6P25.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-H6-A45N TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB6 TCGA-2J-AAB8 
       13.84        17.26        14.14        16.37         9.63         2.63 
TCGA-2J-AAB9 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABK TCGA-2J-AABV TCGA-2L-AAQJ 
       20.61        22.22        22.72        15.91        21.44        12.95 
TCGA-2L-AAQL TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
        9.60        43.50        20.84        68.52        63.85        50.70 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY 
       15.06        36.26        34.09        10.13        24.43        75.12 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A5VM 
        9.70        19.46         7.10         3.12         5.88        16.37 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ3 
       12.33        11.61         7.50        12.53        23.54         1.02 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OP 
       36.20        20.35        17.79         7.63         9.50        32.15 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8002 
        7.76        10.32        27.62        20.19        17.03        12.03 
TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 
       19.59         3.95        12.43        14.93        17.92        17.00 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A8P1 
        4.96        21.70        16.14        10.13         6.38         0.23 
TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
       19.82        12.95        49.38        15.35        19.82        36.69 
TCGA-IB-7885 TCGA-IB-7888 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO 
       41.33        43.79        30.02        15.98        15.19        12.00 
TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
        7.20        20.88         8.22        15.88         0.26        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        6.02        11.11         7.40         9.44        13.28         7.56 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-Q3-A5QY 
        9.14        12.46        10.29        19.20         8.78        13.68 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 
       15.32         9.40         0.30        23.08        22.85        39.98 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T5 TCGA-YH-A8SY 
       18.67        13.81        12.99        12.03        23.67        12.76 
TCGA-Z5-AAPL 
       15.35 

  DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE 
                        90.12                         75.12 
  DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE 
                       15.795                        14.930 
[1] "0.1 - 90.1 (15.8)" "0.2 - 75.1 (14.9)"
[1] "hr=" "1.1"
D30V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  7(6P25.2) MUTATED         1        1        5        13        53
  DEL PEAK  7(6P25.2) WILD-TYPE       0        4       10        17        68
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  7(6P25.2) MUTATED           1        0
  DEL PEAK  7(6P25.2) WILD-TYPE         4        5
D30V3, multiclass
           clus
vv          DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            1                             4
  STAGE IB                            5                            10
  STAGE IIA                          13                            17
  STAGE IIB                          53                            68
  STAGE III                           1                             4
  STAGE IV                            0                             5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            T1 T2 T3 T4
  DEL PEAK  7(6P25.2) MUTATED    2  9 62  1
  DEL PEAK  7(6P25.2) WILD-TYPE  5 15 85  3
D30V4, multiclass
    clus
vv   DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE
  T1                           2                             5
  T2                           9                            15
  T3                          62                            85
  T4                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V5, binary
                               cls
clus                             0  1
  DEL PEAK  7(6P25.2) MUTATED   17 55
  DEL PEAK  7(6P25.2) WILD-TYPE 33 74
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(6P25.2) MUTATED     17   55
  DEL PEAK  7(6P25.2) WILD-TYPE   33   74
   clus
vv  DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE
  0                          17                            33
  1                          55                            74
[1] 2 2
[1] FALSE
D30V6, binary
                               cls
clus                             0  1
  DEL PEAK  7(6P25.2) MUTATED   37  0
  DEL PEAK  7(6P25.2) WILD-TYPE 48  5
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(6P25.2) MUTATED     37    0
  DEL PEAK  7(6P25.2) WILD-TYPE   48    5
   clus
vv  DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE
  0                          37                            48
  1                           0                             5
[1] 2 2
[1] FALSE
D30V7, binary
                               cls
clus                             0  1
  DEL PEAK  7(6P25.2) MUTATED   28 46
  DEL PEAK  7(6P25.2) WILD-TYPE 55 55
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(6P25.2) MUTATED     28   46
  DEL PEAK  7(6P25.2) WILD-TYPE   55   55
        clus
vv       DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE
  FEMALE                          28                            55
  MALE                            46                            55
[1] 2 2
[1] FALSE
D30V8, binary
                               cls
clus                             0  1
  DEL PEAK  7(6P25.2) MUTATED   53 15
  DEL PEAK  7(6P25.2) WILD-TYPE 72 29
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(6P25.2) MUTATED     53   15
  DEL PEAK  7(6P25.2) WILD-TYPE   72   29
     clus
vv    DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE
  NO                           53                            72
  YES                          15                            29
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  7(6P25.2) MUTATED                                    60
  DEL PEAK  7(6P25.2) WILD-TYPE                                  93
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  7(6P25.2) MUTATED                                      13
  DEL PEAK  7(6P25.2) WILD-TYPE                                    12
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  7(6P25.2) MUTATED                                                  0
  DEL PEAK  7(6P25.2) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  7(6P25.2) MUTATED                                     1
  DEL PEAK  7(6P25.2) WILD-TYPE                                   0
D30V9, multiclass
                                                  clus
vv                                                 DEL PEAK  7(6P25.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       60
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK  7(6P25.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         93
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       12
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V10, continuous
D30V11, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  7(6P25.2) MUTATED   41 22  3  2
  DEL PEAK  7(6P25.2) WILD-TYPE 70 31  2  2
D30V12, multiclass
    clus
vv   DEL PEAK  7(6P25.2) MUTATED DEL PEAK  7(6P25.2) WILD-TYPE
  R0                          41                            70
  R1                          22                            31
  R2                           3                             2
  RX                           2                             2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  7(6P25.2) MUTATED       5                         2    65
  DEL PEAK  7(6P25.2) WILD-TYPE     6                         5    96
D30V14, multiclass
                           clus
vv                          DEL PEAK  7(6P25.2) MUTATED
  ASIAN                                               5
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              65
                           clus
vv                          DEL PEAK  7(6P25.2) WILD-TYPE
  ASIAN                                                 6
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V15, binary
                               cls
clus                             0  1
  DEL PEAK  7(6P25.2) MUTATED    2 51
  DEL PEAK  7(6P25.2) WILD-TYPE  3 85
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(6P25.2) MUTATED      2   51
  DEL PEAK  7(6P25.2) WILD-TYPE    3   85
                        clus
vv                       DEL PEAK  7(6P25.2) MUTATED
  HISPANIC OR LATINO                               2
  NOT HISPANIC OR LATINO                          51
                        clus
vv                       DEL PEAK  7(6P25.2) WILD-TYPE
  HISPANIC OR LATINO                                 3
  NOT HISPANIC OR LATINO                            85
[1] 2 2
[1] FALSE

Clustering(31) Variable = DEL PEAK  8(6P22.2) MUTATION ANALYSIS
D31V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  8(6P22.2) MUTATED   29 41
  DEL PEAK  8(6P22.2) WILD-TYPE 54 59
  DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE 
                           70                           113 
  DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE 
                           41                            59 
$`DEL PEAK  8(6P22.2) MUTATED`
TCGA-3A-A9IL TCGA-FZ-5924 TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-A5SS 
       90.12        15.78        21.73        21.60         1.08        15.12 
TCGA-LB-A7SX TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABA TCGA-2J-AABH TCGA-2J-AABI 
       12.92         2.17        23.97        19.96        42.31        31.86 
TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       14.47        15.22         9.11         4.70        22.49         3.39 
TCGA-2L-AAQM TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IS TCGA-3E-AAAZ 
       45.47         7.36        24.26        33.57        32.81        71.74 
TCGA-F2-6879 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPY 
       10.98        19.27        17.00        24.07        15.95        34.82 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 
       15.55         4.04         5.03        24.36         2.01         5.10 
TCGA-H6-8124 TCGA-HV-A5A3 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HZ-7918 
       12.89         4.21        66.94         8.28        30.25        31.86 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-A77O 
       19.50         0.13        20.19        23.21         9.83         5.26 
TCGA-HZ-A77P TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-7890 
       10.85         4.77        21.90         4.04        15.81        19.66 
TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUN 
        3.85        17.16        15.85        21.90         1.35         4.73 
TCGA-IB-AAUO TCGA-IB-AAUU TCGA-PZ-A5RE TCGA-Q3-AA2A TCGA-US-A779 TCGA-US-A77G 
        7.86         8.05        15.45         3.12        16.80         0.39 
TCGA-XN-A8T3 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH 
       31.27        11.51        12.76        66.28 

$`DEL PEAK  8(6P22.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-H6-A45N TCGA-IB-7654 TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB6 
       13.84        15.65        17.26        14.14        16.37         9.63 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABK TCGA-2J-AABV 
        2.63        20.61        22.22        22.72        15.91        21.44 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IN TCGA-3A-A9IO 
       12.95         9.60        43.50        20.84        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 
       50.70        15.06        36.26        34.09        10.13        24.43 
TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A7TX TCGA-FB-A4P5 
       75.12         9.70        19.46         7.10         3.12         5.88 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       16.37        12.33        11.61        37.15         7.50        12.53 
TCGA-FB-AAPZ TCGA-FB-AAQ3 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H8-A6C1 
       23.54         1.02        36.20        20.35        17.79        22.06 
TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OP TCGA-HV-AA8X TCGA-HZ-7920 TCGA-HZ-7923 
        7.63         9.50        32.15        17.49         7.76        10.32 
TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8317 
       27.62        17.03        12.03        19.59         3.95        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       14.93        17.92        17.00         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 
       10.13         6.38         0.23        19.82        12.95        49.38 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 
       15.35        19.82        36.69        41.33         3.62        43.79 
TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST 
       30.02        15.98        15.19        12.00         7.20        20.88 
TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
        8.22        15.88         0.26        14.17         6.02        11.11 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 
        7.40         9.44        13.28         7.56         9.14        12.46 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M 
       10.29        19.20         8.78        13.68        15.32         9.40 
TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A77J 
        0.30        24.23        23.08        22.85        39.98        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T5 TCGA-Z5-AAPL 
       13.81        12.99        12.03        23.67        15.35 

  DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE 
                        90.12                         75.12 
  DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE 
                       15.665                        15.190 
[1] "0.1 - 90.1 (15.7)" "0.2 - 75.1 (15.2)"
[1] "hr=" "1.1"
D31V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  8(6P22.2) MUTATED         1        1        5        12        49
  DEL PEAK  8(6P22.2) WILD-TYPE       0        4       10        18        72
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  8(6P22.2) MUTATED           2        0
  DEL PEAK  8(6P22.2) WILD-TYPE         3        5
D31V3, multiclass
           clus
vv          DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            1                             4
  STAGE IB                            5                            10
  STAGE IIA                          12                            18
  STAGE IIB                          49                            72
  STAGE III                           2                             3
  STAGE IV                            0                             5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            T1 T2 T3 T4
  DEL PEAK  8(6P22.2) MUTATED    2  7 60  1
  DEL PEAK  8(6P22.2) WILD-TYPE  5 17 87  3
D31V4, multiclass
    clus
vv   DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE
  T1                           2                             5
  T2                           7                            17
  T3                          60                            87
  T4                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V5, binary
                               cls
clus                             0  1
  DEL PEAK  8(6P22.2) MUTATED   16 52
  DEL PEAK  8(6P22.2) WILD-TYPE 34 77
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(6P22.2) MUTATED     16   52
  DEL PEAK  8(6P22.2) WILD-TYPE   34   77
   clus
vv  DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE
  0                          16                            34
  1                          52                            77
[1] 2 2
[1] FALSE
D31V6, binary
                               cls
clus                             0  1
  DEL PEAK  8(6P22.2) MUTATED   35  0
  DEL PEAK  8(6P22.2) WILD-TYPE 50  5
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(6P22.2) MUTATED     35    0
  DEL PEAK  8(6P22.2) WILD-TYPE   50    5
   clus
vv  DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE
  0                          35                            50
  1                           0                             5
[1] 2 2
[1] FALSE
D31V7, binary
                               cls
clus                             0  1
  DEL PEAK  8(6P22.2) MUTATED   27 43
  DEL PEAK  8(6P22.2) WILD-TYPE 56 58
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(6P22.2) MUTATED     27   43
  DEL PEAK  8(6P22.2) WILD-TYPE   56   58
        clus
vv       DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE
  FEMALE                          27                            56
  MALE                            43                            58
[1] 2 2
[1] FALSE
D31V8, binary
                               cls
clus                             0  1
  DEL PEAK  8(6P22.2) MUTATED   48 16
  DEL PEAK  8(6P22.2) WILD-TYPE 77 28
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(6P22.2) MUTATED     48   16
  DEL PEAK  8(6P22.2) WILD-TYPE   77   28
     clus
vv    DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE
  NO                           48                            77
  YES                          16                            28
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  8(6P22.2) MUTATED                                    56
  DEL PEAK  8(6P22.2) WILD-TYPE                                  97
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  8(6P22.2) MUTATED                                      12
  DEL PEAK  8(6P22.2) WILD-TYPE                                    13
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  8(6P22.2) MUTATED                                                  0
  DEL PEAK  8(6P22.2) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  8(6P22.2) MUTATED                                     1
  DEL PEAK  8(6P22.2) WILD-TYPE                                   0
D31V9, multiclass
                                                  clus
vv                                                 DEL PEAK  8(6P22.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       56
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     12
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK  8(6P22.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         97
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V10, continuous
D31V11, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  8(6P22.2) MUTATED   38 21  2  2
  DEL PEAK  8(6P22.2) WILD-TYPE 73 32  3  2
D31V12, multiclass
    clus
vv   DEL PEAK  8(6P22.2) MUTATED DEL PEAK  8(6P22.2) WILD-TYPE
  R0                          38                            73
  R1                          21                            32
  R2                           2                             3
  RX                           2                             2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  8(6P22.2) MUTATED       4                         2    62
  DEL PEAK  8(6P22.2) WILD-TYPE     7                         5    99
D31V14, multiclass
                           clus
vv                          DEL PEAK  8(6P22.2) MUTATED
  ASIAN                                               4
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              62
                           clus
vv                          DEL PEAK  8(6P22.2) WILD-TYPE
  ASIAN                                                 7
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V15, binary
                               cls
clus                             0  1
  DEL PEAK  8(6P22.2) MUTATED    2 48
  DEL PEAK  8(6P22.2) WILD-TYPE  3 88
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(6P22.2) MUTATED      2   48
  DEL PEAK  8(6P22.2) WILD-TYPE    3   88
                        clus
vv                       DEL PEAK  8(6P22.2) MUTATED
  HISPANIC OR LATINO                               2
  NOT HISPANIC OR LATINO                          48
                        clus
vv                       DEL PEAK  8(6P22.2) WILD-TYPE
  HISPANIC OR LATINO                                 3
  NOT HISPANIC OR LATINO                            88
[1] 2 2
[1] FALSE

Clustering(32) Variable = DEL PEAK  9(6Q25.3) MUTATION ANALYSIS
D32V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  9(6Q25.3) MUTATED   33 57
  DEL PEAK  9(6Q25.3) WILD-TYPE 50 43
  DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE 
                           90                            93 
  DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE 
                           57                            43 
$`DEL PEAK  9(6Q25.3) MUTATED`
TCGA-3A-A9IL TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A77Q 
       90.12         8.02        15.78        13.84        21.73         1.08 
TCGA-IB-A5SS TCGA-LB-A7SX TCGA-2J-AAB1 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABH 
       15.12        12.92         2.17        19.96        22.22        42.31 
TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       31.86        14.47         9.11         4.70        22.49         3.39 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH 
        9.60        45.47        20.84         7.36        24.26        33.57 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAZ TCGA-F2-6879 
       32.81        15.06        34.09        10.13        71.74        10.98 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPY TCGA-FB-AAPZ 
       19.27        17.00        24.07        15.95        34.82        23.54 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 
       15.55         4.04         5.03         1.02        24.36         2.01 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-H6-8124 TCGA-HV-A5A3 TCGA-HV-A7OL TCGA-HV-AA8V 
        5.10        36.20        12.89         4.21         8.28        30.25 
TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8001 
       17.49        31.86        19.50         0.13        20.19        23.21 
TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P 
        3.95         9.83        17.92         6.38         5.26        10.85 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7885 TCGA-IB-7886 
       12.95        49.38         4.77        21.90        41.33         4.04 
TCGA-IB-7887 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP 
        3.62        15.81        19.66         3.85        17.16        15.85 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUU 
       21.90         1.35         8.22         4.73         7.86         8.05 
TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A776 
       19.20         8.78        15.45        24.23        23.08        39.98 
TCGA-US-A779 TCGA-US-A77G TCGA-XN-A8T3 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH 
       16.80         0.39        31.27        11.51        12.76        66.28 

$`DEL PEAK  9(6Q25.3) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-HZ-A4BK 
       14.40        10.49        58.98        60.95         7.66        21.60 
TCGA-IB-7654 TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB4 TCGA-2J-AAB6 
       15.65        17.26        14.14        16.37        23.97         9.63 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABF TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABV 
        2.63        20.61        22.72        15.91        15.22        21.44 
TCGA-2L-AAQJ TCGA-3A-A9I7 TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IV 
       12.95        43.50        68.52        63.85        50.70        36.26 
TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A7TX 
       24.43        75.12         9.70        19.46         7.10         3.12 
TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS 
        5.88        16.37        12.33        11.61        37.15         7.50 
TCGA-FB-AAPU TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A5A5 
       12.53        20.35        17.79        22.06         7.63         9.50 
TCGA-HV-A5A6 TCGA-HV-A7OP TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 
       66.94        32.15         7.76        10.32        27.62        17.03 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 
       12.03        19.59        12.43        14.93        17.00         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7649 
       21.70        16.14        10.13         0.23        19.82        15.35 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7888 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 
       19.82        36.69        43.79        30.02        15.98        15.19 
TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
       12.00         7.20        20.88        15.88         0.26        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        6.02        11.11         7.40         9.44        13.28         7.56 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
        9.14        12.46        10.29        13.68         3.12        15.32 
TCGA-RB-AA9M TCGA-RL-AAAS TCGA-US-A774 TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
        9.40         0.30        22.85        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XN-A8T5 TCGA-Z5-AAPL 
       12.03        23.67        15.35 

  DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE 
                        90.12                         75.12 
  DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE 
                       15.665                        15.220 
[1] "0.1 - 90.1 (15.7)" "0.2 - 75.1 (15.2)"
[1] "hr=" "1.4"
D32V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  9(6Q25.3) MUTATED         1        3        4        18        61
  DEL PEAK  9(6Q25.3) WILD-TYPE       0        2       11        12        60
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  9(6Q25.3) MUTATED           2        2
  DEL PEAK  9(6Q25.3) WILD-TYPE         3        3
D32V3, multiclass
           clus
vv          DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            3                             2
  STAGE IB                            4                            11
  STAGE IIA                          18                            12
  STAGE IIB                          61                            60
  STAGE III                           2                             3
  STAGE IV                            2                             3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            T1 T2 T3 T4
  DEL PEAK  9(6Q25.3) MUTATED    4  8 78  1
  DEL PEAK  9(6Q25.3) WILD-TYPE  3 16 69  3
D32V4, multiclass
    clus
vv   DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE
  T1                           4                             3
  T2                           8                            16
  T3                          78                            69
  T4                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V5, binary
                               cls
clus                             0  1
  DEL PEAK  9(6Q25.3) MUTATED   25 64
  DEL PEAK  9(6Q25.3) WILD-TYPE 25 65
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6Q25.3) MUTATED     25   64
  DEL PEAK  9(6Q25.3) WILD-TYPE   25   65
   clus
vv  DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE
  0                          25                            25
  1                          64                            65
[1] 2 2
[1] FALSE
D32V6, binary
                               cls
clus                             0  1
  DEL PEAK  9(6Q25.3) MUTATED   39  2
  DEL PEAK  9(6Q25.3) WILD-TYPE 46  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6Q25.3) MUTATED     39    2
  DEL PEAK  9(6Q25.3) WILD-TYPE   46    3
   clus
vv  DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE
  0                          39                            46
  1                           2                             3
[1] 2 2
[1] FALSE
D32V7, binary
                               cls
clus                             0  1
  DEL PEAK  9(6Q25.3) MUTATED   34 57
  DEL PEAK  9(6Q25.3) WILD-TYPE 49 44
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6Q25.3) MUTATED     34   57
  DEL PEAK  9(6Q25.3) WILD-TYPE   49   44
        clus
vv       DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE
  FEMALE                          34                            49
  MALE                            57                            44
[1] 2 2
[1] FALSE
D32V8, binary
                               cls
clus                             0  1
  DEL PEAK  9(6Q25.3) MUTATED   61 21
  DEL PEAK  9(6Q25.3) WILD-TYPE 64 23
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6Q25.3) MUTATED     61   21
  DEL PEAK  9(6Q25.3) WILD-TYPE   64   23
     clus
vv    DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE
  NO                           61                            64
  YES                          21                            23
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  9(6Q25.3) MUTATED                                    78
  DEL PEAK  9(6Q25.3) WILD-TYPE                                  75
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  9(6Q25.3) MUTATED                                      11
  DEL PEAK  9(6Q25.3) WILD-TYPE                                    14
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  9(6Q25.3) MUTATED                                                  1
  DEL PEAK  9(6Q25.3) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  9(6Q25.3) MUTATED                                     0
  DEL PEAK  9(6Q25.3) WILD-TYPE                                   1
D32V9, multiclass
                                                  clus
vv                                                 DEL PEAK  9(6Q25.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       78
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     11
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK  9(6Q25.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         75
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       14
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V10, continuous
D32V11, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  9(6Q25.3) MUTATED   51 27  3  2
  DEL PEAK  9(6Q25.3) WILD-TYPE 60 26  2  2
D32V12, multiclass
    clus
vv   DEL PEAK  9(6Q25.3) MUTATED DEL PEAK  9(6Q25.3) WILD-TYPE
  R0                          51                            60
  R1                          27                            26
  R2                           3                             2
  RX                           2                             2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  9(6Q25.3) MUTATED       4                         2    81
  DEL PEAK  9(6Q25.3) WILD-TYPE     7                         5    80
D32V14, multiclass
                           clus
vv                          DEL PEAK  9(6Q25.3) MUTATED
  ASIAN                                               4
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              81
                           clus
vv                          DEL PEAK  9(6Q25.3) WILD-TYPE
  ASIAN                                                 7
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                                80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V15, binary
                               cls
clus                             0  1
  DEL PEAK  9(6Q25.3) MUTATED    3 64
  DEL PEAK  9(6Q25.3) WILD-TYPE  2 72
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6Q25.3) MUTATED      3   64
  DEL PEAK  9(6Q25.3) WILD-TYPE    2   72
                        clus
vv                       DEL PEAK  9(6Q25.3) MUTATED
  HISPANIC OR LATINO                               3
  NOT HISPANIC OR LATINO                          64
                        clus
vv                       DEL PEAK  9(6Q25.3) WILD-TYPE
  HISPANIC OR LATINO                                 2
  NOT HISPANIC OR LATINO                            72
[1] 2 2
[1] FALSE

Clustering(33) Variable = DEL PEAK 10(7Q31.1) MUTATION ANALYSIS
D33V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 10(7Q31.1) MUTATED    7  8
  DEL PEAK 10(7Q31.1) WILD-TYPE 76 92
  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE 
                           15                           168 
  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE 
                            8                            92 
$`DEL PEAK 10(7Q31.1) MUTATED`
TCGA-2J-AABP TCGA-FB-AAQ0 TCGA-FZ-5919 TCGA-H6-8124 TCGA-HV-A5A6 TCGA-HZ-7922 
       15.22        15.55        24.36        12.89        66.94         0.13 
TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A9TJ TCGA-IB-7646 TCGA-IB-7890 TCGA-IB-A7LX 
        6.38         5.26        19.82         4.77        19.66         8.22 
TCGA-LB-A8F3 TCGA-PZ-A5RE TCGA-XN-A8T3 
       12.46        15.45        31.27 

$`DEL PEAK 10(7Q31.1) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL 
       15.65        15.12        12.92        17.26        14.14        16.37 
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA 
        2.17        23.97         9.63         2.63        20.61        19.96 
TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO 
       22.22        22.72        42.31        31.86        15.91        14.47 
TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ 
        9.11        21.44         4.70        22.49         3.39        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
        9.60        45.47        43.50        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
       33.57        68.52        63.85        50.70        32.81        15.06 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       36.26        34.09        10.13        24.43        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX 
       10.98         9.70        19.46         7.10        19.27         3.12 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR 
       17.00         5.88        24.07        16.37        12.33        11.61 
TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ 
       15.95        37.15         7.50        12.53        34.82        23.54 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        4.04         5.03         1.02         2.01         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 
       20.35        17.79        22.06         4.21         7.63         9.50 
TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 
        8.28        32.15        30.25        17.49        31.86        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76        10.32        27.62        20.19        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
       12.03        19.59         3.95         9.83        12.43        14.93 
TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       17.92        17.00         4.96        21.70        16.14        10.13 
TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 
       10.85         0.23        12.95        49.38        21.90        15.35 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 
       19.82        36.69        41.33         4.04         3.62        43.79 
TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 
       15.81        30.02         3.85        15.98        15.19        17.16 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
       12.00        15.85         7.20        20.88        21.90         1.35 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ 
       15.88         0.26         4.73         7.86        14.17         6.02 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
       11.11         7.40         9.44         8.05        13.28         7.56 
TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-Q3-A5QY TCGA-Q3-AA2A 
        9.14        10.29        19.20         8.78        13.68         3.12 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 
       15.32         9.40         0.30        24.23        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       39.98        16.80         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        23.67        11.51        12.76        66.28        15.35 

  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE 
                        66.94                         90.12 
  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE 
                        15.22                         15.35 
[1] "0.1 - 66.9 (15.2)" "0.2 - 90.1 (15.3)"
[1] "hr=" "1.1"
D33V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 10(7Q31.1) MUTATED         0        0        2         2        10
  DEL PEAK 10(7Q31.1) WILD-TYPE       1        5       13        28       111
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 10(7Q31.1) MUTATED           0        1
  DEL PEAK 10(7Q31.1) WILD-TYPE         5        4
D33V3, multiclass
           clus
vv          DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            2                            13
  STAGE IIA                           2                            28
  STAGE IIB                          10                           111
  STAGE III                           0                             5
  STAGE IV                            1                             4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  DEL PEAK 10(7Q31.1) MUTATED     0   3  12   0
  DEL PEAK 10(7Q31.1) WILD-TYPE   7  21 135   4
D33V4, multiclass
    clus
vv   DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE
  T1                           0                             7
  T2                           3                            21
  T3                          12                           135
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V5, binary
                               cls
clus                              0   1
  DEL PEAK 10(7Q31.1) MUTATED     5  10
  DEL PEAK 10(7Q31.1) WILD-TYPE  45 119
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(7Q31.1) MUTATED      5   10
  DEL PEAK 10(7Q31.1) WILD-TYPE   45  119
   clus
vv  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE
  0                           5                            45
  1                          10                           119
[1] 2 2
[1] FALSE
D33V6, binary
                               cls
clus                             0  1
  DEL PEAK 10(7Q31.1) MUTATED    6  1
  DEL PEAK 10(7Q31.1) WILD-TYPE 79  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(7Q31.1) MUTATED      6    1
  DEL PEAK 10(7Q31.1) WILD-TYPE   79    4
   clus
vv  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE
  0                           6                            79
  1                           1                             4
[1] 2 2
[1] FALSE
D33V7, binary
                               cls
clus                             0  1
  DEL PEAK 10(7Q31.1) MUTATED    8  7
  DEL PEAK 10(7Q31.1) WILD-TYPE 75 94
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(7Q31.1) MUTATED      8    7
  DEL PEAK 10(7Q31.1) WILD-TYPE   75   94
        clus
vv       DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE
  FEMALE                           8                            75
  MALE                             7                            94
[1] 2 2
[1] FALSE
D33V8, binary
                               cls
clus                              0   1
  DEL PEAK 10(7Q31.1) MUTATED     9   4
  DEL PEAK 10(7Q31.1) WILD-TYPE 116  40
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(7Q31.1) MUTATED      9    4
  DEL PEAK 10(7Q31.1) WILD-TYPE  116   40
     clus
vv    DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE
  NO                            9                           116
  YES                           4                            40
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 10(7Q31.1) MUTATED                                    13
  DEL PEAK 10(7Q31.1) WILD-TYPE                                 140
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 10(7Q31.1) MUTATED                                       1
  DEL PEAK 10(7Q31.1) WILD-TYPE                                    24
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 10(7Q31.1) MUTATED                                                  0
  DEL PEAK 10(7Q31.1) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 10(7Q31.1) MUTATED                                     1
  DEL PEAK 10(7Q31.1) WILD-TYPE                                   0
D33V9, multiclass
                                                  clus
vv                                                 DEL PEAK 10(7Q31.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       13
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK 10(7Q31.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        140
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       24
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V10, continuous
[1] "Remove cluster labels:"      "DEL PEAK 10(7Q31.1) MUTATED"
clus
  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE 
                            1                            55 
                   TCGA-3A-A9IJ                    TCGA-H6-A45N 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-HZ-A77Q                    TCGA-HZ-A8P0 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-A5SS                    TCGA-LB-A7SX 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-XD-AAUL                    TCGA-2J-AAB1 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-2J-AABA                    TCGA-2J-AABE 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-2J-AABF                    TCGA-2J-AABI 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-2J-AABO                    TCGA-2J-AABV 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-2L-AAQA                    TCGA-2L-AAQE 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-3A-A9I9                    TCGA-3A-A9IB 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-3A-A9IX                    TCGA-F2-6880 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-F2-A8YN                    TCGA-FB-A4P5 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-FB-A5VM                    TCGA-FB-A78T 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-FB-A7DR                    TCGA-FB-AAPQ 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-FB-AAPS                    TCGA-FB-AAPY 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-H8-A6C1                    TCGA-HV-AA8V 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-HZ-A8P1                    TCGA-IB-7644 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-7649                    TCGA-IB-7651 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-7885                    TCGA-IB-7886 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-7887                    TCGA-IB-7891 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-8126                    TCGA-IB-8127 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-A6UF                    TCGA-IB-A6UG 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-A7M4                    TCGA-IB-AAUQ 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-AAUS                    TCGA-IB-AAUT 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-AAUU                    TCGA-IB-AAUV 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-LB-A9Q5                    TCGA-OE-A75W 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-S4-A8RM                    TCGA-S4-A8RP 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-US-A774                    TCGA-XN-A8T5 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-YY-A8LH 
"DEL PEAK 10(7Q31.1) WILD-TYPE" 
D33V11, continuous
[1] "Remove cluster labels:"      "DEL PEAK 10(7Q31.1) MUTATED"
clus
  DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE 
                            1                            45 
                   TCGA-3A-A9IJ                    TCGA-HZ-A77Q 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-HZ-A8P0                    TCGA-IB-A5SS 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-LB-A7SX                    TCGA-XD-AAUL 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-2J-AAB1                    TCGA-2J-AABE 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-2J-AABF                    TCGA-2J-AABI 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-2J-AABO                    TCGA-3A-A9IB 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-3A-A9IR                    TCGA-3A-A9IX 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-FB-A4P5                    TCGA-FB-A5VM 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-FB-A78T                    TCGA-FB-A7DR 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-FB-AAPQ                    TCGA-FB-AAPS 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-FB-AAPY                    TCGA-H8-A6C1 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-HZ-A8P1                    TCGA-IB-7644 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-7649                    TCGA-IB-7651 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-7885                    TCGA-IB-7886 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-7891                    TCGA-IB-8126 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-8127                    TCGA-IB-A6UF 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-A6UG                    TCGA-IB-A7M4 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-AAUQ                    TCGA-IB-AAUS 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-IB-AAUT                    TCGA-IB-AAUV 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-LB-A9Q5                    TCGA-OE-A75W 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-S4-A8RM                    TCGA-US-A774 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-XD-AAUI                    TCGA-XN-A8T5 
"DEL PEAK 10(7Q31.1) WILD-TYPE" "DEL PEAK 10(7Q31.1) WILD-TYPE" 
                   TCGA-YY-A8LH 
"DEL PEAK 10(7Q31.1) WILD-TYPE" 
                               vv
clus                             R0  R1  R2  RX
  DEL PEAK 10(7Q31.1) MUTATED    10   3   0   0
  DEL PEAK 10(7Q31.1) WILD-TYPE 101  50   5   4
D33V12, multiclass
    clus
vv   DEL PEAK 10(7Q31.1) MUTATED DEL PEAK 10(7Q31.1) WILD-TYPE
  R0                          10                           101
  R1                           3                            50
  R2                           0                             5
  RX                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 10(7Q31.1) MUTATED       1                         1    12
  DEL PEAK 10(7Q31.1) WILD-TYPE    10                         6   149
D33V14, multiclass
                           clus
vv                          DEL PEAK 10(7Q31.1) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              12
                           clus
vv                          DEL PEAK 10(7Q31.1) WILD-TYPE
  ASIAN                                                10
  BLACK OR AFRICAN AMERICAN                             6
  WHITE                                               149
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V15, binary
                               cls
clus                              0   1
  DEL PEAK 10(7Q31.1) MUTATED     1  10
  DEL PEAK 10(7Q31.1) WILD-TYPE   4 126
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(7Q31.1) MUTATED      1   10
  DEL PEAK 10(7Q31.1) WILD-TYPE    4  126
                        clus
vv                       DEL PEAK 10(7Q31.1) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          10
                        clus
vv                       DEL PEAK 10(7Q31.1) WILD-TYPE
  HISPANIC OR LATINO                                 4
  NOT HISPANIC OR LATINO                           126
[1] 2 2
[1] FALSE

Clustering(34) Variable = DEL PEAK 11(7Q36.1) MUTATION ANALYSIS
D34V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 11(7Q36.1) MUTATED    7  8
  DEL PEAK 11(7Q36.1) WILD-TYPE 76 92
  DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE 
                           15                           168 
  DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE 
                            8                            92 
$`DEL PEAK 11(7Q36.1) MUTATED`
TCGA-XD-AAUL TCGA-FB-AAPQ TCGA-FB-AAPZ TCGA-FZ-5919 TCGA-H6-8124 TCGA-HV-A5A6 
       16.37        37.15        23.54        24.36        12.89        66.94 
TCGA-HZ-7922 TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A9TJ TCGA-IB-7646 TCGA-IB-7890 
        0.13         6.38         5.26        19.82         4.77        19.66 
TCGA-IB-A7LX TCGA-PZ-A5RE TCGA-XN-A8T3 
        8.22        15.45        31.27 

$`DEL PEAK 11(7Q36.1) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-2J-AAB1 
       15.65        15.12        12.92        17.26        14.14         2.17 
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE 
       23.97         9.63         2.63        20.61        19.96        22.22 
TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP 
       22.72        42.31        31.86        15.91        14.47        15.22 
TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ 
        9.11        21.44         4.70        22.49         3.39        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
        9.60        45.47        43.50        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
       33.57        68.52        63.85        50.70        32.81        15.06 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       36.26        34.09        10.13        24.43        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX 
       10.98         9.70        19.46         7.10        19.27         3.12 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR 
       17.00         5.88        24.07        16.37        12.33        11.61 
TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 
       15.95         7.50        12.53        34.82        15.55         4.04 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 
        5.03         1.02         2.01         5.10        36.20        20.35 
TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL 
       17.79        22.06         4.21         7.63         9.50         8.28 
TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 
       32.15        30.25        17.49        31.86        19.50         7.76 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
       10.32        27.62        20.19        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
       19.59         3.95         9.83        12.43        14.93        17.92 
TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77P 
       17.00         4.96        21.70        16.14        10.13        10.85 
TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 
        0.23        12.95        49.38        21.90        15.35        19.82 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       36.69        41.33         4.04         3.62        43.79        15.81 
TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO 
       30.02         3.85        15.98        15.19        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 
       15.85         7.20        20.88        21.90         1.35        15.88 
TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
        0.26         4.73         7.86        14.17         6.02        11.11 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
        7.40         9.44         8.05        13.28         7.56         9.14 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-Q3-A5QY TCGA-Q3-AA2A 
       12.46        10.29        19.20         8.78        13.68         3.12 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 
       15.32         9.40         0.30        24.23        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       39.98        16.80         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        23.67        11.51        12.76        66.28        15.35 

  DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE 
                        66.94                         90.12 
  DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE 
                        16.37                         15.27 
[1] "0.1 - 66.9 (16.4)" "0.2 - 90.1 (15.3)"
[1] "hr=" "1.1"
D34V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 11(7Q36.1) MUTATED         0        0        2         1        11
  DEL PEAK 11(7Q36.1) WILD-TYPE       1        5       13        29       110
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 11(7Q36.1) MUTATED           0        1
  DEL PEAK 11(7Q36.1) WILD-TYPE         5        4
D34V3, multiclass
           clus
vv          DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             5
  STAGE IB                            2                            13
  STAGE IIA                           1                            29
  STAGE IIB                          11                           110
  STAGE III                           0                             5
  STAGE IV                            1                             4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  DEL PEAK 11(7Q36.1) MUTATED     0   4  11   0
  DEL PEAK 11(7Q36.1) WILD-TYPE   7  20 136   4
D34V4, multiclass
    clus
vv   DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE
  T1                           0                             7
  T2                           4                            20
  T3                          11                           136
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V5, binary
                               cls
clus                              0   1
  DEL PEAK 11(7Q36.1) MUTATED     4  11
  DEL PEAK 11(7Q36.1) WILD-TYPE  46 118
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(7Q36.1) MUTATED      4   11
  DEL PEAK 11(7Q36.1) WILD-TYPE   46  118
   clus
vv  DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE
  0                           4                            46
  1                          11                           118
[1] 2 2
[1] FALSE
D34V6, binary
                               cls
clus                             0  1
  DEL PEAK 11(7Q36.1) MUTATED    5  1
  DEL PEAK 11(7Q36.1) WILD-TYPE 80  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(7Q36.1) MUTATED      5    1
  DEL PEAK 11(7Q36.1) WILD-TYPE   80    4
   clus
vv  DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE
  0                           5                            80
  1                           1                             4
[1] 2 2
[1] FALSE
D34V7, binary
                               cls
clus                             0  1
  DEL PEAK 11(7Q36.1) MUTATED    6  9
  DEL PEAK 11(7Q36.1) WILD-TYPE 77 92
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(7Q36.1) MUTATED      6    9
  DEL PEAK 11(7Q36.1) WILD-TYPE   77   92
        clus
vv       DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE
  FEMALE                           6                            77
  MALE                             9                            92
[1] 2 2
[1] FALSE
D34V8, binary
                               cls
clus                              0   1
  DEL PEAK 11(7Q36.1) MUTATED    10   3
  DEL PEAK 11(7Q36.1) WILD-TYPE 115  41
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(7Q36.1) MUTATED     10    3
  DEL PEAK 11(7Q36.1) WILD-TYPE  115   41
     clus
vv    DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE
  NO                           10                           115
  YES                           3                            41
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 11(7Q36.1) MUTATED                                    14
  DEL PEAK 11(7Q36.1) WILD-TYPE                                 139
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 11(7Q36.1) MUTATED                                       1
  DEL PEAK 11(7Q36.1) WILD-TYPE                                    24
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 11(7Q36.1) MUTATED                                                  0
  DEL PEAK 11(7Q36.1) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 11(7Q36.1) MUTATED                                     0
  DEL PEAK 11(7Q36.1) WILD-TYPE                                   1
D34V9, multiclass
                                                  clus
vv                                                 DEL PEAK 11(7Q36.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       14
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 11(7Q36.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        139
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       24
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V10, continuous
D34V11, continuous
                               vv
clus                             R0  R1  R2  RX
  DEL PEAK 11(7Q36.1) MUTATED    10   3   0   0
  DEL PEAK 11(7Q36.1) WILD-TYPE 101  50   5   4
D34V12, multiclass
    clus
vv   DEL PEAK 11(7Q36.1) MUTATED DEL PEAK 11(7Q36.1) WILD-TYPE
  R0                          10                           101
  R1                           3                            50
  R2                           0                             5
  RX                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 11(7Q36.1) MUTATED       1                         0    13
  DEL PEAK 11(7Q36.1) WILD-TYPE    10                         7   148
D34V14, multiclass
                           clus
vv                          DEL PEAK 11(7Q36.1) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              13
                           clus
vv                          DEL PEAK 11(7Q36.1) WILD-TYPE
  ASIAN                                                10
  BLACK OR AFRICAN AMERICAN                             7
  WHITE                                               148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V15, binary
                               cls
clus                              0   1
  DEL PEAK 11(7Q36.1) MUTATED     1  11
  DEL PEAK 11(7Q36.1) WILD-TYPE   4 125
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(7Q36.1) MUTATED      1   11
  DEL PEAK 11(7Q36.1) WILD-TYPE    4  125
                        clus
vv                       DEL PEAK 11(7Q36.1) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          11
                        clus
vv                       DEL PEAK 11(7Q36.1) WILD-TYPE
  HISPANIC OR LATINO                                 4
  NOT HISPANIC OR LATINO                           125
[1] 2 2
[1] FALSE

Clustering(35) Variable = DEL PEAK 12(8P21.3) MUTATION ANALYSIS
D35V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 12(8P21.3) MUTATED   27 35
  DEL PEAK 12(8P21.3) WILD-TYPE 56 65
  DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE 
                           62                           121 
  DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE 
                           35                            65 
$`DEL PEAK 12(8P21.3) MUTATED`
TCGA-3A-A9I5 TCGA-3A-A9IL TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-2J-AAB4 TCGA-2J-AAB6 
       58.98        90.12        21.73        21.60        23.97         9.63 
TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABP TCGA-2L-AAQE TCGA-2L-AAQI 
        2.63        22.22        42.31        15.22        22.49         3.39 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IR TCGA-3A-A9IX 
       20.84         7.36        24.26        33.57        50.70        34.09 
TCGA-3A-A9J0 TCGA-F2-6879 TCGA-F2-A8YN TCGA-FB-A7DR TCGA-FB-AAPU TCGA-FB-AAPZ 
       24.43        10.98        17.00        11.61        12.53        23.54 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5921 TCGA-FZ-5926 TCGA-HV-A5A3 TCGA-HV-A5A6 
        5.03         1.02         5.10        17.79         4.21        66.94 
TCGA-HV-AA8V TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8005 TCGA-HZ-8636 
       30.25        19.50         0.13        20.19         3.95        17.92 
TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7652 TCGA-IB-7886 
       10.85         0.23         4.77        21.90        36.69         4.04 
TCGA-IB-7887 TCGA-IB-7890 TCGA-IB-8127 TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX 
        3.62        19.66        17.16        21.90         1.35         8.22 
TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUQ TCGA-IB-AAUU TCGA-L1-A7W4 
       15.88         4.73         7.86         6.02         8.05         9.14 
TCGA-LB-A8F3 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-RB-AA9M TCGA-S4-A8RP TCGA-US-A776 
       12.46         8.78        15.45         9.40        23.08        39.98 
TCGA-XD-AAUI TCGA-XN-A8T3 
       12.03        31.27 

$`DEL PEAK 12(8P21.3) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-FZ-5924 
       14.40        10.49        60.95         7.66         8.02        15.78 
TCGA-H6-A45N TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO 
       13.84         1.08        15.65        15.12        12.92        17.26 
TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABF 
       14.14        16.37         2.17        20.61        19.96        22.72 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       31.86        15.91        14.47         9.11        21.44         4.70 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IN TCGA-3A-A9IO 
       12.95         9.60        45.47        43.50        68.52        63.85 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ 
       32.81        15.06        36.26        10.13        75.12        71.74 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-FB-A4P5 
        9.70        19.46         7.10        19.27         3.12         5.88 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS 
       24.07        16.37        12.33        15.95        37.15         7.50 
TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 
       34.82        15.55         4.04        24.36         2.01        36.20 
TCGA-FZ-5923 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL 
       20.35        12.89        22.06         7.63         9.50         8.28 
TCGA-HV-A7OP TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 
       32.15        17.49        31.86         7.76        10.32        27.62 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
       17.03        23.21        12.03        19.59         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       14.93        17.00         4.96        21.70        16.14        10.13 
TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7649 
        6.38         5.26        19.82        12.95        49.38        15.35 
TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7893 
       19.82        41.33        43.79        15.81        30.02         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST 
       15.98        15.19        12.00        15.85         7.20        20.88 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV 
        0.26        14.17        11.11         7.40         9.44        13.28 
TCGA-IB-AAUW TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
        7.56        10.29        19.20        13.68         3.12        15.32 
TCGA-RL-AAAS TCGA-S4-A8RM TCGA-US-A774 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J 
        0.30        24.23        22.85        16.80         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH 
       13.81        12.99        23.67        11.51        12.76        66.28 
TCGA-Z5-AAPL 
       15.35 

  DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE 
                         0.13                          0.26 
  DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE 
                        90.12                         75.12 
  DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE 
                       15.665                        15.320 
[1] "0.1 - 90.1 (15.7)" "0.3 - 75.1 (15.3)"
[1] "hr=" "1"  
D35V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 12(8P21.3) MUTATED         1        2        5        11        40
  DEL PEAK 12(8P21.3) WILD-TYPE       0        3       10        19        81
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 12(8P21.3) MUTATED           1        1
  DEL PEAK 12(8P21.3) WILD-TYPE         4        4
D35V3, multiclass
           clus
vv          DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            2                             3
  STAGE IB                            5                            10
  STAGE IIA                          11                            19
  STAGE IIB                          40                            81
  STAGE III                           1                             4
  STAGE IV                            1                             4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            T1 T2 T3 T4
  DEL PEAK 12(8P21.3) MUTATED    4  7 50  0
  DEL PEAK 12(8P21.3) WILD-TYPE  3 17 97  4
D35V4, multiclass
    clus
vv   DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE
  T1                           4                             3
  T2                           7                            17
  T3                          50                            97
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V5, binary
                               cls
clus                             0  1
  DEL PEAK 12(8P21.3) MUTATED   18 41
  DEL PEAK 12(8P21.3) WILD-TYPE 32 88
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(8P21.3) MUTATED     18   41
  DEL PEAK 12(8P21.3) WILD-TYPE   32   88
   clus
vv  DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE
  0                          18                            32
  1                          41                            88
[1] 2 2
[1] FALSE
D35V6, binary
                               cls
clus                             0  1
  DEL PEAK 12(8P21.3) MUTATED   30  1
  DEL PEAK 12(8P21.3) WILD-TYPE 55  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(8P21.3) MUTATED     30    1
  DEL PEAK 12(8P21.3) WILD-TYPE   55    4
   clus
vv  DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE
  0                          30                            55
  1                           1                             4
[1] 2 2
[1] FALSE
D35V7, binary
                               cls
clus                             0  1
  DEL PEAK 12(8P21.3) MUTATED   24 38
  DEL PEAK 12(8P21.3) WILD-TYPE 59 63
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(8P21.3) MUTATED     24   38
  DEL PEAK 12(8P21.3) WILD-TYPE   59   63
        clus
vv       DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE
  FEMALE                          24                            59
  MALE                            38                            63
[1] 2 2
[1] FALSE
D35V8, binary
                               cls
clus                             0  1
  DEL PEAK 12(8P21.3) MUTATED   44 13
  DEL PEAK 12(8P21.3) WILD-TYPE 81 31
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(8P21.3) MUTATED     44   13
  DEL PEAK 12(8P21.3) WILD-TYPE   81   31
     clus
vv    DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE
  NO                           44                            81
  YES                          13                            31
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 12(8P21.3) MUTATED                                    51
  DEL PEAK 12(8P21.3) WILD-TYPE                                 102
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 12(8P21.3) MUTATED                                       8
  DEL PEAK 12(8P21.3) WILD-TYPE                                    17
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 12(8P21.3) MUTATED                                                  2
  DEL PEAK 12(8P21.3) WILD-TYPE                                                2
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 12(8P21.3) MUTATED                                     1
  DEL PEAK 12(8P21.3) WILD-TYPE                                   0
D35V9, multiclass
                                                  clus
vv                                                 DEL PEAK 12(8P21.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       51
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK 12(8P21.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        102
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       17
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V10, continuous
D35V11, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 12(8P21.3) MUTATED   34 22  2  1
  DEL PEAK 12(8P21.3) WILD-TYPE 77 31  3  3
D35V12, multiclass
    clus
vv   DEL PEAK 12(8P21.3) MUTATED DEL PEAK 12(8P21.3) WILD-TYPE
  R0                          34                            77
  R1                          22                            31
  R2                           2                             3
  RX                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 12(8P21.3) MUTATED       6                         1    53
  DEL PEAK 12(8P21.3) WILD-TYPE     5                         6   108
D35V14, multiclass
                           clus
vv                          DEL PEAK 12(8P21.3) MUTATED
  ASIAN                                               6
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              53
                           clus
vv                          DEL PEAK 12(8P21.3) WILD-TYPE
  ASIAN                                                 5
  BLACK OR AFRICAN AMERICAN                             6
  WHITE                                               108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V15, binary
                               cls
clus                             0  1
  DEL PEAK 12(8P21.3) MUTATED    1 46
  DEL PEAK 12(8P21.3) WILD-TYPE  4 90
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(8P21.3) MUTATED      1   46
  DEL PEAK 12(8P21.3) WILD-TYPE    4   90
                        clus
vv                       DEL PEAK 12(8P21.3) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          46
                        clus
vv                       DEL PEAK 12(8P21.3) WILD-TYPE
  HISPANIC OR LATINO                                 4
  NOT HISPANIC OR LATINO                            90
[1] 2 2
[1] FALSE

Clustering(36) Variable = DEL PEAK 13(9P21.3) MUTATION ANALYSIS
D36V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 13(9P21.3) MUTATED   43 72
  DEL PEAK 13(9P21.3) WILD-TYPE 40 28
  DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE 
                          115                            68 
  DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE 
                           72                            28 
$`DEL PEAK 13(9P21.3) MUTATED`
TCGA-2J-AABT TCGA-3A-A9I5 TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-HZ-7289 
       10.49        58.98         7.66         8.02        15.78        21.73 
TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-US-A77E 
       21.60         1.08        15.65        15.12        12.92        14.14 
TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
       16.37         2.17         9.63        19.96        22.22        22.72 
TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE 
       42.31        31.86        14.47         9.11         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH 
        3.39        12.95         9.60        20.84         7.36        33.57 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAZ 
       15.06        36.26        34.09        10.13        24.43        71.74 
TCGA-F2-6879 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
       10.98        19.27        17.00        24.07        16.37        12.33 
TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY 
       11.61        15.95        37.15         7.50        12.53        34.82 
TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 
       23.54        15.55         4.04         5.03         1.02        24.36 
TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
        2.01         5.10        36.20        20.35        17.79        12.89 
TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-AA8V 
       22.06         4.21         7.63        66.94         8.28        30.25 
TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8005 
       17.49        31.86        19.50         0.13        20.19         3.95 
TCGA-HZ-8315 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-A49G TCGA-HZ-A49I TCGA-HZ-A4BH 
        9.83        17.92        17.00        21.70        10.13         6.38 
TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 
        5.26         0.23        19.82        49.38         4.77        21.90 
TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7890 
       15.35        36.69        41.33         4.04         3.62        19.66 
TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A7LX TCGA-IB-A7M4 
        3.85        17.16        15.85        21.90         8.22        15.88 
TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-M8-A5N4 
        4.73         7.86         8.05         9.14        12.46        19.20 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM 
        8.78        15.45         3.12        15.32         9.40        24.23 
TCGA-S4-A8RP TCGA-US-A779 TCGA-US-A77G TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-YH-A8SY 
       23.08        16.80         0.39        12.03        31.27        12.76 
TCGA-YY-A8LH 
       66.28 

$`DEL PEAK 13(9P21.3) WILD-TYPE`
TCGA-2J-AABR TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-H6-A45N TCGA-S4-A8RO TCGA-2J-AAB4 
       14.40        60.95        90.12        13.84        17.26        23.97 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABV TCGA-2L-AAQM 
        2.63        20.61        15.91        15.22        21.44        45.47 
TCGA-3A-A9I7 TCGA-3A-A9IC TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       43.50        24.26        68.52        63.85        50.70        32.81 
TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A7TX TCGA-FB-A4P5 
       75.12         9.70        19.46         7.10         3.12         5.88 
TCGA-HV-A5A5 TCGA-HV-A7OP TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 
        9.50        32.15         7.76        10.32        27.62        17.03 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 
       23.21        12.03        19.59        12.43        14.93         4.96 
TCGA-HZ-A49H TCGA-HZ-A77P TCGA-IB-7644 TCGA-IB-7651 TCGA-IB-7888 TCGA-IB-7889 
       16.14        10.85        12.95        19.82        43.79        15.81 
TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST 
       30.02        15.98        15.19        12.00         7.20        20.88 
TCGA-IB-A6UG TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
        1.35         0.26        14.17         6.02        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A9Q5 TCGA-Q3-A5QY TCGA-RL-AAAS 
        9.44        13.28         7.56        10.29        13.68         0.30 
TCGA-US-A774 TCGA-US-A776 TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XN-A8T5 
       22.85        39.98        18.67        13.81        12.99        23.67 
TCGA-YB-A89D TCGA-Z5-AAPL 
       11.51        15.35 

  DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE 
                         0.13                          0.26 
  DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE 
                        71.74                         90.12 
  DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE 
                       15.450                        15.205 
[1] "0.1 - 71.7 (15.4)" "0.3 - 90.1 (15.2)"
[1] "hr=" "1.7"
D36V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 13(9P21.3) MUTATED         0        3        7        24        75
  DEL PEAK 13(9P21.3) WILD-TYPE       1        2        8         6        46
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 13(9P21.3) MUTATED           3        3
  DEL PEAK 13(9P21.3) WILD-TYPE         2        2
D36V3, multiclass
           clus
vv          DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            3                             2
  STAGE IB                            7                             8
  STAGE IIA                          24                             6
  STAGE IIB                          75                            46
  STAGE III                           3                             2
  STAGE IV                            3                             2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            T1 T2 T3 T4
  DEL PEAK 13(9P21.3) MUTATED    4 13 96  2
  DEL PEAK 13(9P21.3) WILD-TYPE  3 11 51  2
D36V4, multiclass
    clus
vv   DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE
  T1                           4                             3
  T2                          13                            11
  T3                          96                            51
  T4                           2                             2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V5, binary
                               cls
clus                             0  1
  DEL PEAK 13(9P21.3) MUTATED   34 80
  DEL PEAK 13(9P21.3) WILD-TYPE 16 49
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(9P21.3) MUTATED     34   80
  DEL PEAK 13(9P21.3) WILD-TYPE   16   49
   clus
vv  DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE
  0                          34                            16
  1                          80                            49
[1] 2 2
[1] FALSE
D36V6, binary
                               cls
clus                             0  1
  DEL PEAK 13(9P21.3) MUTATED   50  3
  DEL PEAK 13(9P21.3) WILD-TYPE 35  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(9P21.3) MUTATED     50    3
  DEL PEAK 13(9P21.3) WILD-TYPE   35    2
   clus
vv  DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE
  0                          50                            35
  1                           3                             2
[1] 2 2
[1] FALSE
D36V7, binary
                               cls
clus                             0  1
  DEL PEAK 13(9P21.3) MUTATED   48 68
  DEL PEAK 13(9P21.3) WILD-TYPE 35 33
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(9P21.3) MUTATED     48   68
  DEL PEAK 13(9P21.3) WILD-TYPE   35   33
        clus
vv       DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE
  FEMALE                          48                            35
  MALE                            68                            33
[1] 2 2
[1] FALSE
D36V8, binary
                               cls
clus                             0  1
  DEL PEAK 13(9P21.3) MUTATED   76 29
  DEL PEAK 13(9P21.3) WILD-TYPE 49 15
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(9P21.3) MUTATED     76   29
  DEL PEAK 13(9P21.3) WILD-TYPE   49   15
     clus
vv    DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE
  NO                           76                            49
  YES                          29                            15
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 13(9P21.3) MUTATED                                   102
  DEL PEAK 13(9P21.3) WILD-TYPE                                  51
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 13(9P21.3) MUTATED                                      12
  DEL PEAK 13(9P21.3) WILD-TYPE                                    13
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 13(9P21.3) MUTATED                                                  1
  DEL PEAK 13(9P21.3) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 13(9P21.3) MUTATED                                     0
  DEL PEAK 13(9P21.3) WILD-TYPE                                   1
D36V9, multiclass
                                                  clus
vv                                                 DEL PEAK 13(9P21.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      102
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     12
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 13(9P21.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         51
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V10, continuous
D36V11, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 13(9P21.3) MUTATED   66 35  4  3
  DEL PEAK 13(9P21.3) WILD-TYPE 45 18  1  1
D36V12, multiclass
    clus
vv   DEL PEAK 13(9P21.3) MUTATED DEL PEAK 13(9P21.3) WILD-TYPE
  R0                          66                            45
  R1                          35                            18
  R2                           4                             1
  RX                           3                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 13(9P21.3) MUTATED       9                         3    99
  DEL PEAK 13(9P21.3) WILD-TYPE     2                         4    62
D36V14, multiclass
                           clus
vv                          DEL PEAK 13(9P21.3) MUTATED
  ASIAN                                               9
  BLACK OR AFRICAN AMERICAN                           3
  WHITE                                              99
                           clus
vv                          DEL PEAK 13(9P21.3) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V15, binary
                               cls
clus                             0  1
  DEL PEAK 13(9P21.3) MUTATED    4 82
  DEL PEAK 13(9P21.3) WILD-TYPE  1 54
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(9P21.3) MUTATED      4   82
  DEL PEAK 13(9P21.3) WILD-TYPE    1   54
                        clus
vv                       DEL PEAK 13(9P21.3) MUTATED
  HISPANIC OR LATINO                               4
  NOT HISPANIC OR LATINO                          82
                        clus
vv                       DEL PEAK 13(9P21.3) WILD-TYPE
  HISPANIC OR LATINO                                 1
  NOT HISPANIC OR LATINO                            54
[1] 2 2
[1] FALSE

Clustering(37) Variable = DEL PEAK 14(10P15.3) MUTATION ANALYSIS
D37V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 14(10P15.3) MUTATED   15 25
  DEL PEAK 14(10P15.3) WILD-TYPE 68 75
  DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE 
                            40                            143 
  DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE 
                            25                             75 
$`DEL PEAK 14(10P15.3) MUTATED`
TCGA-3A-A9IL TCGA-HZ-7289 TCGA-HZ-A77Q TCGA-S4-A8RO TCGA-2J-AABA TCGA-2J-AABI 
       90.12        21.73         1.08        17.26        19.96        31.86 
TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQI TCGA-2L-AAQM TCGA-3A-A9IC 
       14.47        15.22         9.11         3.39        45.47        24.26 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPU TCGA-FB-AAPZ 
       32.81        15.06        24.07        15.95        12.53        23.54 
TCGA-FB-AAQ2 TCGA-FZ-5923 TCGA-H6-8124 TCGA-HV-A5A3 TCGA-HV-A5A6 TCGA-HV-AA8V 
        5.03        20.35        12.89         4.21        66.94        30.25 
TCGA-HV-AA8X TCGA-HZ-8005 TCGA-HZ-A77O TCGA-IB-7646 TCGA-IB-7885 TCGA-IB-7886 
       17.49         3.95         5.26         4.77        41.33         4.04 
TCGA-IB-7890 TCGA-IB-7893 TCGA-IB-A5SQ TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUN 
       19.66         3.85         7.20         1.35         8.22         4.73 
TCGA-IB-AAUQ TCGA-XD-AAUG TCGA-XN-A8T3 TCGA-YH-A8SY 
        6.02        13.81        31.27        12.76 

$`DEL PEAK 14(10P15.3) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-A4BK TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX 
       15.78        13.84        21.60        15.65        15.12        12.92 
TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 
       14.14        16.37         2.17        23.97         9.63         2.63 
TCGA-2J-AAB9 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABV 
       20.61        22.22        22.72        42.31        15.91        21.44 
TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I7 TCGA-3A-A9I9 
        4.70        22.49        12.95         9.60        43.50        20.84 
TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IV 
        7.36        33.57        68.52        63.85        50.70        36.26 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       34.09        10.13        24.43        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
        9.70        19.46         7.10        19.27         3.12        17.00 
TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS 
        5.88        16.37        12.33        11.61        37.15         7.50 
TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 
       34.82        15.55         4.04         1.02        24.36         2.01 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A5A5 
        5.10        36.20        17.79        22.06         7.63         9.50 
TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
        8.28        32.15        31.86        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
       10.32        27.62        20.19        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 
       19.59         9.83        12.43        14.93        17.92        17.00 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77P 
        4.96        21.70        16.14        10.13         6.38        10.85 
TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 
        0.23        19.82        12.95        49.38        21.90        15.35 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 
       19.82        36.69         3.62        43.79        15.81        30.02 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5ST 
       15.98        15.19        17.16        12.00        15.85        20.88 
TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUR 
       21.90        15.88         0.26         7.86        14.17        11.11 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
        7.40         9.44         8.05        13.28         7.56         9.14 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
       12.46        10.29        19.20         8.78        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP 
        3.12        15.32         9.40         0.30        24.23        23.08 
TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUH 
       22.85        39.98        16.80         0.39        18.67        12.99 
TCGA-XD-AAUI TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        23.67        11.51        66.28        15.35 

  DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE 
                          1.08                           0.13 
  DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE 
                         90.12                          75.12 
  DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE 
                        14.765                         15.450 
[1] "1.1 - 90.1 (14.8)" "0.1 - 75.1 (15.4)"
[1] "hr=" "1.2"
D37V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 14(10P15.3) MUTATED         1        0        5         4        28
  DEL PEAK 14(10P15.3) WILD-TYPE       0        5       10        26        93
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 14(10P15.3) MUTATED           1        2
  DEL PEAK 14(10P15.3) WILD-TYPE         4        3
D37V3, multiclass
           clus
vv          DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             0                              5
  STAGE IB                             5                             10
  STAGE IIA                            4                             26
  STAGE IIB                           28                             93
  STAGE III                            1                              4
  STAGE IV                             2                              3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  DEL PEAK 14(10P15.3) MUTATED     1   8  31   1
  DEL PEAK 14(10P15.3) WILD-TYPE   6  16 116   3
D37V4, multiclass
    clus
vv   DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE
  T1                            1                              6
  T2                            8                             16
  T3                           31                            116
  T4                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V5, binary
                                cls
clus                              0  1
  DEL PEAK 14(10P15.3) MUTATED    8 31
  DEL PEAK 14(10P15.3) WILD-TYPE 42 98
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 14(10P15.3) MUTATED      8   31
  DEL PEAK 14(10P15.3) WILD-TYPE   42   98
   clus
vv  DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE
  0                            8                             42
  1                           31                             98
[1] 2 2
[1] FALSE
D37V6, binary
                                cls
clus                              0  1
  DEL PEAK 14(10P15.3) MUTATED   18  2
  DEL PEAK 14(10P15.3) WILD-TYPE 67  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 14(10P15.3) MUTATED     18    2
  DEL PEAK 14(10P15.3) WILD-TYPE   67    3
   clus
vv  DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE
  0                           18                             67
  1                            2                              3
[1] 2 2
[1] FALSE
D37V7, binary
                                cls
clus                              0  1
  DEL PEAK 14(10P15.3) MUTATED   18 23
  DEL PEAK 14(10P15.3) WILD-TYPE 65 78
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 14(10P15.3) MUTATED     18   23
  DEL PEAK 14(10P15.3) WILD-TYPE   65   78
        clus
vv       DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE
  FEMALE                           18                             65
  MALE                             23                             78
[1] 2 2
[1] FALSE
D37V8, binary
                                cls
clus                              0  1
  DEL PEAK 14(10P15.3) MUTATED   30  9
  DEL PEAK 14(10P15.3) WILD-TYPE 95 35
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 14(10P15.3) MUTATED     30    9
  DEL PEAK 14(10P15.3) WILD-TYPE   95   35
     clus
vv    DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE
  NO                            30                             95
  YES                            9                             35
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 14(10P15.3) MUTATED                                    33
  DEL PEAK 14(10P15.3) WILD-TYPE                                 120
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 14(10P15.3) MUTATED                                       6
  DEL PEAK 14(10P15.3) WILD-TYPE                                    19
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 14(10P15.3) MUTATED                                                  0
  DEL PEAK 14(10P15.3) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 14(10P15.3) MUTATED                                     1
  DEL PEAK 14(10P15.3) WILD-TYPE                                   0
D37V9, multiclass
                                                  clus
vv                                                 DEL PEAK 14(10P15.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        33
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 14(10P15.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         120
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        19
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V10, continuous
D37V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 14(10P15.3) MUTATED   22 13  2  1
  DEL PEAK 14(10P15.3) WILD-TYPE 89 40  3  3
D37V12, multiclass
    clus
vv   DEL PEAK 14(10P15.3) MUTATED DEL PEAK 14(10P15.3) WILD-TYPE
  R0                           22                             89
  R1                           13                             40
  R2                            2                              3
  RX                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 14(10P15.3) MUTATED       5                         0    35
  DEL PEAK 14(10P15.3) WILD-TYPE     6                         7   126
D37V14, multiclass
                           clus
vv                          DEL PEAK 14(10P15.3) MUTATED
  ASIAN                                                5
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               35
                           clus
vv                          DEL PEAK 14(10P15.3) WILD-TYPE
  ASIAN                                                  6
  BLACK OR AFRICAN AMERICAN                              7
  WHITE                                                126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V15, binary
                                cls
clus                               0   1
  DEL PEAK 14(10P15.3) MUTATED     1  28
  DEL PEAK 14(10P15.3) WILD-TYPE   4 108
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 14(10P15.3) MUTATED      1   28
  DEL PEAK 14(10P15.3) WILD-TYPE    4  108
                        clus
vv                       DEL PEAK 14(10P15.3) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           28
                        clus
vv                       DEL PEAK 14(10P15.3) WILD-TYPE
  HISPANIC OR LATINO                                  4
  NOT HISPANIC OR LATINO                            108
[1] 2 2
[1] FALSE

Clustering(38) Variable = DEL PEAK 15(10Q23.33) MUTATION ANALYSIS
D38V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 15(10Q23.33) MUTATED   15 19
  DEL PEAK 15(10Q23.33) WILD-TYPE 68 81
  DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE 
                             34                             149 
  DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE 
                             19                              81 
$`DEL PEAK 15(10Q23.33) MUTATED`
TCGA-3A-A9IL TCGA-FZ-5924 TCGA-HZ-7289 TCGA-HZ-A77Q TCGA-IB-7654 TCGA-S4-A8RO 
       90.12        15.78        21.73         1.08        15.65        17.26 
TCGA-2J-AABA TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQI TCGA-2L-AAQM 
       19.96        14.47        15.22         9.11         3.39        45.47 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IZ TCGA-FB-A545 TCGA-FB-AAQ2 TCGA-FZ-5921 
       32.81        15.06        10.13        24.07         5.03         5.10 
TCGA-H6-8124 TCGA-HV-A5A6 TCGA-HZ-7918 TCGA-HZ-8005 TCGA-HZ-A77O TCGA-HZ-A9TJ 
       12.89        66.94        31.86         3.95         5.26        19.82 
TCGA-IB-7646 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7890 TCGA-IB-7893 
        4.77        36.69        41.33         3.62        19.66         3.85 
TCGA-IB-AAUQ TCGA-US-A776 TCGA-XD-AAUG TCGA-XN-A8T3 
        6.02        39.98        13.81        31.27 

$`DEL PEAK 15(10Q23.33) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-H6-A45N TCGA-HZ-A4BK TCGA-IB-A5SS TCGA-LB-A7SX TCGA-US-A77E TCGA-XD-AAUL 
       13.84        21.60        15.12        12.92        14.14        16.37 
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABE 
        2.17        23.97         9.63         2.63        20.61        22.22 
TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABV TCGA-2L-AAQA 
       22.72        42.31        31.86        15.91        21.44         4.70 
TCGA-2L-AAQE TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
       22.49        12.95         9.60        43.50        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IV 
       24.26        33.57        68.52        63.85        50.70        36.26 
TCGA-3A-A9IX TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       34.09        24.43        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 
       19.46         7.10        19.27         3.12        17.00         5.88 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS 
       16.37        12.33        11.61        15.95        37.15         7.50 
TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ3 
       12.53        34.82        23.54        15.55         4.04         1.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H8-A6C1 
       24.36         2.01        36.20        20.35        17.79        22.06 
TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V 
        4.21         7.63         9.50         8.28        32.15        30.25 
TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
       17.49        19.50         7.76         0.13        10.32        27.62 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 
       20.19        17.03        23.21        12.03        19.59         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G 
       12.43        14.93        17.92        17.00         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 
       16.14        10.13         6.38        10.85         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7886 TCGA-IB-7888 
       49.38        21.90        15.35        19.82         4.04        43.79 
TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO 
       15.81        30.02        15.98        15.19        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX 
       15.85         7.20        20.88        21.90         1.35         8.22 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUR 
       15.88         0.26         4.73         7.86        14.17        11.11 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
        7.40         9.44         8.05        13.28         7.56         9.14 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
       12.46        10.29        19.20         8.78        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP 
        3.12        15.32         9.40         0.30        24.23        23.08 
TCGA-US-A774 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUH TCGA-XD-AAUI 
       22.85        16.80         0.39        18.67        12.99        12.03 
TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       23.67        11.51        12.76        66.28        15.35 

  DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE 
                           1.08                            0.13 
  DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE 
                          90.12                           75.12 
  DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE 
                         15.435                          15.350 
[1] "1.1 - 90.1 (15.4)" "0.1 - 75.1 (15.3)"
[1] "hr=" "1.1"
D38V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 15(10Q23.33) MUTATED         1        0        3         3        26
  DEL PEAK 15(10Q23.33) WILD-TYPE       0        5       12        27        95
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 15(10Q23.33) MUTATED           0        2
  DEL PEAK 15(10Q23.33) WILD-TYPE         5        3
D38V3, multiclass
           clus
vv          DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE
  STAGE I                               1                               0
  STAGE IA                              0                               5
  STAGE IB                              3                              12
  STAGE IIA                             3                              27
  STAGE IIB                            26                              95
  STAGE III                             0                               5
  STAGE IV                              2                               3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                               T1  T2  T3  T4
  DEL PEAK 15(10Q23.33) MUTATED     1   5  29   0
  DEL PEAK 15(10Q23.33) WILD-TYPE   6  19 118   4
D38V4, multiclass
    clus
vv   DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE
  T1                             1                               6
  T2                             5                              19
  T3                            29                             118
  T4                             0                               4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V5, binary
                                 cls
clus                                0   1
  DEL PEAK 15(10Q23.33) MUTATED     6  28
  DEL PEAK 15(10Q23.33) WILD-TYPE  44 101
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 15(10Q23.33) MUTATED      6   28
  DEL PEAK 15(10Q23.33) WILD-TYPE   44  101
   clus
vv  DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE
  0                             6                              44
  1                            28                             101
[1] 2 2
[1] FALSE
D38V6, binary
                                 cls
clus                               0  1
  DEL PEAK 15(10Q23.33) MUTATED   19  2
  DEL PEAK 15(10Q23.33) WILD-TYPE 66  3
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 15(10Q23.33) MUTATED     19    2
  DEL PEAK 15(10Q23.33) WILD-TYPE   66    3
   clus
vv  DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE
  0                            19                              66
  1                             2                               3
[1] 2 2
[1] FALSE
D38V7, binary
                                 cls
clus                               0  1
  DEL PEAK 15(10Q23.33) MUTATED   14 21
  DEL PEAK 15(10Q23.33) WILD-TYPE 69 80
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 15(10Q23.33) MUTATED     14   21
  DEL PEAK 15(10Q23.33) WILD-TYPE   69   80
        clus
vv       DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE
  FEMALE                            14                              69
  MALE                              21                              80
[1] 2 2
[1] FALSE
D38V8, binary
                                 cls
clus                               0  1
  DEL PEAK 15(10Q23.33) MUTATED   26  7
  DEL PEAK 15(10Q23.33) WILD-TYPE 99 37
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 15(10Q23.33) MUTATED     26    7
  DEL PEAK 15(10Q23.33) WILD-TYPE   99   37
     clus
vv    DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE
  NO                             26                              99
  YES                             7                              37
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 15(10Q23.33) MUTATED                                    27
  DEL PEAK 15(10Q23.33) WILD-TYPE                                 126
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 15(10Q23.33) MUTATED                                       6
  DEL PEAK 15(10Q23.33) WILD-TYPE                                    19
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 15(10Q23.33) MUTATED                                                  1
  DEL PEAK 15(10Q23.33) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 15(10Q23.33) MUTATED                                     1
  DEL PEAK 15(10Q23.33) WILD-TYPE                                   0
D38V9, multiclass
                                                  clus
vv                                                 DEL PEAK 15(10Q23.33) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         27
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
                                                  clus
vv                                                 DEL PEAK 15(10Q23.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          126
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         19
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                               3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                            0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V10, continuous
D38V11, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 15(10Q23.33) MUTATED   20 12  0  1
  DEL PEAK 15(10Q23.33) WILD-TYPE 91 41  5  3
D38V12, multiclass
    clus
vv   DEL PEAK 15(10Q23.33) MUTATED DEL PEAK 15(10Q23.33) WILD-TYPE
  R0                            20                              91
  R1                            12                              41
  R2                             0                               5
  RX                             1                               3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V13, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 15(10Q23.33) MUTATED       2                         0    31
  DEL PEAK 15(10Q23.33) WILD-TYPE     9                         7   130
D38V14, multiclass
                           clus
vv                          DEL PEAK 15(10Q23.33) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             0
  WHITE                                                31
                           clus
vv                          DEL PEAK 15(10Q23.33) WILD-TYPE
  ASIAN                                                   9
  BLACK OR AFRICAN AMERICAN                               7
  WHITE                                                 130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V15, binary
                                 cls
clus                                0   1
  DEL PEAK 15(10Q23.33) MUTATED     2  24
  DEL PEAK 15(10Q23.33) WILD-TYPE   3 112
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 15(10Q23.33) MUTATED      2   24
  DEL PEAK 15(10Q23.33) WILD-TYPE    3  112
                        clus
vv                       DEL PEAK 15(10Q23.33) MUTATED
  HISPANIC OR LATINO                                 2
  NOT HISPANIC OR LATINO                            24
                        clus
vv                       DEL PEAK 15(10Q23.33) WILD-TYPE
  HISPANIC OR LATINO                                   3
  NOT HISPANIC OR LATINO                             112
[1] 2 2
[1] FALSE

Clustering(39) Variable = DEL PEAK 16(11P15.4) MUTATION ANALYSIS
D39V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 16(11P15.4) MUTATED   13 16
  DEL PEAK 16(11P15.4) WILD-TYPE 70 84
  DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE 
                            29                            154 
  DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE 
                            16                             84 
$`DEL PEAK 16(11P15.4) MUTATED`
TCGA-3A-A9IL TCGA-FZ-5924 TCGA-LB-A7SX TCGA-S4-A8RO TCGA-2J-AABU TCGA-2L-AAQL 
       90.12        15.78        12.92        17.26         9.11         9.60 
TCGA-2L-AAQM TCGA-3A-A9IS TCGA-3A-A9IZ TCGA-F2-A44H TCGA-FB-A545 TCGA-FB-AAPP 
       45.47        32.81        10.13        19.27        24.07        15.95 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ2 TCGA-FZ-5920 TCGA-HV-A7OP TCGA-HZ-7918 
       34.82        23.54         5.03         2.01        32.15        31.86 
TCGA-HZ-A4BH TCGA-IB-7645 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 
        6.38        49.38        36.69        41.33         4.04         3.62 
TCGA-IB-7889 TCGA-IB-8127 TCGA-IB-A7LX TCGA-S4-A8RP TCGA-XN-A8T3 
       15.81        17.16         8.22        23.08        31.27 

$`DEL PEAK 16(11P15.4) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS 
       13.84        21.73        21.60         1.08        15.65        15.12 
TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 
       14.14        16.37         2.17        23.97         9.63         2.63 
TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI 
       20.61        19.96        22.22        22.72        42.31        31.86 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       15.91        14.47        15.22        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
        3.39        12.95        43.50        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV 
       33.57        68.52        63.85        50.70        15.06        36.26 
TCGA-3A-A9IX TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       34.09        24.43        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM 
       19.46         7.10         3.12        17.00         5.88        16.37 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAQ0 
       12.33        11.61        37.15         7.50        12.53        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 
        4.04         1.02        24.36         5.10        36.20        20.35 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 
       17.79        12.89        22.06         4.21         7.63         9.50 
TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7920 
       66.94         8.28        30.25        17.49        19.50         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        0.13        10.32        27.62        20.19        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
       12.03        19.59         3.95         9.83        12.43        14.93 
TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       17.92        17.00         4.96        21.70        16.14        10.13 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7646 
        5.26        10.85         0.23        19.82        12.95         4.77 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7888 TCGA-IB-7890 TCGA-IB-7891 
       21.90        15.35        19.82        43.79        19.66        30.02 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
        3.85        15.98        15.19        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN 
       20.88        21.90         1.35        15.88         0.26         4.73 
TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        7.86        14.17         6.02        11.11         7.40         9.44 
TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 
        8.05        13.28         7.56         9.14        12.46        10.29 
TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
       19.20         8.78        15.45        13.68         3.12        15.32 
TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 
        9.40         0.30        24.23        22.85        39.98        16.80 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T5 
        0.39        18.67        13.81        12.99        12.03        23.67 
TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        12.76        66.28        15.35 

  DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE 
                          2.01                           0.13 
  DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE 
                         90.12                          75.12 
  DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE 
                         17.26                          15.09 
[1] "2.0 - 90.1 (17.3)" "0.1 - 75.1 (15.1)"
[1] "hr=" "1.3"
D39V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 16(11P15.4) MUTATED         1        0        2         2        24
  DEL PEAK 16(11P15.4) WILD-TYPE       0        5       13        28        97
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 16(11P15.4) MUTATED           0        0
  DEL PEAK 16(11P15.4) WILD-TYPE         5        5
D39V3, multiclass
           clus
vv          DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             0                              5
  STAGE IB                             2                             13
  STAGE IIA                            2                             28
  STAGE IIB                           24                             97
  STAGE III                            0                              5
  STAGE IV                             0                              5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  DEL PEAK 16(11P15.4) MUTATED     1   4  24   0
  DEL PEAK 16(11P15.4) WILD-TYPE   6  20 123   4
D39V4, multiclass
    clus
vv   DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE
  T1                            1                              6
  T2                            4                             20
  T3                           24                            123
  T4                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V5, binary
                                cls
clus                               0   1
  DEL PEAK 16(11P15.4) MUTATED     3  25
  DEL PEAK 16(11P15.4) WILD-TYPE  47 104
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(11P15.4) MUTATED      3   25
  DEL PEAK 16(11P15.4) WILD-TYPE   47  104
   clus
vv  DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE
  0                            3                             47
  1                           25                            104
[1] 2 2
[1] FALSE
D39V6, binary
                                cls
clus                              0  1
  DEL PEAK 16(11P15.4) MUTATED   15  0
  DEL PEAK 16(11P15.4) WILD-TYPE 70  5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(11P15.4) MUTATED     15    0
  DEL PEAK 16(11P15.4) WILD-TYPE   70    5
   clus
vv  DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE
  0                           15                             70
  1                            0                              5
[1] 2 2
[1] FALSE
D39V7, binary
                                cls
clus                              0  1
  DEL PEAK 16(11P15.4) MUTATED   11 18
  DEL PEAK 16(11P15.4) WILD-TYPE 72 83
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(11P15.4) MUTATED     11   18
  DEL PEAK 16(11P15.4) WILD-TYPE   72   83
        clus
vv       DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE
  FEMALE                           11                             72
  MALE                             18                             83
[1] 2 2
[1] FALSE
D39V8, binary
                                cls
clus                               0   1
  DEL PEAK 16(11P15.4) MUTATED    19   9
  DEL PEAK 16(11P15.4) WILD-TYPE 106  35
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(11P15.4) MUTATED     19    9
  DEL PEAK 16(11P15.4) WILD-TYPE  106   35
     clus
vv    DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE
  NO                            19                            106
  YES                            9                             35
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 16(11P15.4) MUTATED                                    25
  DEL PEAK 16(11P15.4) WILD-TYPE                                 128
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 16(11P15.4) MUTATED                                       4
  DEL PEAK 16(11P15.4) WILD-TYPE                                    21
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 16(11P15.4) MUTATED                                                  0
  DEL PEAK 16(11P15.4) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 16(11P15.4) MUTATED                                     0
  DEL PEAK 16(11P15.4) WILD-TYPE                                   1
D39V9, multiclass
                                                  clus
vv                                                 DEL PEAK 16(11P15.4) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        25
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK 16(11P15.4) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         128
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        21
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V10, continuous
D39V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 16(11P15.4) MUTATED   16 11  0  1
  DEL PEAK 16(11P15.4) WILD-TYPE 95 42  5  3
D39V12, multiclass
    clus
vv   DEL PEAK 16(11P15.4) MUTATED DEL PEAK 16(11P15.4) WILD-TYPE
  R0                           16                             95
  R1                           11                             42
  R2                            0                              5
  RX                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 16(11P15.4) MUTATED       2                         2    24
  DEL PEAK 16(11P15.4) WILD-TYPE     9                         5   137
D39V14, multiclass
                           clus
vv                          DEL PEAK 16(11P15.4) MUTATED
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               24
                           clus
vv                          DEL PEAK 16(11P15.4) WILD-TYPE
  ASIAN                                                  9
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V15, binary
                                cls
clus                               0   1
  DEL PEAK 16(11P15.4) MUTATED     2  20
  DEL PEAK 16(11P15.4) WILD-TYPE   3 116
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(11P15.4) MUTATED      2   20
  DEL PEAK 16(11P15.4) WILD-TYPE    3  116
                        clus
vv                       DEL PEAK 16(11P15.4) MUTATED
  HISPANIC OR LATINO                                2
  NOT HISPANIC OR LATINO                           20
                        clus
vv                       DEL PEAK 16(11P15.4) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            116
[1] 2 2
[1] FALSE

Clustering(40) Variable = DEL PEAK 17(12P13.1) MUTATION ANALYSIS
D40V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 17(12P13.1) MUTATED   13 16
  DEL PEAK 17(12P13.1) WILD-TYPE 70 84
  DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE 
                            29                            154 
  DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE 
                            16                             84 
$`DEL PEAK 17(12P13.1) MUTATED`
TCGA-HZ-7289 TCGA-LB-A7SX TCGA-2J-AAB4 TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQE 
       21.73        12.92        23.97        15.22         9.11        22.49 
TCGA-2L-AAQJ TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9J0 TCGA-F2-6879 TCGA-F2-A8YN 
       12.95        24.26        33.57        24.43        10.98        17.00 
TCGA-FB-AAPQ TCGA-FZ-5919 TCGA-FZ-5920 TCGA-HV-A5A4 TCGA-HV-A7OP TCGA-HV-AA8V 
       37.15        24.36         2.01         7.63        32.15        30.25 
TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-8636 TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-IB-7886 
       17.49        19.50        17.92        10.13         6.38         4.04 
TCGA-IB-7893 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-AAUU TCGA-Q3-AA2A 
        3.85        15.85        21.90         8.05         3.12 

$`DEL PEAK 17(12P13.1) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
        8.02        15.78        13.84        21.60         1.08        15.65 
TCGA-IB-A5SS TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB6 
       15.12        17.26        14.14        16.37         2.17         9.63 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        2.63        20.61        19.96        22.22        22.72        42.31 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI 
       31.86        15.91        14.47        21.44         4.70         3.39 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IN 
        9.60        45.47        43.50        20.84         7.36        68.52 
TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX 
       63.85        50.70        32.81        15.06        36.26        34.09 
TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 
       10.13        75.12        71.74         9.70        19.46         7.10 
TCGA-F2-A44H TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
       19.27         3.12         5.88        24.07        16.37        12.33 
TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ 
       11.61        15.95         7.50        12.53        34.82        23.54 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5921 TCGA-FZ-5922 
       15.55         4.04         5.03         1.02         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A5 
       20.35        17.79        12.89        22.06         4.21         9.50 
TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       66.94         8.28        31.86         7.76         0.13        10.32 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
       27.62        20.19        17.03        23.21        12.03        19.59 
TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 
        3.95         9.83        12.43        14.93        17.00         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ 
       21.70        16.14         5.26        10.85         0.23        19.82 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 
       12.95        49.38         4.77        21.90        15.35        19.82 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 
       36.69        41.33         3.62        43.79        15.81        19.66 
TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ 
       30.02        15.98        15.19        17.16        12.00         7.20 
TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN 
       20.88         1.35         8.22        15.88         0.26         4.73 
TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        7.86        14.17         6.02        11.11         7.40         9.44 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
       13.28         7.56         9.14        12.46        10.29        19.20 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS 
        8.78        15.45        13.68        15.32         9.40         0.30 
TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G 
       24.23        23.08        22.85        39.98        16.80         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 
       18.67        13.81        12.99        12.03        31.27        23.67 
TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        12.76        66.28        15.35 

  DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE 
                          2.01                           0.13 
  DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE 
                         37.15                          90.12 
  DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE 
                        17.000                         15.255 
[1] "2.0 - 37.1 (17.0)" "0.1 - 90.1 (15.3)"
[1] "hr=" "1"  
D40V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 17(12P13.1) MUTATED         0        1        1         4        21
  DEL PEAK 17(12P13.1) WILD-TYPE       1        4       14        26       100
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 17(12P13.1) MUTATED           1        1
  DEL PEAK 17(12P13.1) WILD-TYPE         4        4
D40V3, multiclass
           clus
vv          DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              4
  STAGE IB                             1                             14
  STAGE IIA                            4                             26
  STAGE IIB                           21                            100
  STAGE III                            1                              4
  STAGE IV                             1                              4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  DEL PEAK 17(12P13.1) MUTATED     1   2  25   1
  DEL PEAK 17(12P13.1) WILD-TYPE   6  22 122   3
D40V4, multiclass
    clus
vv   DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE
  T1                            1                              6
  T2                            2                             22
  T3                           25                            122
  T4                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D40V5, binary
                                cls
clus                               0   1
  DEL PEAK 17(12P13.1) MUTATED     7  22
  DEL PEAK 17(12P13.1) WILD-TYPE  43 107
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 17(12P13.1) MUTATED      7   22
  DEL PEAK 17(12P13.1) WILD-TYPE   43  107
   clus
vv  DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE
  0                            7                             43
  1                           22                            107
[1] 2 2
[1] FALSE
D40V6, binary
                                cls
clus                              0  1
  DEL PEAK 17(12P13.1) MUTATED   14  1
  DEL PEAK 17(12P13.1) WILD-TYPE 71  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 17(12P13.1) MUTATED     14    1
  DEL PEAK 17(12P13.1) WILD-TYPE   71    4
   clus
vv  DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE
  0                           14                             71
  1                            1                              4
[1] 2 2
[1] FALSE
D40V7, binary
                                cls
clus                              0  1
  DEL PEAK 17(12P13.1) MUTATED   11 18
  DEL PEAK 17(12P13.1) WILD-TYPE 72 83
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 17(12P13.1) MUTATED     11   18
  DEL PEAK 17(12P13.1) WILD-TYPE   72   83
        clus
vv       DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE
  FEMALE                           11                             72
  MALE                             18                             83
[1] 2 2
[1] FALSE
D40V8, binary
                                cls
clus                               0   1
  DEL PEAK 17(12P13.1) MUTATED    23   3
  DEL PEAK 17(12P13.1) WILD-TYPE 102  41
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 17(12P13.1) MUTATED     23    3
  DEL PEAK 17(12P13.1) WILD-TYPE  102   41
     clus
vv    DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE
  NO                            23                            102
  YES                            3                             41
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 17(12P13.1) MUTATED                                    24
  DEL PEAK 17(12P13.1) WILD-TYPE                                 129
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 17(12P13.1) MUTATED                                       4
  DEL PEAK 17(12P13.1) WILD-TYPE                                    21
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 17(12P13.1) MUTATED                                                  0
  DEL PEAK 17(12P13.1) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 17(12P13.1) MUTATED                                     1
  DEL PEAK 17(12P13.1) WILD-TYPE                                   0
D40V9, multiclass
                                                  clus
vv                                                 DEL PEAK 17(12P13.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        24
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 17(12P13.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         129
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        21
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D40V10, continuous
D40V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 17(12P13.1) MUTATED   13 10  2  2
  DEL PEAK 17(12P13.1) WILD-TYPE 98 43  3  2
D40V12, multiclass
    clus
vv   DEL PEAK 17(12P13.1) MUTATED DEL PEAK 17(12P13.1) WILD-TYPE
  R0                           13                             98
  R1                           10                             43
  R2                            2                              3
  RX                            2                              2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D40V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 17(12P13.1) MUTATED       4                         2    23
  DEL PEAK 17(12P13.1) WILD-TYPE     7                         5   138
D40V14, multiclass
                           clus
vv                          DEL PEAK 17(12P13.1) MUTATED
  ASIAN                                                4
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               23
                           clus
vv                          DEL PEAK 17(12P13.1) WILD-TYPE
  ASIAN                                                  7
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D40V15, binary
                                cls
clus                               0   1
  DEL PEAK 17(12P13.1) MUTATED     0  17
  DEL PEAK 17(12P13.1) WILD-TYPE   5 119
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 17(12P13.1) MUTATED      0   17
  DEL PEAK 17(12P13.1) WILD-TYPE    5  119
                        clus
vv                       DEL PEAK 17(12P13.1) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           17
                        clus
vv                       DEL PEAK 17(12P13.1) WILD-TYPE
  HISPANIC OR LATINO                                  5
  NOT HISPANIC OR LATINO                            119
[1] 2 2
[1] FALSE

Clustering(41) Variable = DEL PEAK 18(12Q24.33) MUTATION ANALYSIS
D41V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 18(12Q24.33) MUTATED   20 23
  DEL PEAK 18(12Q24.33) WILD-TYPE 63 77
  DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE 
                             43                             140 
  DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE 
                             23                              77 
$`DEL PEAK 18(12Q24.33) MUTATED`
TCGA-3A-A9I5 TCGA-FZ-5924 TCGA-HZ-7289 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-2J-AAB4 
       58.98        15.78        21.73        15.12        12.92        23.97 
TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABI TCGA-2L-AAQE TCGA-2L-AAQI TCGA-3A-A9IC 
        2.63        42.31        31.86        22.49         3.39        24.26 
TCGA-3A-A9J0 TCGA-F2-A8YN TCGA-FB-A7DR TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ 
       24.43        17.00        11.61        12.53        34.82        23.54 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5920 TCGA-H6-8124 TCGA-HV-A7OP TCGA-HV-AA8V 
        4.04         5.03         2.01        12.89        32.15        30.25 
TCGA-HV-AA8X TCGA-HZ-7922 TCGA-HZ-7926 TCGA-HZ-A49I TCGA-HZ-A77O TCGA-HZ-A9TJ 
       17.49         0.13        17.03        10.13         5.26        19.82 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7890 TCGA-IB-7893 
       36.69        41.33         4.04         3.62        19.66         3.85 
TCGA-IB-8127 TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUU TCGA-LB-A8F3 
       17.16         8.22        15.88         4.73         8.05        12.46 
TCGA-YH-A8SY 
       12.76 

$`DEL PEAK 18(12Q24.33) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        60.95        90.12         7.66         8.02 
TCGA-H6-A45N TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-S4-A8RO TCGA-US-A77E 
       13.84        21.60         1.08        15.65        17.26        14.14 
TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE 
       16.37         2.17         9.63        20.61        19.96        22.22 
TCGA-2J-AABF TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV 
       22.72        15.91        14.47        15.22         9.11        21.44 
TCGA-2L-AAQA TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 
        4.70        12.95         9.60        45.47        43.50        20.84 
TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
        7.36        33.57        68.52        63.85        50.70        32.81 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ 
       15.06        36.26        34.09        10.13        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX 
       10.98         9.70        19.46         7.10        19.27         3.12 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ 
        5.88        24.07        16.37        12.33        15.95        37.15 
TCGA-FB-AAPS TCGA-FB-AAQ0 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 
        7.50        15.55         1.02        24.36         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 
       20.35        17.79        22.06         4.21         7.63         9.50 
TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 
       66.94         8.28        31.86        19.50         7.76        10.32 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 
       27.62        20.19        23.21        12.03        19.59         3.95 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 
        9.83        12.43        14.93        17.92        17.00         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 
       21.70        16.14         6.38        10.85         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7888 
       49.38         4.77        21.90        15.35        19.82        43.79 
TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP 
       15.81        30.02        15.98        15.19        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUM TCGA-IB-AAUO 
        7.20        20.88        21.90         1.35         0.26         7.86 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV 
       14.17         6.02        11.11         7.40         9.44        13.28 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
        7.56         9.14        10.29        19.20         8.78        15.45 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM 
       13.68         3.12        15.32         9.40         0.30        24.23 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J 
       23.08        22.85        39.98        16.80         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D 
       13.81        12.99        12.03        31.27        23.67        11.51 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28        15.35 

  DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE 
                           0.13                            0.23 
  DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE 
                          58.98                           90.12 
  DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE 
                         15.780                          15.335 
[1] "0.1 - 59.0 (15.8)" "0.2 - 90.1 (15.3)"
[1] "hr=" "1"  
D41V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 18(12Q24.33) MUTATED         0        0        2         8        30
  DEL PEAK 18(12Q24.33) WILD-TYPE       1        5       13        22        91
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 18(12Q24.33) MUTATED           1        1
  DEL PEAK 18(12Q24.33) WILD-TYPE         4        4
D41V3, multiclass
           clus
vv          DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE
  STAGE I                               0                               1
  STAGE IA                              0                               5
  STAGE IB                              2                              13
  STAGE IIA                             8                              22
  STAGE IIB                            30                              91
  STAGE III                             1                               4
  STAGE IV                              1                               4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                               T1  T2  T3  T4
  DEL PEAK 18(12Q24.33) MUTATED     0   7  35   0
  DEL PEAK 18(12Q24.33) WILD-TYPE   7  17 112   4
D41V4, multiclass
    clus
vv   DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE
  T1                             0                               7
  T2                             7                              17
  T3                            35                             112
  T4                             0                               4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D41V5, binary
                                 cls
clus                               0  1
  DEL PEAK 18(12Q24.33) MUTATED   10 32
  DEL PEAK 18(12Q24.33) WILD-TYPE 40 97
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 18(12Q24.33) MUTATED     10   32
  DEL PEAK 18(12Q24.33) WILD-TYPE   40   97
   clus
vv  DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE
  0                            10                              40
  1                            32                              97
[1] 2 2
[1] FALSE
D41V6, binary
                                 cls
clus                               0  1
  DEL PEAK 18(12Q24.33) MUTATED   21  1
  DEL PEAK 18(12Q24.33) WILD-TYPE 64  4
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 18(12Q24.33) MUTATED     21    1
  DEL PEAK 18(12Q24.33) WILD-TYPE   64    4
   clus
vv  DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE
  0                            21                              64
  1                             1                               4
[1] 2 2
[1] FALSE
D41V7, binary
                                 cls
clus                               0  1
  DEL PEAK 18(12Q24.33) MUTATED   16 27
  DEL PEAK 18(12Q24.33) WILD-TYPE 67 74
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 18(12Q24.33) MUTATED     16   27
  DEL PEAK 18(12Q24.33) WILD-TYPE   67   74
        clus
vv       DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE
  FEMALE                            16                              67
  MALE                              27                              74
[1] 2 2
[1] FALSE
D41V8, binary
                                 cls
clus                               0  1
  DEL PEAK 18(12Q24.33) MUTATED   31  9
  DEL PEAK 18(12Q24.33) WILD-TYPE 94 35
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 18(12Q24.33) MUTATED     31    9
  DEL PEAK 18(12Q24.33) WILD-TYPE   94   35
     clus
vv    DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE
  NO                             31                              94
  YES                             9                              35
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 18(12Q24.33) MUTATED                                    35
  DEL PEAK 18(12Q24.33) WILD-TYPE                                 118
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 18(12Q24.33) MUTATED                                       6
  DEL PEAK 18(12Q24.33) WILD-TYPE                                    19
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 18(12Q24.33) MUTATED                                                  1
  DEL PEAK 18(12Q24.33) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 18(12Q24.33) MUTATED                                     0
  DEL PEAK 18(12Q24.33) WILD-TYPE                                   1
D41V9, multiclass
                                                  clus
vv                                                 DEL PEAK 18(12Q24.33) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         35
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 DEL PEAK 18(12Q24.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          118
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         19
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                               3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                            1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D41V10, continuous
D41V11, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 18(12Q24.33) MUTATED   25 13  2  2
  DEL PEAK 18(12Q24.33) WILD-TYPE 86 40  3  2
D41V12, multiclass
    clus
vv   DEL PEAK 18(12Q24.33) MUTATED DEL PEAK 18(12Q24.33) WILD-TYPE
  R0                            25                              86
  R1                            13                              40
  R2                             2                               3
  RX                             2                               2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D41V13, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 18(12Q24.33) MUTATED       6                         4    32
  DEL PEAK 18(12Q24.33) WILD-TYPE     5                         3   129
D41V14, multiclass
                           clus
vv                          DEL PEAK 18(12Q24.33) MUTATED
  ASIAN                                                 6
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                32
                           clus
vv                          DEL PEAK 18(12Q24.33) WILD-TYPE
  ASIAN                                                   5
  BLACK OR AFRICAN AMERICAN                               3
  WHITE                                                 129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D41V15, binary
                                 cls
clus                                0   1
  DEL PEAK 18(12Q24.33) MUTATED     0  33
  DEL PEAK 18(12Q24.33) WILD-TYPE   5 103
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 18(12Q24.33) MUTATED      0   33
  DEL PEAK 18(12Q24.33) WILD-TYPE    5  103
                        clus
vv                       DEL PEAK 18(12Q24.33) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            33
                        clus
vv                       DEL PEAK 18(12Q24.33) WILD-TYPE
  HISPANIC OR LATINO                                   5
  NOT HISPANIC OR LATINO                             103
[1] 2 2
[1] FALSE

Clustering(42) Variable = DEL PEAK 19(14Q11.2) MUTATION ANALYSIS
D42V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 19(14Q11.2) MUTATED    8 12
  DEL PEAK 19(14Q11.2) WILD-TYPE 75 88
  DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE 
                            20                            163 
  DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE 
                            12                             88 
$`DEL PEAK 19(14Q11.2) MUTATED`
TCGA-LB-A7SX TCGA-XD-AAUL TCGA-2J-AABA TCGA-2J-AABI TCGA-3A-A9IC TCGA-3A-A9IH 
       12.92        16.37        19.96        31.86        24.26        33.57 
TCGA-3A-A9IU TCGA-3A-A9J0 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAQ0 
       15.06        24.43        16.37        11.61        37.15        15.55 
TCGA-HV-A5A6 TCGA-HV-A7OP TCGA-HZ-A9TJ TCGA-IB-7647 TCGA-IB-AAUN TCGA-LB-A8F3 
       66.94        32.15        19.82        21.90         4.73        12.46 
TCGA-US-A77G TCGA-YH-A8SY 
        0.39        12.76 

$`DEL PEAK 19(14Q11.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-IB-A5SS TCGA-S4-A8RO TCGA-US-A77E TCGA-2J-AAB1 TCGA-2J-AAB4 
       15.65        15.12        17.26        14.14         2.17        23.97 
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        9.63         2.63        20.61        22.22        22.72        42.31 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       15.91        14.47        15.22         9.11        21.44         4.70 
TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 
       22.49         3.39        12.95         9.60        45.47        43.50 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       20.84         7.36        68.52        63.85        50.70        32.81 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       36.26        34.09        10.13        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
        9.70        19.46         7.10        19.27         3.12        17.00 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAPU 
        5.88        24.07        12.33        15.95         7.50        12.53 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 
       34.82        23.54         4.04         5.03         1.02        24.36 
TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
        2.01         5.10        36.20        20.35        17.79        12.89 
TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HV-AA8V 
       22.06         4.21         7.63         9.50         8.28        30.25 
TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       17.49        31.86        19.50         7.76         0.13        10.32 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
       27.62        20.19        17.03        23.21        12.03        19.59 
TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 
        3.95         9.83        12.43        14.93        17.92        17.00 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O 
        4.96        21.70        16.14        10.13         6.38         5.26 
TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7649 
       10.85         0.23        12.95        49.38         4.77        15.35 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 
       19.82        36.69        41.33         4.04         3.62        43.79 
TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 
       15.81        19.66        30.02         3.85        15.98        15.19 
TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF 
       17.16        12.00        15.85         7.20        20.88        21.90 
TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUO TCGA-IB-AAUP 
        1.35         8.22        15.88         0.26         7.86        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        6.02        11.11         7.40         9.44         8.05        13.28 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
        7.56         9.14        10.29        19.20         8.78        15.45 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM 
       13.68         3.12        15.32         9.40         0.30        24.23 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77J TCGA-XD-AAUG 
       23.08        22.85        39.98        16.80        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YY-A8LH 
       12.99        12.03        31.27        23.67        11.51        66.28 
TCGA-Z5-AAPL 
       15.35 

  DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE 
                          0.39                           0.13 
  DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE 
                         66.94                          90.12 
  DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE 
                        18.095                         15.190 
[1] "0.4 - 66.9 (18.1)" "0.1 - 90.1 (15.2)"
[1] "hr=" "1.1"
D42V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 19(14Q11.2) MUTATED         0        1        2         5        10
  DEL PEAK 19(14Q11.2) WILD-TYPE       1        4       13        25       111
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 19(14Q11.2) MUTATED           1        1
  DEL PEAK 19(14Q11.2) WILD-TYPE         4        4
D42V3, multiclass
           clus
vv          DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              4
  STAGE IB                             2                             13
  STAGE IIA                            5                             25
  STAGE IIB                           10                            111
  STAGE III                            1                              4
  STAGE IV                             1                              4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  DEL PEAK 19(14Q11.2) MUTATED     1   2  17   0
  DEL PEAK 19(14Q11.2) WILD-TYPE   6  22 130   4
D42V4, multiclass
    clus
vv   DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE
  T1                            1                              6
  T2                            2                             22
  T3                           17                            130
  T4                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D42V5, binary
                                cls
clus                               0   1
  DEL PEAK 19(14Q11.2) MUTATED     8  11
  DEL PEAK 19(14Q11.2) WILD-TYPE  42 118
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(14Q11.2) MUTATED      8   11
  DEL PEAK 19(14Q11.2) WILD-TYPE   42  118
   clus
vv  DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE
  0                            8                             42
  1                           11                            118
[1] 2 2
[1] FALSE
D42V6, binary
                                cls
clus                              0  1
  DEL PEAK 19(14Q11.2) MUTATED    8  1
  DEL PEAK 19(14Q11.2) WILD-TYPE 77  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(14Q11.2) MUTATED      8    1
  DEL PEAK 19(14Q11.2) WILD-TYPE   77    4
   clus
vv  DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE
  0                            8                             77
  1                            1                              4
[1] 2 2
[1] FALSE
D42V7, binary
                                cls
clus                              0  1
  DEL PEAK 19(14Q11.2) MUTATED    8 12
  DEL PEAK 19(14Q11.2) WILD-TYPE 75 89
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(14Q11.2) MUTATED      8   12
  DEL PEAK 19(14Q11.2) WILD-TYPE   75   89
        clus
vv       DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE
  FEMALE                            8                             75
  MALE                             12                             89
[1] 2 2
[1] FALSE
D42V8, binary
                                cls
clus                               0   1
  DEL PEAK 19(14Q11.2) MUTATED    15   5
  DEL PEAK 19(14Q11.2) WILD-TYPE 110  39
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(14Q11.2) MUTATED     15    5
  DEL PEAK 19(14Q11.2) WILD-TYPE  110   39
     clus
vv    DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE
  NO                            15                            110
  YES                            5                             39
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 19(14Q11.2) MUTATED                                    15
  DEL PEAK 19(14Q11.2) WILD-TYPE                                 138
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 19(14Q11.2) MUTATED                                       3
  DEL PEAK 19(14Q11.2) WILD-TYPE                                    22
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 19(14Q11.2) MUTATED                                                  1
  DEL PEAK 19(14Q11.2) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 19(14Q11.2) MUTATED                                     0
  DEL PEAK 19(14Q11.2) WILD-TYPE                                   1
D42V9, multiclass
                                                  clus
vv                                                 DEL PEAK 19(14Q11.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        15
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK 19(14Q11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         138
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        22
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D42V10, continuous
D42V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 19(14Q11.2) MUTATED   15  4  0  0
  DEL PEAK 19(14Q11.2) WILD-TYPE 96 49  5  4
D42V12, multiclass
    clus
vv   DEL PEAK 19(14Q11.2) MUTATED DEL PEAK 19(14Q11.2) WILD-TYPE
  R0                           15                             96
  R1                            4                             49
  R2                            0                              5
  RX                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D42V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 19(14Q11.2) MUTATED       3                         2    15
  DEL PEAK 19(14Q11.2) WILD-TYPE     8                         5   146
D42V14, multiclass
                           clus
vv                          DEL PEAK 19(14Q11.2) MUTATED
  ASIAN                                                3
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               15
                           clus
vv                          DEL PEAK 19(14Q11.2) WILD-TYPE
  ASIAN                                                  8
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D42V15, binary
                                cls
clus                               0   1
  DEL PEAK 19(14Q11.2) MUTATED     0  16
  DEL PEAK 19(14Q11.2) WILD-TYPE   5 120
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(14Q11.2) MUTATED      0   16
  DEL PEAK 19(14Q11.2) WILD-TYPE    5  120
                        clus
vv                       DEL PEAK 19(14Q11.2) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           16
                        clus
vv                       DEL PEAK 19(14Q11.2) WILD-TYPE
  HISPANIC OR LATINO                                  5
  NOT HISPANIC OR LATINO                            120
[1] 2 2
[1] FALSE

Clustering(43) Variable = DEL PEAK 20(15Q15.1) MUTATION ANALYSIS
D43V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 20(15Q15.1) MUTATED   16 20
  DEL PEAK 20(15Q15.1) WILD-TYPE 67 80
  DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE 
                            36                            147 
  DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE 
                            20                             80 
$`DEL PEAK 20(15Q15.1) MUTATED`
TCGA-2J-AABT TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-IB-7654 TCGA-LB-A7SX TCGA-2J-AABE 
       10.49        21.73        21.60        15.65        12.92        22.22 
TCGA-2J-AABH TCGA-2J-AABP TCGA-2L-AAQI TCGA-3A-A9IB TCGA-3A-A9IS TCGA-3E-AAAZ 
       42.31        15.22         3.39         7.36        32.81        71.74 
TCGA-FB-A545 TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ2 
       24.07        11.61        15.95        23.54        15.55         5.03 
TCGA-FZ-5921 TCGA-HV-A5A3 TCGA-HV-A5A6 TCGA-HV-A7OP TCGA-HZ-7918 TCGA-HZ-8005 
        5.10         4.21        66.94        32.15        31.86         3.95 
TCGA-IB-7644 TCGA-IB-7890 TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A7LX 
       12.95        19.66         3.85        17.16        15.85         8.22 
TCGA-IB-A7M4 TCGA-M8-A5N4 TCGA-US-A776 TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-YH-A8SY 
       15.88        19.20        39.98        12.03        31.27        12.76 

$`DEL PEAK 20(15Q15.1) WILD-TYPE`
TCGA-2J-AABR TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        58.98        60.95        90.12         7.66         8.02 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-A77Q TCGA-IB-A5SS TCGA-S4-A8RO TCGA-US-A77E 
       15.78        13.84         1.08        15.12        17.26        14.14 
TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 
       16.37         2.17        23.97         9.63         2.63        20.61 
TCGA-2J-AABA TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABU 
       19.96        22.72        31.86        15.91        14.47         9.11 
TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM 
       21.44         4.70        22.49        12.95         9.60        45.47 
TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO 
       43.50        20.84        24.26        33.57        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 
       50.70        15.06        36.26        34.09        10.13        24.43 
TCGA-3E-AAAY TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H 
       75.12        10.98         9.70        19.46         7.10        19.27 
TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPQ 
        3.12        17.00         5.88        16.37        12.33        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FZ-5919 
        7.50        12.53        34.82         4.04         1.02        24.36 
TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 
        2.01        36.20        20.35        17.79        12.89        22.06 
TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7919 
        7.63         9.50         8.28        30.25        17.49        19.50 
TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
        7.76         0.13        10.32        27.62        20.19        17.03 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
       23.21        12.03        19.59         9.83        12.43        14.93 
TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       17.92        17.00         4.96        21.70        16.14        10.13 
TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7645 
        6.38         5.26        10.85         0.23        19.82        49.38 
TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
        4.77        21.90        15.35        19.82        36.69        41.33 
TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7897 
        4.04         3.62        43.79        15.81        30.02        15.98 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
       15.19        12.00         7.20        20.88        21.90         1.35 
TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
        0.26         4.73         7.86        14.17         6.02        11.11 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
        7.40         9.44         8.05        13.28         7.56         9.14 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
       12.46        10.29         8.78        15.45        13.68         3.12 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 
       15.32         9.40         0.30        24.23        23.08        22.85 
TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XN-A8T5 
       16.80         0.39        18.67        13.81        12.99        23.67 
TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        66.28        15.35 

  DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE 
                          3.39                           0.13 
  DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE 
                         71.74                          90.12 
  DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE 
                        15.865                         15.120 
[1] "3.4 - 71.7 (15.9)" "0.1 - 90.1 (15.1)"
[1] "hr=" "1.1"
D43V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 20(15Q15.1) MUTATED         0        0        3        10        21
  DEL PEAK 20(15Q15.1) WILD-TYPE       1        5       12        20       100
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 20(15Q15.1) MUTATED           1        1
  DEL PEAK 20(15Q15.1) WILD-TYPE         4        4
D43V3, multiclass
           clus
vv          DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              5
  STAGE IB                             3                             12
  STAGE IIA                           10                             20
  STAGE IIB                           21                            100
  STAGE III                            1                              4
  STAGE IV                             1                              4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  DEL PEAK 20(15Q15.1) MUTATED     0   5  31   0
  DEL PEAK 20(15Q15.1) WILD-TYPE   7  19 116   4
D43V4, multiclass
    clus
vv   DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE
  T1                            0                              7
  T2                            5                             19
  T3                           31                            116
  T4                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D43V5, binary
                                cls
clus                               0   1
  DEL PEAK 20(15Q15.1) MUTATED    11  23
  DEL PEAK 20(15Q15.1) WILD-TYPE  39 106
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 20(15Q15.1) MUTATED     11   23
  DEL PEAK 20(15Q15.1) WILD-TYPE   39  106
   clus
vv  DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE
  0                           11                             39
  1                           23                            106
[1] 2 2
[1] FALSE
D43V6, binary
                                cls
clus                              0  1
  DEL PEAK 20(15Q15.1) MUTATED   17  1
  DEL PEAK 20(15Q15.1) WILD-TYPE 68  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 20(15Q15.1) MUTATED     17    1
  DEL PEAK 20(15Q15.1) WILD-TYPE   68    4
   clus
vv  DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE
  0                           17                             68
  1                            1                              4
[1] 2 2
[1] FALSE
D43V7, binary
                                cls
clus                              0  1
  DEL PEAK 20(15Q15.1) MUTATED   12 24
  DEL PEAK 20(15Q15.1) WILD-TYPE 71 77
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 20(15Q15.1) MUTATED     12   24
  DEL PEAK 20(15Q15.1) WILD-TYPE   71   77
        clus
vv       DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE
  FEMALE                           12                             71
  MALE                             24                             77
[1] 2 2
[1] FALSE
D43V8, binary
                                cls
clus                               0   1
  DEL PEAK 20(15Q15.1) MUTATED    24  10
  DEL PEAK 20(15Q15.1) WILD-TYPE 101  34
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 20(15Q15.1) MUTATED     24   10
  DEL PEAK 20(15Q15.1) WILD-TYPE  101   34
     clus
vv    DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE
  NO                            24                            101
  YES                           10                             34
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 20(15Q15.1) MUTATED                                    27
  DEL PEAK 20(15Q15.1) WILD-TYPE                                 126
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 20(15Q15.1) MUTATED                                       5
  DEL PEAK 20(15Q15.1) WILD-TYPE                                    20
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 20(15Q15.1) MUTATED                                                  2
  DEL PEAK 20(15Q15.1) WILD-TYPE                                                2
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 20(15Q15.1) MUTATED                                     1
  DEL PEAK 20(15Q15.1) WILD-TYPE                                   0
D43V9, multiclass
                                                  clus
vv                                                 DEL PEAK 20(15Q15.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        27
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 20(15Q15.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         126
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        20
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D43V10, continuous
D43V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 20(15Q15.1) MUTATED   19 11  0  1
  DEL PEAK 20(15Q15.1) WILD-TYPE 92 42  5  3
D43V12, multiclass
    clus
vv   DEL PEAK 20(15Q15.1) MUTATED DEL PEAK 20(15Q15.1) WILD-TYPE
  R0                           19                             92
  R1                           11                             42
  R2                            0                              5
  RX                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D43V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 20(15Q15.1) MUTATED       4                         1    28
  DEL PEAK 20(15Q15.1) WILD-TYPE     7                         6   133
D43V14, multiclass
                           clus
vv                          DEL PEAK 20(15Q15.1) MUTATED
  ASIAN                                                4
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               28
                           clus
vv                          DEL PEAK 20(15Q15.1) WILD-TYPE
  ASIAN                                                  7
  BLACK OR AFRICAN AMERICAN                              6
  WHITE                                                133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D43V15, binary
                                cls
clus                               0   1
  DEL PEAK 20(15Q15.1) MUTATED     2  22
  DEL PEAK 20(15Q15.1) WILD-TYPE   3 114
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 20(15Q15.1) MUTATED      2   22
  DEL PEAK 20(15Q15.1) WILD-TYPE    3  114
                        clus
vv                       DEL PEAK 20(15Q15.1) MUTATED
  HISPANIC OR LATINO                                2
  NOT HISPANIC OR LATINO                           22
                        clus
vv                       DEL PEAK 20(15Q15.1) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            114
[1] 2 2
[1] FALSE

Clustering(44) Variable = DEL PEAK 21(16Q23.1) MUTATION ANALYSIS
D44V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 21(16Q23.1) MUTATED    9 10
  DEL PEAK 21(16Q23.1) WILD-TYPE 74 90
  DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE 
                            19                            164 
  DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE 
                            10                             90 
$`DEL PEAK 21(16Q23.1) MUTATED`
TCGA-3A-A9IL TCGA-HZ-7289 TCGA-2J-AABA TCGA-2J-AABP TCGA-2L-AAQE TCGA-2L-AAQL 
       90.12        21.73        19.96        15.22        22.49         9.60 
TCGA-2L-AAQM TCGA-3A-A9IC TCGA-3A-A9IS TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAQ2 
       45.47        24.26        32.81        11.61        15.95         5.03 
TCGA-FZ-5923 TCGA-HV-A5A4 TCGA-HV-A7OP TCGA-HZ-7918 TCGA-HZ-A8P1 TCGA-IB-AAUQ 
       20.35         7.63        32.15        31.86         0.23         6.02 
TCGA-XN-A8T3 
       31.27 

$`DEL PEAK 21(16Q23.1) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS 
       15.78        13.84        21.60         1.08        15.65        15.12 
TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 
       12.92        17.26        14.14        16.37         2.17        23.97 
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        9.63         2.63        20.61        22.22        22.72        42.31 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       31.86        15.91        14.47         9.11        21.44         4.70 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH 
        3.39        12.95        43.50        20.84         7.36        33.57 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX 
       68.52        63.85        50.70        15.06        36.26        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       10.13        24.43        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 
       19.46         7.10        19.27         3.12        17.00         5.88 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       24.07        16.37        12.33        37.15         7.50        12.53 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FZ-5919 
       34.82        23.54        15.55         4.04         1.02        24.36 
TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 
        2.01         5.10        36.20        17.79        12.89        22.06 
TCGA-HV-A5A3 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HV-AA8X 
        4.21         9.50        66.94         8.28        30.25        17.49 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
       19.50         7.76         0.13        10.32        27.62        20.19 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 
       17.03        23.21        12.03        19.59         3.95         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G 
       12.43        14.93        17.92        17.00         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A9TJ 
       16.14        10.13         6.38         5.26        10.85        19.82 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 
       12.95        49.38         4.77        21.90        15.35        19.82 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       36.69        41.33         4.04         3.62        43.79        15.81 
TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 
       19.66        30.02         3.85        15.98        15.19        17.16 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
       12.00        15.85         7.20        20.88        21.90         1.35 
TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP 
        8.22        15.88         0.26         4.73         7.86        14.17 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
       11.11         7.40         9.44         8.05        13.28         7.56 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
        9.14        12.46        10.29        19.20         8.78        15.45 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM 
       13.68         3.12        15.32         9.40         0.30        24.23 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J 
       23.08        22.85        39.98        16.80         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY 
       13.81        12.99        12.03        23.67        11.51        12.76 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28        15.35 

  DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE 
                          0.23                           0.13 
  DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE 
                         90.12                          75.12 
  DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE 
                        20.350                         15.155 
[1] "0.2 - 90.1 (20.4)" "0.1 - 75.1 (15.2)"
[1] "hr=" "1.4"
D44V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 21(16Q23.1) MUTATED         1        0        3         2        12
  DEL PEAK 21(16Q23.1) WILD-TYPE       0        5       12        28       109
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 21(16Q23.1) MUTATED           0        1
  DEL PEAK 21(16Q23.1) WILD-TYPE         5        4
D44V3, multiclass
           clus
vv          DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             0                              5
  STAGE IB                             3                             12
  STAGE IIA                            2                             28
  STAGE IIB                           12                            109
  STAGE III                            0                              5
  STAGE IV                             1                              4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  DEL PEAK 21(16Q23.1) MUTATED     1   3  14   1
  DEL PEAK 21(16Q23.1) WILD-TYPE   6  21 133   3
D44V4, multiclass
    clus
vv   DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE
  T1                            1                              6
  T2                            3                             21
  T3                           14                            133
  T4                            1                              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D44V5, binary
                                cls
clus                               0   1
  DEL PEAK 21(16Q23.1) MUTATED     4  13
  DEL PEAK 21(16Q23.1) WILD-TYPE  46 116
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(16Q23.1) MUTATED      4   13
  DEL PEAK 21(16Q23.1) WILD-TYPE   46  116
   clus
vv  DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE
  0                            4                             46
  1                           13                            116
[1] 2 2
[1] FALSE
D44V6, binary
                                cls
clus                              0  1
  DEL PEAK 21(16Q23.1) MUTATED    8  1
  DEL PEAK 21(16Q23.1) WILD-TYPE 77  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(16Q23.1) MUTATED      8    1
  DEL PEAK 21(16Q23.1) WILD-TYPE   77    4
   clus
vv  DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE
  0                            8                             77
  1                            1                              4
[1] 2 2
[1] FALSE
D44V7, binary
                                cls
clus                              0  1
  DEL PEAK 21(16Q23.1) MUTATED    5 14
  DEL PEAK 21(16Q23.1) WILD-TYPE 78 87
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(16Q23.1) MUTATED      5   14
  DEL PEAK 21(16Q23.1) WILD-TYPE   78   87
        clus
vv       DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE
  FEMALE                            5                             78
  MALE                             14                             87
[1] 2 2
[1] FALSE
D44V8, binary
                                cls
clus                               0   1
  DEL PEAK 21(16Q23.1) MUTATED    13   5
  DEL PEAK 21(16Q23.1) WILD-TYPE 112  39
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(16Q23.1) MUTATED     13    5
  DEL PEAK 21(16Q23.1) WILD-TYPE  112   39
     clus
vv    DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE
  NO                            13                            112
  YES                            5                             39
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 21(16Q23.1) MUTATED                                    12
  DEL PEAK 21(16Q23.1) WILD-TYPE                                 141
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 21(16Q23.1) MUTATED                                       5
  DEL PEAK 21(16Q23.1) WILD-TYPE                                    20
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 21(16Q23.1) MUTATED                                                  1
  DEL PEAK 21(16Q23.1) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 21(16Q23.1) MUTATED                                     1
  DEL PEAK 21(16Q23.1) WILD-TYPE                                   0
D44V9, multiclass
                                                  clus
vv                                                 DEL PEAK 21(16Q23.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        12
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 21(16Q23.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         141
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        20
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D44V10, continuous
D44V11, continuous
                                vv
clus                              R0  R1  R2  RX
  DEL PEAK 21(16Q23.1) MUTATED    11   5   0   2
  DEL PEAK 21(16Q23.1) WILD-TYPE 100  48   5   2
D44V12, multiclass
    clus
vv   DEL PEAK 21(16Q23.1) MUTATED DEL PEAK 21(16Q23.1) WILD-TYPE
  R0                           11                            100
  R1                            5                             48
  R2                            0                              5
  RX                            2                              2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D44V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 21(16Q23.1) MUTATED       3                         0    16
  DEL PEAK 21(16Q23.1) WILD-TYPE     8                         7   145
D44V14, multiclass
                           clus
vv                          DEL PEAK 21(16Q23.1) MUTATED
  ASIAN                                                3
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               16
                           clus
vv                          DEL PEAK 21(16Q23.1) WILD-TYPE
  ASIAN                                                  8
  BLACK OR AFRICAN AMERICAN                              7
  WHITE                                                145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D44V15, binary
                                cls
clus                               0   1
  DEL PEAK 21(16Q23.1) MUTATED     1  11
  DEL PEAK 21(16Q23.1) WILD-TYPE   4 125
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(16Q23.1) MUTATED      1   11
  DEL PEAK 21(16Q23.1) WILD-TYPE    4  125
                        clus
vv                       DEL PEAK 21(16Q23.1) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           11
                        clus
vv                       DEL PEAK 21(16Q23.1) WILD-TYPE
  HISPANIC OR LATINO                                  4
  NOT HISPANIC OR LATINO                            125
[1] 2 2
[1] FALSE

Clustering(45) Variable = DEL PEAK 22(17P12) MUTATION ANALYSIS
D45V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 22(17P12) MUTATED   34 55
  DEL PEAK 22(17P12) WILD-TYPE 49 45
  DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE 
                          89                           94 
  DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE 
                          55                           45 
$`DEL PEAK 22(17P12) MUTATED`
TCGA-2J-AABT TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-HZ-7289 TCGA-HZ-A4BK 
       10.49         7.66         8.02        15.78        21.73        21.60 
TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO TCGA-XD-AAUL 
        1.08        15.65        15.12        12.92        17.26        16.37 
TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO 
       23.97        22.22        42.31        31.86        15.91        14.47 
TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL 
        9.11         4.70        22.49         3.39        12.95         9.60 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IU TCGA-3A-A9IZ 
       20.84         7.36        24.26        33.57        15.06        10.13 
TCGA-3A-A9J0 TCGA-F2-6879 TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-A78T 
       24.43        10.98         3.12        17.00        24.07        12.33 
TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 
       15.95        37.15         7.50        34.82        23.54        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-H8-A6C1 
        4.04         5.03         1.02        24.36         2.01        22.06 
TCGA-HV-A5A3 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7922 
        4.21        66.94         8.28        17.49        19.50         0.13 
TCGA-HZ-8001 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8636 TCGA-HZ-A49I TCGA-HZ-A4BH 
       23.21         3.95         9.83        17.92        10.13         6.38 
TCGA-HZ-A77O TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7646 TCGA-IB-7649 TCGA-IB-7652 
        5.26        19.82        12.95         4.77        15.35        36.69 
TCGA-IB-7886 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-8127 
        4.04        43.79        15.81        30.02         3.85        17.16 
TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUU 
       15.85        21.90        15.88         4.73         7.86         8.05 
TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-AA2A TCGA-S4-A8RM TCGA-US-A779 
       19.20         8.78        15.45         3.12        24.23        16.80 
TCGA-US-A77G TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-YH-A8SY TCGA-YY-A8LH 
        0.39        12.03        31.27        12.76        66.28 

$`DEL PEAK 22(17P12) WILD-TYPE`
TCGA-2J-AABR TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-H6-A45N TCGA-US-A77E 
       14.40        58.98        60.95        90.12        13.84        14.14 
TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABF 
        2.17         9.63         2.63        20.61        19.96        22.72 
TCGA-2J-AABP TCGA-2J-AABV TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IN TCGA-3A-A9IO 
       15.22        21.44        45.47        43.50        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ 
       50.70        32.81        36.26        34.09        75.12        71.74 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A5VM 
        9.70        19.46         7.10        19.27         5.88        16.37 
TCGA-FB-A7DR TCGA-FB-AAPU TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 
       11.61        12.53         5.10        36.20        20.35        17.79 
TCGA-H6-8124 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HZ-7918 
       12.89         7.63         9.50        32.15        30.25        31.86 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8002 
        7.76        10.32        27.62        20.19        17.03        12.03 
TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G 
       19.59        12.43        14.93        17.00         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7651 
       16.14        10.85         0.23        49.38        21.90        19.82 
TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7890 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO 
       41.33         3.62        19.66        15.98        15.19        12.00 
TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUM TCGA-IB-AAUP 
        7.20        20.88         1.35         8.22         0.26        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        6.02        11.11         7.40         9.44        13.28         7.56 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M 
        9.14        12.46        10.29        13.68        15.32         9.40 
TCGA-RL-AAAS TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A77J TCGA-XD-AAUG 
        0.30        23.08        22.85        39.98        18.67        13.81 
TCGA-XD-AAUH TCGA-XN-A8T5 TCGA-YB-A89D TCGA-Z5-AAPL 
       12.99        23.67        11.51        15.35 

  DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE 
                        0.13                         0.23 
  DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE 
                       66.94                        90.12 
  DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE 
                       15.45                        15.27 
[1] "0.1 - 66.9 (15.4)" "0.2 - 90.1 (15.3)"
[1] "hr=" "1.6"
D45V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 22(17P12) MUTATED         0        2        3        17        61
  DEL PEAK 22(17P12) WILD-TYPE       1        3       12        13        60
                              vv
clus                           STAGE III STAGE IV
  DEL PEAK 22(17P12) MUTATED           3        3
  DEL PEAK 22(17P12) WILD-TYPE         2        2
D45V3, multiclass
           clus
vv          DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE
  STAGE I                            0                            1
  STAGE IA                           2                            3
  STAGE IB                           3                           12
  STAGE IIA                         17                           13
  STAGE IIB                         61                           60
  STAGE III                          3                            2
  STAGE IV                           3                            2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                              vv
clus                           T1 T2 T3 T4
  DEL PEAK 22(17P12) MUTATED    2  9 76  2
  DEL PEAK 22(17P12) WILD-TYPE  5 15 71  2
D45V4, multiclass
    clus
vv   DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE
  T1                          2                            5
  T2                          9                           15
  T3                         76                           71
  T4                          2                            2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D45V5, binary
                              cls
clus                            0  1
  DEL PEAK 22(17P12) MUTATED   23 65
  DEL PEAK 22(17P12) WILD-TYPE 27 64
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 22(17P12) MUTATED     23   65
  DEL PEAK 22(17P12) WILD-TYPE   27   64
   clus
vv  DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE
  0                         23                           27
  1                         65                           64
[1] 2 2
[1] FALSE
D45V6, binary
                              cls
clus                            0  1
  DEL PEAK 22(17P12) MUTATED   38  3
  DEL PEAK 22(17P12) WILD-TYPE 47  2
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 22(17P12) MUTATED     38    3
  DEL PEAK 22(17P12) WILD-TYPE   47    2
   clus
vv  DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE
  0                         38                           47
  1                          3                            2
[1] 2 2
[1] FALSE
D45V7, binary
                              cls
clus                            0  1
  DEL PEAK 22(17P12) MUTATED   39 50
  DEL PEAK 22(17P12) WILD-TYPE 44 51
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 22(17P12) MUTATED     39   50
  DEL PEAK 22(17P12) WILD-TYPE   44   51
        clus
vv       DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE
  FEMALE                         39                           44
  MALE                           50                           51
[1] 2 2
[1] FALSE
D45V8, binary
                              cls
clus                            0  1
  DEL PEAK 22(17P12) MUTATED   61 20
  DEL PEAK 22(17P12) WILD-TYPE 64 24
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 22(17P12) MUTATED     61   20
  DEL PEAK 22(17P12) WILD-TYPE   64   24
     clus
vv    DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE
  NO                          61                           64
  YES                         20                           24
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 22(17P12) MUTATED                                    79
  DEL PEAK 22(17P12) WILD-TYPE                                  74
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 22(17P12) MUTATED                                       9
  DEL PEAK 22(17P12) WILD-TYPE                                    16
                              vv
clus                           PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 22(17P12) MUTATED                                                  0
  DEL PEAK 22(17P12) WILD-TYPE                                                4
                              vv
clus                           PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 22(17P12) MUTATED                                     0
  DEL PEAK 22(17P12) WILD-TYPE                                   1
D45V9, multiclass
                                                  clus
vv                                                 DEL PEAK 22(17P12) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      79
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     9
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                          0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                       0
                                                  clus
vv                                                 DEL PEAK 22(17P12) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        74
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      16
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D45V10, continuous
D45V11, continuous
                              vv
clus                           R0 R1 R2 RX
  DEL PEAK 22(17P12) MUTATED   47 32  2  3
  DEL PEAK 22(17P12) WILD-TYPE 64 21  3  1
D45V12, multiclass
    clus
vv   DEL PEAK 22(17P12) MUTATED DEL PEAK 22(17P12) WILD-TYPE
  R0                         47                           64
  R1                         32                           21
  R2                          2                            3
  RX                          3                            1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D45V13, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 22(17P12) MUTATED       5                         3    79
  DEL PEAK 22(17P12) WILD-TYPE     6                         4    82
D45V14, multiclass
                           clus
vv                          DEL PEAK 22(17P12) MUTATED
  ASIAN                                              5
  BLACK OR AFRICAN AMERICAN                          3
  WHITE                                             79
                           clus
vv                          DEL PEAK 22(17P12) WILD-TYPE
  ASIAN                                                6
  BLACK OR AFRICAN AMERICAN                            4
  WHITE                                               82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D45V15, binary
                              cls
clus                            0  1
  DEL PEAK 22(17P12) MUTATED    2 64
  DEL PEAK 22(17P12) WILD-TYPE  3 72
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 22(17P12) MUTATED      2   64
  DEL PEAK 22(17P12) WILD-TYPE    3   72
                        clus
vv                       DEL PEAK 22(17P12) MUTATED
  HISPANIC OR LATINO                              2
  NOT HISPANIC OR LATINO                         64
                        clus
vv                       DEL PEAK 22(17P12) WILD-TYPE
  HISPANIC OR LATINO                                3
  NOT HISPANIC OR LATINO                           72
[1] 2 2
[1] FALSE

Clustering(46) Variable = DEL PEAK 23(17Q22) MUTATION ANALYSIS
D46V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 23(17Q22) MUTATED   16 33
  DEL PEAK 23(17Q22) WILD-TYPE 67 67
  DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE 
                          49                          134 
  DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE 
                          33                           67 
$`DEL PEAK 23(17Q22) MUTATED`
TCGA-FB-AAQ6 TCGA-HZ-7289 TCGA-LB-A7SX TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABK 
        8.02        21.73        12.92        23.97        22.22        15.91 
TCGA-2J-AABP TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I9 
       15.22         4.70        22.49        12.95         9.60        20.84 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-F2-6879 TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-AAPP 
       24.26        33.57        10.98        17.00        24.07        15.95 
TCGA-FB-AAQ0 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-HV-A5A3 TCGA-HV-AA8X 
       15.55         1.02        24.36         2.01         4.21        17.49 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A77O 
       19.50         0.13         3.95        17.92         6.38         5.26 
TCGA-IB-7644 TCGA-IB-7646 TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 
       12.95         4.77        36.69         4.04         3.62        43.79 
TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-AAUN TCGA-IB-AAUU TCGA-L1-A7W4 
       17.16        15.85        21.90         4.73         8.05         9.14 
TCGA-OE-A75W TCGA-US-A779 TCGA-US-A77G TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-YH-A8SY 
        8.78        16.80         0.39        12.03        31.27        12.76 
TCGA-YY-A8LH 
       66.28 

$`DEL PEAK 23(17Q22) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS 
       15.78        13.84        21.60         1.08        15.65        15.12 
TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AAB8 
       17.26        14.14        16.37         2.17         9.63         2.63 
TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO 
       20.61        19.96        22.72        42.31        31.86        14.47 
TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQI TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IB 
        9.11        21.44         3.39        45.47        43.50         7.36 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV 
       68.52        63.85        50.70        32.81        15.06        36.26 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 
       34.09        10.13        24.43        75.12        71.74         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A5VM 
       19.46         7.10        19.27         3.12         5.88        16.37 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY 
       12.33        11.61        37.15         7.50        12.53        34.82 
TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 
       23.54         4.04         5.03         5.10        36.20        20.35 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 
       17.79        12.89        22.06         7.63         9.50        66.94 
TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7923 
        8.28        32.15        30.25        31.86         7.76        10.32 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
       27.62        20.19        17.03        23.21        12.03        19.59 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G 
        9.83        12.43        14.93        17.00         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7645 
       16.14        10.13        10.85         0.23        19.82        49.38 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7889 TCGA-IB-7890 
       21.90        15.35        19.82        41.33        15.81        19.66 
TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ 
       30.02         3.85        15.98        15.19        12.00         7.20 
TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUO 
       20.88         1.35         8.22        15.88         0.26         7.86 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV 
       14.17         6.02        11.11         7.40         9.44        13.28 
TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY 
        7.56        12.46        10.29        19.20        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP 
        3.12        15.32         9.40         0.30        24.23        23.08 
TCGA-US-A774 TCGA-US-A776 TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XN-A8T5 
       22.85        39.98        18.67        13.81        12.99        23.67 
TCGA-YB-A89D TCGA-Z5-AAPL 
       11.51        15.35 

  DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE 
                        0.13                         0.23 
  DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE 
                       66.28                        90.12 
  DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE 
                       15.22                        15.35 
[1] "0.1 - 66.3 (15.2)" "0.2 - 90.1 (15.3)"
[1] "hr=" "1.6"
D46V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 23(17Q22) MUTATED         0        2        2         8        33
  DEL PEAK 23(17Q22) WILD-TYPE       1        3       13        22        88
                              vv
clus                           STAGE III STAGE IV
  DEL PEAK 23(17Q22) MUTATED           2        2
  DEL PEAK 23(17Q22) WILD-TYPE         3        3
D46V3, multiclass
           clus
vv          DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE
  STAGE I                            0                            1
  STAGE IA                           2                            3
  STAGE IB                           2                           13
  STAGE IIA                          8                           22
  STAGE IIB                         33                           88
  STAGE III                          2                            3
  STAGE IV                           2                            3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                              vv
clus                            T1  T2  T3  T4
  DEL PEAK 23(17Q22) MUTATED     2   5  41   1
  DEL PEAK 23(17Q22) WILD-TYPE   5  19 106   3
D46V4, multiclass
    clus
vv   DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE
  T1                          2                            5
  T2                          5                           19
  T3                         41                          106
  T4                          1                            3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D46V5, binary
                              cls
clus                            0  1
  DEL PEAK 23(17Q22) MUTATED   13 35
  DEL PEAK 23(17Q22) WILD-TYPE 37 94
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 23(17Q22) MUTATED     13   35
  DEL PEAK 23(17Q22) WILD-TYPE   37   94
   clus
vv  DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE
  0                         13                           37
  1                         35                           94
[1] 2 2
[1] FALSE
D46V6, binary
                              cls
clus                            0  1
  DEL PEAK 23(17Q22) MUTATED   23  2
  DEL PEAK 23(17Q22) WILD-TYPE 62  3
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 23(17Q22) MUTATED     23    2
  DEL PEAK 23(17Q22) WILD-TYPE   62    3
   clus
vv  DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE
  0                         23                           62
  1                          2                            3
[1] 2 2
[1] FALSE
D46V7, binary
                              cls
clus                            0  1
  DEL PEAK 23(17Q22) MUTATED   23 26
  DEL PEAK 23(17Q22) WILD-TYPE 60 75
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 23(17Q22) MUTATED     23   26
  DEL PEAK 23(17Q22) WILD-TYPE   60   75
        clus
vv       DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE
  FEMALE                         23                           60
  MALE                           26                           75
[1] 2 2
[1] FALSE
D46V8, binary
                              cls
clus                            0  1
  DEL PEAK 23(17Q22) MUTATED   34 10
  DEL PEAK 23(17Q22) WILD-TYPE 91 34
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 23(17Q22) MUTATED     34   10
  DEL PEAK 23(17Q22) WILD-TYPE   91   34
     clus
vv    DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE
  NO                          34                           91
  YES                         10                           34
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 23(17Q22) MUTATED                                    44
  DEL PEAK 23(17Q22) WILD-TYPE                                 109
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 23(17Q22) MUTATED                                       3
  DEL PEAK 23(17Q22) WILD-TYPE                                    22
                              vv
clus                           PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 23(17Q22) MUTATED                                                  0
  DEL PEAK 23(17Q22) WILD-TYPE                                                4
                              vv
clus                           PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 23(17Q22) MUTATED                                     1
  DEL PEAK 23(17Q22) WILD-TYPE                                   0
D46V9, multiclass
                                                  clus
vv                                                 DEL PEAK 23(17Q22) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      44
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                          0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                       1
                                                  clus
vv                                                 DEL PEAK 23(17Q22) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       109
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      22
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D46V10, continuous
D46V11, continuous
                              vv
clus                           R0 R1 R2 RX
  DEL PEAK 23(17Q22) MUTATED   21 20  2  2
  DEL PEAK 23(17Q22) WILD-TYPE 90 33  3  2
D46V12, multiclass
    clus
vv   DEL PEAK 23(17Q22) MUTATED DEL PEAK 23(17Q22) WILD-TYPE
  R0                         21                           90
  R1                         20                           33
  R2                          2                            3
  RX                          2                            2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D46V13, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 23(17Q22) MUTATED       3                         3    43
  DEL PEAK 23(17Q22) WILD-TYPE     8                         4   118
D46V14, multiclass
                           clus
vv                          DEL PEAK 23(17Q22) MUTATED
  ASIAN                                              3
  BLACK OR AFRICAN AMERICAN                          3
  WHITE                                             43
                           clus
vv                          DEL PEAK 23(17Q22) WILD-TYPE
  ASIAN                                                8
  BLACK OR AFRICAN AMERICAN                            4
  WHITE                                              118
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D46V15, binary
                              cls
clus                             0   1
  DEL PEAK 23(17Q22) MUTATED     1  35
  DEL PEAK 23(17Q22) WILD-TYPE   4 101
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 23(17Q22) MUTATED      1   35
  DEL PEAK 23(17Q22) WILD-TYPE    4  101
                        clus
vv                       DEL PEAK 23(17Q22) MUTATED
  HISPANIC OR LATINO                              1
  NOT HISPANIC OR LATINO                         35
                        clus
vv                       DEL PEAK 23(17Q22) WILD-TYPE
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                          101
[1] 2 2
[1] FALSE

Clustering(47) Variable = DEL PEAK 24(18P11.31) MUTATION ANALYSIS
D47V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 24(18P11.31) MUTATED   27 27
  DEL PEAK 24(18P11.31) WILD-TYPE 56 73
  DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE 
                             54                             129 
  DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE 
                             27                              73 
$`DEL PEAK 24(18P11.31) MUTATED`
TCGA-2J-AABR TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-A4BK 
       14.40         7.66         8.02        15.78        13.84        21.60 
TCGA-HZ-A77Q TCGA-IB-A5SS TCGA-2J-AABK TCGA-2J-AABP TCGA-2L-AAQE TCGA-2L-AAQI 
        1.08        15.12        15.91        15.22        22.49         3.39 
TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9J0 TCGA-3E-AAAZ TCGA-F2-A44H TCGA-F2-A7TX 
       43.50         7.36        24.43        71.74        19.27         3.12 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL 
       16.37        12.33        11.61         9.50        66.94         8.28 
TCGA-HV-A7OP TCGA-HZ-7918 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-8637 
       32.15        31.86        17.03        23.21         9.83        17.00 
TCGA-HZ-A49G TCGA-HZ-A4BH TCGA-HZ-A77P TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7649 
       21.70         6.38        10.85        19.82        12.95        15.35 
TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-A5SO TCGA-IB-A5SQ 
       41.33         4.04        15.81        19.66        12.00         7.20 
TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-M8-A5N4 TCGA-OE-A75W 
       21.90        15.88         0.26        14.17        19.20         8.78 
TCGA-RB-AA9M TCGA-US-A77G TCGA-XD-AAUG TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-YH-A8SY 
        9.40         0.39        13.81        12.03        31.27        12.76 

$`DEL PEAK 24(18P11.31) WILD-TYPE`
TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-HZ-7289 TCGA-IB-7654 
       10.49        58.98        60.95        90.12        21.73        15.65 
TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 
       12.92        17.26        14.14        16.37         2.17        23.97 
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
        9.63         2.63        20.61        19.96        22.22        22.72 
TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       42.31        31.86        14.47         9.11        21.44         4.70 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IH 
       12.95         9.60        45.47        20.84        24.26        33.57 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV 
       68.52        63.85        50.70        32.81        15.06        36.26 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 
       34.09        10.13        75.12        10.98         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPQ 
        7.10        17.00         5.88        24.07        15.95        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 
        7.50        12.53        34.82        23.54        15.55         4.04 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        5.03         1.02        24.36         2.01         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 
       20.35        17.79        12.89        22.06         4.21         7.63 
TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       30.25        17.49        19.50         7.76         0.13        10.32 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8317 
       27.62        20.19        12.03        19.59         3.95        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77O 
       14.93        17.92         4.96        16.14        10.13         5.26 
TCGA-HZ-A8P1 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7651 TCGA-IB-7652 
        0.23        49.38         4.77        21.90        19.82        36.69 
TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 
        3.62        43.79        30.02         3.85        15.98        15.19 
TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUN 
       17.16        15.85        20.88         1.35         8.22         4.73 
TCGA-IB-AAUO TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
        7.86         6.02        11.11         7.40         9.44         8.05 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-PZ-A5RE 
       13.28         7.56         9.14        12.46        10.29        15.45 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP 
       13.68         3.12        15.32         0.30        24.23        23.08 
TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77J TCGA-XD-AAUH TCGA-XN-A8T5 
       22.85        39.98        16.80        18.67        12.99        23.67 
TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        66.28        15.35 

  DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE 
                           0.26                            0.13 
  DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE 
                          71.74                           90.12 
  DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE 
                          14.76                           15.55 
[1] "0.3 - 71.7 (14.8)" "0.1 - 90.1 (15.6)"
[1] "hr=" "1"  
D47V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 24(18P11.31) MUTATED         0        1        4         9        35
  DEL PEAK 24(18P11.31) WILD-TYPE       1        4       11        21        86
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 24(18P11.31) MUTATED           2        3
  DEL PEAK 24(18P11.31) WILD-TYPE         3        2
D47V3, multiclass
           clus
vv          DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE
  STAGE I                               0                               1
  STAGE IA                              1                               4
  STAGE IB                              4                              11
  STAGE IIA                             9                              21
  STAGE IIB                            35                              86
  STAGE III                             2                               3
  STAGE IV                              3                               2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                               T1  T2  T3  T4
  DEL PEAK 24(18P11.31) MUTATED     2   6  45   1
  DEL PEAK 24(18P11.31) WILD-TYPE   5  18 102   3
D47V4, multiclass
    clus
vv   DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE
  T1                             2                               5
  T2                             6                              18
  T3                            45                             102
  T4                             1                               3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D47V5, binary
                                 cls
clus                               0  1
  DEL PEAK 24(18P11.31) MUTATED   14 39
  DEL PEAK 24(18P11.31) WILD-TYPE 36 90
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 24(18P11.31) MUTATED     14   39
  DEL PEAK 24(18P11.31) WILD-TYPE   36   90
   clus
vv  DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE
  0                            14                              36
  1                            39                              90
[1] 2 2
[1] FALSE
D47V6, binary
                                 cls
clus                               0  1
  DEL PEAK 24(18P11.31) MUTATED   29  3
  DEL PEAK 24(18P11.31) WILD-TYPE 56  2
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 24(18P11.31) MUTATED     29    3
  DEL PEAK 24(18P11.31) WILD-TYPE   56    2
   clus
vv  DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE
  0                            29                              56
  1                             3                               2
[1] 2 2
[1] FALSE
D47V7, binary
                                 cls
clus                               0  1
  DEL PEAK 24(18P11.31) MUTATED   22 32
  DEL PEAK 24(18P11.31) WILD-TYPE 61 69
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 24(18P11.31) MUTATED     22   32
  DEL PEAK 24(18P11.31) WILD-TYPE   61   69
        clus
vv       DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE
  FEMALE                            22                              61
  MALE                              32                              69
[1] 2 2
[1] FALSE
D47V8, binary
                                 cls
clus                               0  1
  DEL PEAK 24(18P11.31) MUTATED   35 14
  DEL PEAK 24(18P11.31) WILD-TYPE 90 30
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 24(18P11.31) MUTATED     35   14
  DEL PEAK 24(18P11.31) WILD-TYPE   90   30
     clus
vv    DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE
  NO                             35                              90
  YES                            14                              30
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 24(18P11.31) MUTATED                                    45
  DEL PEAK 24(18P11.31) WILD-TYPE                                 108
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 24(18P11.31) MUTATED                                       6
  DEL PEAK 24(18P11.31) WILD-TYPE                                    19
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 24(18P11.31) MUTATED                                                  1
  DEL PEAK 24(18P11.31) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 24(18P11.31) MUTATED                                     1
  DEL PEAK 24(18P11.31) WILD-TYPE                                   0
D47V9, multiclass
                                                  clus
vv                                                 DEL PEAK 24(18P11.31) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         45
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
                                                  clus
vv                                                 DEL PEAK 24(18P11.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          108
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         19
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                               3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                            0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D47V10, continuous
D47V11, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 24(18P11.31) MUTATED   32 16  1  1
  DEL PEAK 24(18P11.31) WILD-TYPE 79 37  4  3
D47V12, multiclass
    clus
vv   DEL PEAK 24(18P11.31) MUTATED DEL PEAK 24(18P11.31) WILD-TYPE
  R0                            32                              79
  R1                            16                              37
  R2                             1                               4
  RX                             1                               3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D47V13, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 24(18P11.31) MUTATED       5                         2    44
  DEL PEAK 24(18P11.31) WILD-TYPE     6                         5   117
D47V14, multiclass
                           clus
vv                          DEL PEAK 24(18P11.31) MUTATED
  ASIAN                                                 5
  BLACK OR AFRICAN AMERICAN                             2
  WHITE                                                44
                           clus
vv                          DEL PEAK 24(18P11.31) WILD-TYPE
  ASIAN                                                   6
  BLACK OR AFRICAN AMERICAN                               5
  WHITE                                                 117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D47V15, binary
                                 cls
clus                                0   1
  DEL PEAK 24(18P11.31) MUTATED     3  36
  DEL PEAK 24(18P11.31) WILD-TYPE   2 100
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 24(18P11.31) MUTATED      3   36
  DEL PEAK 24(18P11.31) WILD-TYPE    2  100
                        clus
vv                       DEL PEAK 24(18P11.31) MUTATED
  HISPANIC OR LATINO                                 3
  NOT HISPANIC OR LATINO                            36
                        clus
vv                       DEL PEAK 24(18P11.31) WILD-TYPE
  HISPANIC OR LATINO                                   2
  NOT HISPANIC OR LATINO                             100
[1] 2 2
[1] FALSE

Clustering(48) Variable = DEL PEAK 25(18Q21.2) MUTATION ANALYSIS
D48V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 25(18Q21.2) MUTATED   51 74
  DEL PEAK 25(18Q21.2) WILD-TYPE 32 26
  DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE 
                           125                             58 
  DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE 
                            74                             26 
$`DEL PEAK 25(18Q21.2) MUTATED`
TCGA-2J-AABR TCGA-2J-AABT TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N 
       14.40        10.49         7.66         8.02        15.78        13.84 
TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS TCGA-LB-A7SX 
       21.73        21.60         1.08        15.65        15.12        12.92 
TCGA-S4-A8RO TCGA-XD-AAUL TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AABA 
       17.26        16.37        23.97         9.63         2.63        19.96 
TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO 
       22.22        22.72        42.31        31.86        15.91        14.47 
TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ 
        9.11        21.44         4.70        22.49         3.39        12.95 
TCGA-2L-AAQL TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IU 
        9.60        43.50        20.84         7.36        33.57        15.06 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-A44H TCGA-F2-A7TX 
       10.13        24.43        71.74        10.98        19.27         3.12 
TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ 
       17.00        24.07        16.37        12.33        11.61        37.15 
TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ2 TCGA-FB-AAQ3 
       12.53        34.82        23.54        15.55         5.03         1.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
       24.36         2.01         5.10        20.35        17.79        12.89 
TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL 
       22.06         4.21         7.63         9.50        66.94         8.28 
TCGA-HV-A7OP TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7925 TCGA-HZ-7926 
       32.15        17.49        31.86        19.50        20.19        17.03 
TCGA-HZ-8001 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-A49G 
       23.21         3.95         9.83        17.92        17.00        21.70 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ 
       10.13         6.38         5.26        10.85         0.23        19.82 
TCGA-IB-7644 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 
       12.95        21.90        15.35        36.69        41.33         4.04 
TCGA-IB-7887 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-8126 
        3.62        15.81        19.66        30.02         3.85        15.19 
TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A6UF TCGA-IB-A6UG 
       17.16        12.00        15.85         7.20        21.90         1.35 
TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUP TCGA-IB-AAUQ 
        8.22        15.88         0.26         4.73        14.17         6.02 
TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-AA2A 
        8.05         9.14        19.20         8.78        15.45         3.12 
TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A77G 
        9.40        24.23        23.08        22.85        39.98         0.39 
TCGA-XD-AAUG TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-YB-A89D TCGA-YH-A8SY 
       13.81        12.03        31.27        11.51        12.76 

$`DEL PEAK 25(18Q21.2) WILD-TYPE`
TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-US-A77E TCGA-2J-AAB1 TCGA-2J-AAB9 
       58.98        60.95        90.12        14.14         2.17        20.61 
TCGA-2J-AABP TCGA-2L-AAQM TCGA-3A-A9IC TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
       15.22        45.47        24.26        68.52        63.85        50.70 
TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
       32.81        36.26        34.09        75.12         9.70        19.46 
TCGA-F2-7276 TCGA-FB-A4P5 TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAQ1 TCGA-FZ-5922 
        7.10         5.88        15.95         7.50         4.04        36.20 
TCGA-HV-AA8V TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-8002 
       30.25         7.76         0.13        10.32        27.62        12.03 
TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49H TCGA-IB-7645 
       19.59        12.43        14.93         4.96        16.14        49.38 
TCGA-IB-7646 TCGA-IB-7651 TCGA-IB-7888 TCGA-IB-7897 TCGA-IB-A5ST TCGA-IB-AAUO 
        4.77        19.82        43.79        15.98        20.88         7.86 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 
       11.11         7.40         9.44        13.28         7.56        12.46 
TCGA-LB-A9Q5 TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RL-AAAS TCGA-US-A779 TCGA-US-A77J 
       10.29        13.68        15.32         0.30        16.80        18.67 
TCGA-XD-AAUH TCGA-XN-A8T5 TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.99        23.67        66.28        15.35 

  DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE 
                          0.23                           0.13 
  DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE 
                         71.74                          90.12 
  DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE 
                         15.19                          15.65 
[1] "0.2 - 71.7 (15.2)" "0.1 - 90.1 (15.6)"
[1] "hr=" "1.7"
D48V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 25(18Q21.2) MUTATED         0        2        7        24        83
  DEL PEAK 25(18Q21.2) WILD-TYPE       1        3        8         6        38
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 25(18Q21.2) MUTATED           5        5
  DEL PEAK 25(18Q21.2) WILD-TYPE         0        0
D48V3, multiclass
           clus
vv          DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             2                              3
  STAGE IB                             7                              8
  STAGE IIA                           24                              6
  STAGE IIB                           83                             38
  STAGE III                            5                              0
  STAGE IV                             5                              0
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  DEL PEAK 25(18Q21.2) MUTATED     3  14 105   4
  DEL PEAK 25(18Q21.2) WILD-TYPE   4  10  42   0
D48V4, multiclass
    clus
vv   DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE
  T1                            3                              4
  T2                           14                             10
  T3                          105                             42
  T4                            4                              0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D48V5, binary
                                cls
clus                              0  1
  DEL PEAK 25(18Q21.2) MUTATED   33 91
  DEL PEAK 25(18Q21.2) WILD-TYPE 17 38
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(18Q21.2) MUTATED     33   91
  DEL PEAK 25(18Q21.2) WILD-TYPE   17   38
   clus
vv  DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE
  0                           33                             17
  1                           91                             38
[1] 2 2
[1] FALSE
D48V6, binary
                                cls
clus                              0  1
  DEL PEAK 25(18Q21.2) MUTATED   62  5
  DEL PEAK 25(18Q21.2) WILD-TYPE 23  0
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(18Q21.2) MUTATED     62    5
  DEL PEAK 25(18Q21.2) WILD-TYPE   23    0
   clus
vv  DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE
  0                           62                             23
  1                            5                              0
[1] 2 2
[1] FALSE
D48V7, binary
                                cls
clus                              0  1
  DEL PEAK 25(18Q21.2) MUTATED   50 76
  DEL PEAK 25(18Q21.2) WILD-TYPE 33 25
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(18Q21.2) MUTATED     50   76
  DEL PEAK 25(18Q21.2) WILD-TYPE   33   25
        clus
vv       DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE
  FEMALE                           50                             33
  MALE                             76                             25
[1] 2 2
[1] FALSE
D48V8, binary
                                cls
clus                              0  1
  DEL PEAK 25(18Q21.2) MUTATED   87 28
  DEL PEAK 25(18Q21.2) WILD-TYPE 38 16
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(18Q21.2) MUTATED     87   28
  DEL PEAK 25(18Q21.2) WILD-TYPE   38   16
     clus
vv    DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE
  NO                            87                             38
  YES                           28                             16
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 25(18Q21.2) MUTATED                                   111
  DEL PEAK 25(18Q21.2) WILD-TYPE                                  42
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 25(18Q21.2) MUTATED                                      12
  DEL PEAK 25(18Q21.2) WILD-TYPE                                    13
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 25(18Q21.2) MUTATED                                                  2
  DEL PEAK 25(18Q21.2) WILD-TYPE                                                2
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 25(18Q21.2) MUTATED                                     0
  DEL PEAK 25(18Q21.2) WILD-TYPE                                   1
D48V9, multiclass
                                                  clus
vv                                                 DEL PEAK 25(18Q21.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       111
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      12
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK 25(18Q21.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          42
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D48V10, continuous
D48V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 25(18Q21.2) MUTATED   68 41  3  4
  DEL PEAK 25(18Q21.2) WILD-TYPE 43 12  2  0
D48V12, multiclass
    clus
vv   DEL PEAK 25(18Q21.2) MUTATED DEL PEAK 25(18Q21.2) WILD-TYPE
  R0                           68                             43
  R1                           41                             12
  R2                            3                              2
  RX                            4                              0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D48V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 25(18Q21.2) MUTATED      10                         4   108
  DEL PEAK 25(18Q21.2) WILD-TYPE     1                         3    53
D48V14, multiclass
                           clus
vv                          DEL PEAK 25(18Q21.2) MUTATED
  ASIAN                                               10
  BLACK OR AFRICAN AMERICAN                            4
  WHITE                                              108
                           clus
vv                          DEL PEAK 25(18Q21.2) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              3
  WHITE                                                 53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D48V15, binary
                                cls
clus                              0  1
  DEL PEAK 25(18Q21.2) MUTATED    4 86
  DEL PEAK 25(18Q21.2) WILD-TYPE  1 50
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(18Q21.2) MUTATED      4   86
  DEL PEAK 25(18Q21.2) WILD-TYPE    1   50
                        clus
vv                       DEL PEAK 25(18Q21.2) MUTATED
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                           86
                        clus
vv                       DEL PEAK 25(18Q21.2) WILD-TYPE
  HISPANIC OR LATINO                                  1
  NOT HISPANIC OR LATINO                             50
[1] 2 2
[1] FALSE

Clustering(49) Variable = DEL PEAK 26(19P13.3) MUTATION ANALYSIS
D49V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 26(19P13.3) MUTATED   16 20
  DEL PEAK 26(19P13.3) WILD-TYPE 67 80
  DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE 
                            36                            147 
  DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE 
                            20                             80 
$`DEL PEAK 26(19P13.3) MUTATED`
TCGA-IB-A5SS TCGA-LB-A7SX TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU 
       15.12        12.92        31.86        14.47        15.22         9.11 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IU TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-6879 
       24.26        33.57        15.06        10.13        24.43        10.98 
TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-AAPP TCGA-FB-AAPY TCGA-FB-AAQ2 TCGA-H6-8124 
        3.12        17.00        15.95        34.82         5.03        12.89 
TCGA-HV-A5A6 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A9TJ 
       66.94         0.13         3.95        17.92         6.38        19.82 
TCGA-IB-7646 TCGA-IB-7885 TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUQ 
        4.77        41.33        21.90         1.35         8.22         6.02 
TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-US-A776 TCGA-US-A77G TCGA-XN-A8T3 TCGA-YH-A8SY 
        8.05         9.14        39.98         0.39        31.27        12.76 

$`DEL PEAK 26(19P13.3) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 
       15.65        17.26        14.14        16.37         2.17        23.97 
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
        9.63         2.63        20.61        19.96        22.22        22.72 
TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       42.31        15.91        21.44         4.70        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
       12.95         9.60        45.47        43.50        20.84         7.36 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9IX 
       68.52        63.85        50.70        32.81        36.26        34.09 
TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H 
       75.12        71.74         9.70        19.46         7.10        19.27 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ 
        5.88        24.07        16.37        12.33        11.61        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ3 
        7.50        12.53        23.54        15.55         4.04         1.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 
       24.36         2.01         5.10        36.20        20.35        17.79 
TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HV-A7OP 
       22.06         4.21         7.63         9.50         8.28        32.15 
TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 
       30.25        17.49        31.86        19.50         7.76        10.32 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
       27.62        20.19        17.03        23.21        12.03        19.59 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G 
        9.83        12.43        14.93        17.00         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 
       16.14        10.13         5.26        10.85         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7886 
       49.38        21.90        15.35        19.82        36.69         4.04 
TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 
        3.62        43.79        15.81        19.66        30.02         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98        15.19        17.16        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP 
       20.88        15.88         0.26         4.73         7.86        14.17 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 
       11.11         7.40         9.44        13.28         7.56        12.46 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
       10.29        19.20         8.78        15.45        13.68         3.12 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 
       15.32         9.40         0.30        24.23        23.08        22.85 
TCGA-US-A779 TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T5 
       16.80        18.67        13.81        12.99        12.03        23.67 
TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        66.28        15.35 

  DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE 
                          0.13                           0.23 
  DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE 
                         66.94                          90.12 
  DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE 
                        13.695                         15.650 
[1] "0.1 - 66.9 (13.7)" "0.2 - 90.1 (15.7)"
[1] "hr=" "1.2"
D49V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 26(19P13.3) MUTATED         0        1        1         3        28
  DEL PEAK 26(19P13.3) WILD-TYPE       1        4       14        27        93
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 26(19P13.3) MUTATED           1        2
  DEL PEAK 26(19P13.3) WILD-TYPE         4        3
D49V3, multiclass
           clus
vv          DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              4
  STAGE IB                             1                             14
  STAGE IIA                            3                             27
  STAGE IIB                           28                             93
  STAGE III                            1                              4
  STAGE IV                             2                              3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  DEL PEAK 26(19P13.3) MUTATED     1   2  33   0
  DEL PEAK 26(19P13.3) WILD-TYPE   6  22 114   4
D49V4, multiclass
    clus
vv   DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE
  T1                            1                              6
  T2                            2                             22
  T3                           33                            114
  T4                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D49V5, binary
                                cls
clus                               0   1
  DEL PEAK 26(19P13.3) MUTATED     7  29
  DEL PEAK 26(19P13.3) WILD-TYPE  43 100
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(19P13.3) MUTATED      7   29
  DEL PEAK 26(19P13.3) WILD-TYPE   43  100
   clus
vv  DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE
  0                            7                             43
  1                           29                            100
[1] 2 2
[1] FALSE
D49V6, binary
                                cls
clus                              0  1
  DEL PEAK 26(19P13.3) MUTATED   18  2
  DEL PEAK 26(19P13.3) WILD-TYPE 67  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(19P13.3) MUTATED     18    2
  DEL PEAK 26(19P13.3) WILD-TYPE   67    3
   clus
vv  DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE
  0                           18                             67
  1                            2                              3
[1] 2 2
[1] FALSE
D49V7, binary
                                cls
clus                              0  1
  DEL PEAK 26(19P13.3) MUTATED   14 22
  DEL PEAK 26(19P13.3) WILD-TYPE 69 79
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(19P13.3) MUTATED     14   22
  DEL PEAK 26(19P13.3) WILD-TYPE   69   79
        clus
vv       DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE
  FEMALE                           14                             69
  MALE                             22                             79
[1] 2 2
[1] FALSE
D49V8, binary
                                cls
clus                               0   1
  DEL PEAK 26(19P13.3) MUTATED    25   8
  DEL PEAK 26(19P13.3) WILD-TYPE 100  36
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(19P13.3) MUTATED     25    8
  DEL PEAK 26(19P13.3) WILD-TYPE  100   36
     clus
vv    DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE
  NO                            25                            100
  YES                            8                             36
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 26(19P13.3) MUTATED                                    30
  DEL PEAK 26(19P13.3) WILD-TYPE                                 123
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 26(19P13.3) MUTATED                                       3
  DEL PEAK 26(19P13.3) WILD-TYPE                                    22
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 26(19P13.3) MUTATED                                                  1
  DEL PEAK 26(19P13.3) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 26(19P13.3) MUTATED                                     1
  DEL PEAK 26(19P13.3) WILD-TYPE                                   0
D49V9, multiclass
                                                  clus
vv                                                 DEL PEAK 26(19P13.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        30
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 26(19P13.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         123
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        22
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D49V10, continuous
D49V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 26(19P13.3) MUTATED   21 13  1  0
  DEL PEAK 26(19P13.3) WILD-TYPE 90 40  4  4
D49V12, multiclass
    clus
vv   DEL PEAK 26(19P13.3) MUTATED DEL PEAK 26(19P13.3) WILD-TYPE
  R0                           21                             90
  R1                           13                             40
  R2                            1                              4
  RX                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D49V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 26(19P13.3) MUTATED       1                         1    34
  DEL PEAK 26(19P13.3) WILD-TYPE    10                         6   127
D49V14, multiclass
                           clus
vv                          DEL PEAK 26(19P13.3) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               34
                           clus
vv                          DEL PEAK 26(19P13.3) WILD-TYPE
  ASIAN                                                 10
  BLACK OR AFRICAN AMERICAN                              6
  WHITE                                                127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D49V15, binary
                                cls
clus                               0   1
  DEL PEAK 26(19P13.3) MUTATED     2  26
  DEL PEAK 26(19P13.3) WILD-TYPE   3 110
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(19P13.3) MUTATED      2   26
  DEL PEAK 26(19P13.3) WILD-TYPE    3  110
                        clus
vv                       DEL PEAK 26(19P13.3) MUTATED
  HISPANIC OR LATINO                                2
  NOT HISPANIC OR LATINO                           26
                        clus
vv                       DEL PEAK 26(19P13.3) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            110
[1] 2 2
[1] FALSE

Clustering(50) Variable = DEL PEAK 27(19P13.2) MUTATION ANALYSIS
D50V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 27(19P13.2) MUTATED   14 14
  DEL PEAK 27(19P13.2) WILD-TYPE 69 86
  DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE 
                            28                            155 
  DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE 
                            14                             86 
$`DEL PEAK 27(19P13.2) MUTATED`
TCGA-FZ-5924 TCGA-LB-A7SX TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU 
       15.78        12.92        31.86        14.47        15.22         9.11 
TCGA-3A-A9IC TCGA-3A-A9IU TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-A7TX TCGA-F2-A8YN 
       24.26        15.06        10.13        24.43         3.12        17.00 
TCGA-FB-AAPP TCGA-H6-8124 TCGA-HV-A5A6 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-A9TJ 
       15.95        12.89        66.94         0.13         3.95        19.82 
TCGA-IB-7646 TCGA-IB-7885 TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUU 
        4.77        41.33        21.90         1.35         8.22         8.05 
TCGA-L1-A7W4 TCGA-US-A776 TCGA-XN-A8T3 TCGA-YH-A8SY 
        9.14        39.98        31.27        12.76 

$`DEL PEAK 27(19P13.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
        8.02        13.84        21.73        21.60         1.08        15.65 
TCGA-IB-A5SS TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB4 
       15.12        17.26        14.14        16.37         2.17        23.97 
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
        9.63         2.63        20.61        19.96        22.22        22.72 
TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       42.31        15.91        21.44         4.70        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
       12.95         9.60        45.47        43.50        20.84         7.36 
TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IV 
       33.57        68.52        63.85        50.70        32.81        36.26 
TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 
       34.09        75.12        71.74        10.98         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
        7.10        19.27         5.88        24.07        16.37        12.33 
TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ 
       11.61        37.15         7.50        12.53        34.82        23.54 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 
       15.55         4.04         5.03         1.02        24.36         2.01 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HV-A5A3 
        5.10        36.20        20.35        17.79        22.06         4.21 
TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X 
        7.63         9.50         8.28        32.15        30.25        17.49 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
       31.86        19.50         7.76        10.32        27.62        20.19 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
       17.03        23.21        12.03        19.59         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       14.93        17.92        17.00         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 
       10.13         6.38         5.26        10.85         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7886 
       49.38        21.90        15.35        19.82        36.69         4.04 
TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 
        3.62        43.79        15.81        19.66        30.02         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98        15.19        17.16        12.00        15.85         7.20 
TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP 
       20.88        15.88         0.26         4.73         7.86        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        6.02        11.11         7.40         9.44        13.28         7.56 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
       12.46        10.29        19.20         8.78        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP 
        3.12        15.32         9.40         0.30        24.23        23.08 
TCGA-US-A774 TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       22.85        16.80         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        23.67        11.51        66.28        15.35 

  DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE 
                          0.13                           0.23 
  DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE 
                         66.94                          90.12 
  DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE 
                        14.765                         15.450 
[1] "0.1 - 66.9 (14.8)" "0.2 - 90.1 (15.4)"
[1] "hr=" "1"  
D50V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 27(19P13.2) MUTATED         0        0        1         4        21
  DEL PEAK 27(19P13.2) WILD-TYPE       1        5       14        26       100
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 27(19P13.2) MUTATED           1        1
  DEL PEAK 27(19P13.2) WILD-TYPE         4        4
D50V3, multiclass
           clus
vv          DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              5
  STAGE IB                             1                             14
  STAGE IIA                            4                             26
  STAGE IIB                           21                            100
  STAGE III                            1                              4
  STAGE IV                             1                              4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              T1  T2  T3  T4
  DEL PEAK 27(19P13.2) MUTATED     0   1  27   0
  DEL PEAK 27(19P13.2) WILD-TYPE   7  23 120   4
D50V4, multiclass
    clus
vv   DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE
  T1                            0                              7
  T2                            1                             23
  T3                           27                            120
  T4                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D50V5, binary
                                cls
clus                               0   1
  DEL PEAK 27(19P13.2) MUTATED     5  23
  DEL PEAK 27(19P13.2) WILD-TYPE  45 106
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(19P13.2) MUTATED      5   23
  DEL PEAK 27(19P13.2) WILD-TYPE   45  106
   clus
vv  DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE
  0                            5                             45
  1                           23                            106
[1] 2 2
[1] FALSE
D50V6, binary
                                cls
clus                              0  1
  DEL PEAK 27(19P13.2) MUTATED   16  1
  DEL PEAK 27(19P13.2) WILD-TYPE 69  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(19P13.2) MUTATED     16    1
  DEL PEAK 27(19P13.2) WILD-TYPE   69    4
   clus
vv  DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE
  0                           16                             69
  1                            1                              4
[1] 2 2
[1] FALSE
D50V7, binary
                                cls
clus                              0  1
  DEL PEAK 27(19P13.2) MUTATED   10 18
  DEL PEAK 27(19P13.2) WILD-TYPE 73 83
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(19P13.2) MUTATED     10   18
  DEL PEAK 27(19P13.2) WILD-TYPE   73   83
        clus
vv       DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE
  FEMALE                           10                             73
  MALE                             18                             83
[1] 2 2
[1] FALSE
D50V8, binary
                                cls
clus                               0   1
  DEL PEAK 27(19P13.2) MUTATED    20   7
  DEL PEAK 27(19P13.2) WILD-TYPE 105  37
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(19P13.2) MUTATED     20    7
  DEL PEAK 27(19P13.2) WILD-TYPE  105   37
     clus
vv    DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE
  NO                            20                            105
  YES                            7                             37
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 27(19P13.2) MUTATED                                    23
  DEL PEAK 27(19P13.2) WILD-TYPE                                 130
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 27(19P13.2) MUTATED                                       2
  DEL PEAK 27(19P13.2) WILD-TYPE                                    23
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 27(19P13.2) MUTATED                                                  1
  DEL PEAK 27(19P13.2) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 27(19P13.2) MUTATED                                     1
  DEL PEAK 27(19P13.2) WILD-TYPE                                   0
D50V9, multiclass
                                                  clus
vv                                                 DEL PEAK 27(19P13.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        23
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 27(19P13.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         130
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        23
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D50V10, continuous
D50V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 27(19P13.2) MUTATED   17  9  1  0
  DEL PEAK 27(19P13.2) WILD-TYPE 94 44  4  4
D50V12, multiclass
    clus
vv   DEL PEAK 27(19P13.2) MUTATED DEL PEAK 27(19P13.2) WILD-TYPE
  R0                           17                             94
  R1                            9                             44
  R2                            1                              4
  RX                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D50V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 27(19P13.2) MUTATED       1                         1    26
  DEL PEAK 27(19P13.2) WILD-TYPE    10                         6   135
D50V14, multiclass
                           clus
vv                          DEL PEAK 27(19P13.2) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               26
                           clus
vv                          DEL PEAK 27(19P13.2) WILD-TYPE
  ASIAN                                                 10
  BLACK OR AFRICAN AMERICAN                              6
  WHITE                                                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D50V15, binary
                                cls
clus                               0   1
  DEL PEAK 27(19P13.2) MUTATED     2  20
  DEL PEAK 27(19P13.2) WILD-TYPE   3 116
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(19P13.2) MUTATED      2   20
  DEL PEAK 27(19P13.2) WILD-TYPE    3  116
                        clus
vv                       DEL PEAK 27(19P13.2) MUTATED
  HISPANIC OR LATINO                                2
  NOT HISPANIC OR LATINO                           20
                        clus
vv                       DEL PEAK 27(19P13.2) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            116
[1] 2 2
[1] FALSE

Clustering(51) Variable = DEL PEAK 28(19Q13.33) MUTATION ANALYSIS
D51V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 28(19Q13.33) MUTATED    9 12
  DEL PEAK 28(19Q13.33) WILD-TYPE 74 88
  DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE 
                             21                             162 
  DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE 
                             12                              88 
$`DEL PEAK 28(19Q13.33) MUTATED`
TCGA-IB-A5SS TCGA-XD-AAUL TCGA-2J-AAB4 TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABU 
       15.12        16.37        23.97        31.86        14.47         9.11 
TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FZ-5920 TCGA-HZ-8005 TCGA-HZ-A49I 
       11.61        15.95        37.15         2.01         3.95        10.13 
TCGA-HZ-A4BH TCGA-IB-7646 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-A7LX TCGA-IB-AAUU 
        6.38         4.77        36.69        41.33         8.22         8.05 
TCGA-US-A776 TCGA-US-A77G TCGA-XD-AAUI 
       39.98         0.39        12.03 

$`DEL PEAK 28(19Q13.33) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G 
       14.40        10.49        58.98        60.95        90.12         7.66 
TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q 
        8.02        15.78        13.84        21.73        21.60         1.08 
TCGA-IB-7654 TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-2J-AAB1 TCGA-2J-AAB6 
       15.65        12.92        17.26        14.14         2.17         9.63 
TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        2.63        20.61        19.96        22.22        22.72        42.31 
TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       15.91        15.22        21.44         4.70        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
       12.95         9.60        45.47        43.50        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       24.26        33.57        68.52        63.85        50.70        32.81 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY 
       15.06        36.26        34.09        10.13        24.43        75.12 
TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H 
       71.74        10.98         9.70        19.46         7.10        19.27 
TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
        3.12        17.00         5.88        24.07        16.37        12.33 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 
        7.50        12.53        34.82        23.54        15.55         4.04 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 
        5.03         1.02        24.36         5.10        36.20        20.35 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A5 
       17.79        12.89        22.06         4.21         7.63         9.50 
TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-A7OP TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7918 
       66.94         8.28        32.15        30.25        17.49        31.86 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
       19.50         7.76         0.13        10.32        27.62        20.19 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
       17.03        23.21        12.03        19.59         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       14.93        17.92        17.00         4.96        21.70        16.14 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7645 
        5.26        10.85         0.23        19.82        12.95        49.38 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 
       21.90        15.35        19.82         4.04         3.62        43.79 
TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 
       15.81        19.66        30.02         3.85        15.98        15.19 
TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF 
       17.16        12.00        15.85         7.20        20.88        21.90 
TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP 
        1.35        15.88         0.26         4.73         7.86        14.17 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        6.02        11.11         7.40         9.44        13.28         7.56 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
        9.14        12.46        10.29        19.20         8.78        15.45 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM 
       13.68         3.12        15.32         9.40         0.30        24.23 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       23.08        22.85        16.80        18.67        13.81        12.99 
TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       31.27        23.67        11.51        12.76        66.28        15.35 

  DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE 
                           0.39                            0.13 
  DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE 
                          41.33                           90.12 
  DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE 
                          12.03                           15.50 
[1] "0.4 - 41.3 (12.0)" "0.1 - 90.1 (15.5)"
[1] "hr=" "1.2"
D51V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 28(19Q13.33) MUTATED         0        0        0         4        18
  DEL PEAK 28(19Q13.33) WILD-TYPE       1        5       15        26       103
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 28(19Q13.33) MUTATED           0        0
  DEL PEAK 28(19Q13.33) WILD-TYPE         5        5
D51V3, multiclass
           clus
vv          DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE
  STAGE I                               0                               1
  STAGE IA                              0                               5
  STAGE IB                              0                              15
  STAGE IIA                             4                              26
  STAGE IIB                            18                             103
  STAGE III                             0                               5
  STAGE IV                              0                               5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                               T1  T2  T3  T4
  DEL PEAK 28(19Q13.33) MUTATED     0   1  21   0
  DEL PEAK 28(19Q13.33) WILD-TYPE   7  23 126   4
D51V4, multiclass
    clus
vv   DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE
  T1                             0                               7
  T2                             1                              23
  T3                            21                             126
  T4                             0                               4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D51V5, binary
                                 cls
clus                                0   1
  DEL PEAK 28(19Q13.33) MUTATED     3  18
  DEL PEAK 28(19Q13.33) WILD-TYPE  47 111
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 28(19Q13.33) MUTATED      3   18
  DEL PEAK 28(19Q13.33) WILD-TYPE   47  111
   clus
vv  DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE
  0                             3                              47
  1                            18                             111
[1] 2 2
[1] FALSE
D51V6, binary
                                 cls
clus                               0  1
  DEL PEAK 28(19Q13.33) MUTATED   11  0
  DEL PEAK 28(19Q13.33) WILD-TYPE 74  5
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 28(19Q13.33) MUTATED     11    0
  DEL PEAK 28(19Q13.33) WILD-TYPE   74    5
   clus
vv  DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE
  0                            11                              74
  1                             0                               5
[1] 2 2
[1] FALSE
D51V7, binary
                                 cls
clus                               0  1
  DEL PEAK 28(19Q13.33) MUTATED    5 17
  DEL PEAK 28(19Q13.33) WILD-TYPE 78 84
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 28(19Q13.33) MUTATED      5   17
  DEL PEAK 28(19Q13.33) WILD-TYPE   78   84
        clus
vv       DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE
  FEMALE                             5                              78
  MALE                              17                              84
[1] 2 2
[1] FALSE
D51V8, binary
                                 cls
clus                                0   1
  DEL PEAK 28(19Q13.33) MUTATED    16   4
  DEL PEAK 28(19Q13.33) WILD-TYPE 109  40
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 28(19Q13.33) MUTATED     16    4
  DEL PEAK 28(19Q13.33) WILD-TYPE  109   40
     clus
vv    DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE
  NO                             16                             109
  YES                             4                              40
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 28(19Q13.33) MUTATED                                    18
  DEL PEAK 28(19Q13.33) WILD-TYPE                                 135
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 28(19Q13.33) MUTATED                                       2
  DEL PEAK 28(19Q13.33) WILD-TYPE                                    23
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 28(19Q13.33) MUTATED                                                  2
  DEL PEAK 28(19Q13.33) WILD-TYPE                                                2
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 28(19Q13.33) MUTATED                                     0
  DEL PEAK 28(19Q13.33) WILD-TYPE                                   1
D51V9, multiclass
                                                  clus
vv                                                 DEL PEAK 28(19Q13.33) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         18
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 DEL PEAK 28(19Q13.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          135
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         23
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                               2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                            1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D51V10, continuous
D51V11, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 28(19Q13.33) MUTATED   16  6  0  0
  DEL PEAK 28(19Q13.33) WILD-TYPE 95 47  5  4
D51V12, multiclass
    clus
vv   DEL PEAK 28(19Q13.33) MUTATED DEL PEAK 28(19Q13.33) WILD-TYPE
  R0                            16                              95
  R1                             6                              47
  R2                             0                               5
  RX                             0                               4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D51V13, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 28(19Q13.33) MUTATED       2                         1    19
  DEL PEAK 28(19Q13.33) WILD-TYPE     9                         6   142
D51V14, multiclass
                           clus
vv                          DEL PEAK 28(19Q13.33) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                19
                           clus
vv                          DEL PEAK 28(19Q13.33) WILD-TYPE
  ASIAN                                                   9
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D51V15, binary
                                 cls
clus                                0   1
  DEL PEAK 28(19Q13.33) MUTATED     0  17
  DEL PEAK 28(19Q13.33) WILD-TYPE   5 119
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 28(19Q13.33) MUTATED      0   17
  DEL PEAK 28(19Q13.33) WILD-TYPE    5  119
                        clus
vv                       DEL PEAK 28(19Q13.33) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            17
                        clus
vv                       DEL PEAK 28(19Q13.33) WILD-TYPE
  HISPANIC OR LATINO                                   5
  NOT HISPANIC OR LATINO                             119
[1] 2 2
[1] FALSE

Clustering(52) Variable = DEL PEAK 29(21Q11.2) MUTATION ANALYSIS
D52V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 29(21Q11.2) MUTATED   27 35
  DEL PEAK 29(21Q11.2) WILD-TYPE 56 65
  DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE 
                            62                            121 
  DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE 
                            35                             65 
$`DEL PEAK 29(21Q11.2) MUTATED`
TCGA-2J-AABT TCGA-FZ-5924 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-A5SS TCGA-LB-A7SX 
       10.49        15.78        21.60         1.08        15.12        12.92 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2L-AAQE TCGA-2L-AAQL TCGA-2L-AAQM 
       15.91        14.47        15.22        22.49         9.60        45.47 
TCGA-3A-A9I9 TCGA-3A-A9IS TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-A7TX TCGA-F2-A8YN 
       20.84        32.81        10.13        24.43         3.12        17.00 
TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPY TCGA-FB-AAQ0 
       24.07        12.33        15.95        37.15        34.82        15.55 
TCGA-FB-AAQ3 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 
        1.02         2.01         5.10        17.79        12.89        22.06 
TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OP TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 
        9.50        66.94        32.15        31.86        19.50         0.13 
TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A9TJ 
        3.95        17.92        17.00         6.38         5.26        19.82 
TCGA-IB-7644 TCGA-IB-7646 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7886 
       12.95         4.77        15.35        19.82        41.33         4.04 
TCGA-IB-7887 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUO 
        3.62        15.85        21.90         1.35         8.22         7.86 
TCGA-IB-AAUP TCGA-IB-AAUU TCGA-OE-A75W TCGA-Q3-AA2A TCGA-US-A77G TCGA-XN-A8T3 
       14.17         8.05         8.78         3.12         0.39        31.27 
TCGA-YB-A89D TCGA-YY-A8LH 
       11.51        66.28 

$`DEL PEAK 29(21Q11.2) WILD-TYPE`
TCGA-2J-AABR TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        58.98        60.95        90.12         7.66         8.02 
TCGA-H6-A45N TCGA-HZ-7289 TCGA-IB-7654 TCGA-S4-A8RO TCGA-US-A77E TCGA-XD-AAUL 
       13.84        21.73        15.65        17.26        14.14        16.37 
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA 
        2.17        23.97         9.63         2.63        20.61        19.96 
TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABU TCGA-2J-AABV 
       22.22        22.72        42.31        31.86         9.11        21.44 
TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IC 
        4.70         3.39        12.95        43.50         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV 
       33.57        68.52        63.85        50.70        15.06        36.26 
TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 
       34.09        75.12        71.74        10.98         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPS 
        7.10        19.27         5.88        16.37        11.61         7.50 
TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5919 TCGA-FZ-5922 
       12.53        23.54         4.04         5.03        24.36        36.20 
TCGA-FZ-5923 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HV-AA8X 
       20.35         4.21         7.63         8.28        30.25        17.49 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76        10.32        27.62        20.19        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 
       12.03        19.59         9.83        12.43        14.93         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7645 
       21.70        16.14        10.13        10.85         0.23        49.38 
TCGA-IB-7647 TCGA-IB-7652 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 
       21.90        36.69        43.79        15.81        19.66        30.02 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ 
        3.85        15.98        15.19        17.16        12.00         7.20 
TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUQ TCGA-IB-AAUR 
       20.88        15.88         0.26         4.73         6.02        11.11 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 
        7.40         9.44        13.28         7.56         9.14        12.46 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M 
       10.29        19.20        15.45        13.68        15.32         9.40 
TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 
        0.30        24.23        23.08        22.85        39.98        16.80 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T5 TCGA-YH-A8SY 
       18.67        13.81        12.99        12.03        23.67        12.76 
TCGA-Z5-AAPL 
       15.35 

  DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE 
                          0.13                           0.23 
  DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE 
                         66.94                          90.12 
  DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE 
                         15.17                          15.45 
[1] "0.1 - 66.9 (15.2)" "0.2 - 90.1 (15.4)"
[1] "hr=" "1.2"
D52V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 29(21Q11.2) MUTATED         0        0        3         7        48
  DEL PEAK 29(21Q11.2) WILD-TYPE       1        5       12        23        73
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 29(21Q11.2) MUTATED           1        3
  DEL PEAK 29(21Q11.2) WILD-TYPE         4        2
D52V3, multiclass
           clus
vv          DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              5
  STAGE IB                             3                             12
  STAGE IIA                            7                             23
  STAGE IIB                           48                             73
  STAGE III                            1                              4
  STAGE IV                             3                              2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             T1 T2 T3 T4
  DEL PEAK 29(21Q11.2) MUTATED    0  4 58  0
  DEL PEAK 29(21Q11.2) WILD-TYPE  7 20 89  4
D52V4, multiclass
    clus
vv   DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE
  T1                            0                              7
  T2                            4                             20
  T3                           58                             89
  T4                            0                              4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D52V5, binary
                                cls
clus                              0  1
  DEL PEAK 29(21Q11.2) MUTATED   10 52
  DEL PEAK 29(21Q11.2) WILD-TYPE 40 77
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(21Q11.2) MUTATED     10   52
  DEL PEAK 29(21Q11.2) WILD-TYPE   40   77
   clus
vv  DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE
  0                           10                             40
  1                           52                             77
[1] 2 2
[1] FALSE
D52V6, binary
                                cls
clus                              0  1
  DEL PEAK 29(21Q11.2) MUTATED   34  3
  DEL PEAK 29(21Q11.2) WILD-TYPE 51  2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(21Q11.2) MUTATED     34    3
  DEL PEAK 29(21Q11.2) WILD-TYPE   51    2
   clus
vv  DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE
  0                           34                             51
  1                            3                              2
[1] 2 2
[1] FALSE
D52V7, binary
                                cls
clus                              0  1
  DEL PEAK 29(21Q11.2) MUTATED   26 36
  DEL PEAK 29(21Q11.2) WILD-TYPE 57 65
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(21Q11.2) MUTATED     26   36
  DEL PEAK 29(21Q11.2) WILD-TYPE   57   65
        clus
vv       DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE
  FEMALE                           26                             57
  MALE                             36                             65
[1] 2 2
[1] FALSE
D52V8, binary
                                cls
clus                              0  1
  DEL PEAK 29(21Q11.2) MUTATED   40 16
  DEL PEAK 29(21Q11.2) WILD-TYPE 85 28
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(21Q11.2) MUTATED     40   16
  DEL PEAK 29(21Q11.2) WILD-TYPE   85   28
     clus
vv    DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE
  NO                            40                             85
  YES                           16                             28
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 29(21Q11.2) MUTATED                                    54
  DEL PEAK 29(21Q11.2) WILD-TYPE                                  99
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 29(21Q11.2) MUTATED                                       7
  DEL PEAK 29(21Q11.2) WILD-TYPE                                    18
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 29(21Q11.2) MUTATED                                                  0
  DEL PEAK 29(21Q11.2) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 29(21Q11.2) MUTATED                                     1
  DEL PEAK 29(21Q11.2) WILD-TYPE                                   0
D52V9, multiclass
                                                  clus
vv                                                 DEL PEAK 29(21Q11.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        54
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       7
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 29(21Q11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          99
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        18
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D52V10, continuous
D52V11, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 29(21Q11.2) MUTATED   35 22  0  2
  DEL PEAK 29(21Q11.2) WILD-TYPE 76 31  5  2
D52V12, multiclass
    clus
vv   DEL PEAK 29(21Q11.2) MUTATED DEL PEAK 29(21Q11.2) WILD-TYPE
  R0                           35                             76
  R1                           22                             31
  R2                            0                              5
  RX                            2                              2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D52V13, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 29(21Q11.2) MUTATED       3                         2    55
  DEL PEAK 29(21Q11.2) WILD-TYPE     8                         5   106
D52V14, multiclass
                           clus
vv                          DEL PEAK 29(21Q11.2) MUTATED
  ASIAN                                                3
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               55
                           clus
vv                          DEL PEAK 29(21Q11.2) WILD-TYPE
  ASIAN                                                  8
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D52V15, binary
                                cls
clus                              0  1
  DEL PEAK 29(21Q11.2) MUTATED    3 44
  DEL PEAK 29(21Q11.2) WILD-TYPE  2 92
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(21Q11.2) MUTATED      3   44
  DEL PEAK 29(21Q11.2) WILD-TYPE    2   92
                        clus
vv                       DEL PEAK 29(21Q11.2) MUTATED
  HISPANIC OR LATINO                                3
  NOT HISPANIC OR LATINO                           44
                        clus
vv                       DEL PEAK 29(21Q11.2) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                             92
[1] 2 2
[1] FALSE

Clustering(53) Variable = DEL PEAK 30(22Q13.31) MUTATION ANALYSIS
D53V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 30(22Q13.31) MUTATED   27 33
  DEL PEAK 30(22Q13.31) WILD-TYPE 56 67
  DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE 
                             60                             123 
  DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE 
                             33                              67 
$`DEL PEAK 30(22Q13.31) MUTATED`
TCGA-2J-AABT TCGA-3A-A9IL TCGA-FZ-5924 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 
       10.49        90.12        15.78        21.60         1.08        15.65 
TCGA-XD-AAUL TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO 
       16.37         2.63        22.72        42.31        31.86        14.47 
TCGA-2L-AAQE TCGA-2L-AAQM TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IU TCGA-F2-6879 
       22.49        45.47        20.84        24.26        15.06        10.98 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPU TCGA-FB-AAPZ 
       19.27        17.00        12.33        11.61        12.53        23.54 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 
       15.55         4.04         5.03         1.02        24.36         2.01 
TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HZ-7919 TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A4BH 
        9.50         8.28        19.50         3.95        17.92         6.38 
TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7646 TCGA-IB-7886 
        5.26         0.23        19.82        12.95         4.77         4.04 
TCGA-IB-7891 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX 
       30.02        17.16        15.85        21.90         1.35         8.22 
TCGA-IB-A7M4 TCGA-IB-AAUO TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-OE-A75W TCGA-PZ-A5RE 
       15.88         7.86         8.05         9.14         8.78        15.45 
TCGA-RB-AA9M TCGA-S4-A8RP TCGA-US-A779 TCGA-XN-A8T3 TCGA-YB-A89D TCGA-YY-A8LH 
        9.40        23.08        16.80        31.27        11.51        66.28 

$`DEL PEAK 30(22Q13.31) WILD-TYPE`
TCGA-2J-AABR TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 TCGA-H6-A45N 
       14.40        58.98        60.95         7.66         8.02        13.84 
TCGA-HZ-7289 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E TCGA-2J-AAB1 
       21.73        15.12        12.92        17.26        14.14         2.17 
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABK 
       23.97         9.63        20.61        19.96        22.22        15.91 
TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ 
       15.22         9.11        21.44         4.70         3.39        12.95 
TCGA-2L-AAQL TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO 
        9.60        43.50         7.36        33.57        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 
       50.70        32.81        36.26        34.09        10.13        24.43 
TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A7TX 
       75.12        71.74         9.70        19.46         7.10         3.12 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS 
        5.88        24.07        16.37        15.95        37.15         7.50 
TCGA-FB-AAPY TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
       34.82         5.10        36.20        20.35        17.79        12.89 
TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A6 TCGA-HV-A7OP TCGA-HV-AA8V 
       22.06         4.21         7.63        66.94        32.15        30.25 
TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
       17.49        31.86         7.76         0.13        10.32        27.62 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 
       20.19        17.03        23.21        12.03        19.59         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       12.43        14.93        17.00         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A77P TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 
       10.13        10.85        49.38        21.90        15.35        19.82 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 
       36.69        41.33         3.62        43.79        15.81        19.66 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST 
        3.85        15.98        15.19        12.00         7.20        20.88 
TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
        0.26         4.73        14.17         6.02        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
        9.44        13.28         7.56        12.46        10.29        19.20 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RL-AAAS TCGA-S4-A8RM TCGA-US-A774 
       13.68         3.12        15.32         0.30        24.23        22.85 
TCGA-US-A776 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI 
       39.98         0.39        18.67        13.81        12.99        12.03 
TCGA-XN-A8T5 TCGA-YH-A8SY TCGA-Z5-AAPL 
       23.67        12.76        15.35 

  DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE 
                           0.23                            0.13 
  DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE 
                          90.12                           75.12 
  DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE 
                         15.255                          15.350 
[1] "0.2 - 90.1 (15.3)" "0.1 - 75.1 (15.3)"
[1] "hr=" "1.2"
D53V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 30(22Q13.31) MUTATED         1        0        2        13        41
  DEL PEAK 30(22Q13.31) WILD-TYPE       0        5       13        17        80
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 30(22Q13.31) MUTATED           0        3
  DEL PEAK 30(22Q13.31) WILD-TYPE         5        2
D53V3, multiclass
           clus
vv          DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE
  STAGE I                               1                               0
  STAGE IA                              0                               5
  STAGE IB                              2                              13
  STAGE IIA                            13                              17
  STAGE IIB                            41                              80
  STAGE III                             0                               5
  STAGE IV                              3                               2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              T1 T2 T3 T4
  DEL PEAK 30(22Q13.31) MUTATED    2  5 53  0
  DEL PEAK 30(22Q13.31) WILD-TYPE  5 19 94  4
D53V4, multiclass
    clus
vv   DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE
  T1                             2                               5
  T2                             5                              19
  T3                            53                              94
  T4                             0                               4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D53V5, binary
                                 cls
clus                               0  1
  DEL PEAK 30(22Q13.31) MUTATED   15 43
  DEL PEAK 30(22Q13.31) WILD-TYPE 35 86
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 30(22Q13.31) MUTATED     15   43
  DEL PEAK 30(22Q13.31) WILD-TYPE   35   86
   clus
vv  DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE
  0                            15                              35
  1                            43                              86
[1] 2 2
[1] FALSE
D53V6, binary
                                 cls
clus                               0  1
  DEL PEAK 30(22Q13.31) MUTATED   29  3
  DEL PEAK 30(22Q13.31) WILD-TYPE 56  2
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 30(22Q13.31) MUTATED     29    3
  DEL PEAK 30(22Q13.31) WILD-TYPE   56    2
   clus
vv  DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE
  0                            29                              56
  1                             3                               2
[1] 2 2
[1] FALSE
D53V7, binary
                                 cls
clus                               0  1
  DEL PEAK 30(22Q13.31) MUTATED   22 38
  DEL PEAK 30(22Q13.31) WILD-TYPE 61 63
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 30(22Q13.31) MUTATED     22   38
  DEL PEAK 30(22Q13.31) WILD-TYPE   61   63
        clus
vv       DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE
  FEMALE                            22                              61
  MALE                              38                              63
[1] 2 2
[1] FALSE
D53V8, binary
                                 cls
clus                               0  1
  DEL PEAK 30(22Q13.31) MUTATED   38 14
  DEL PEAK 30(22Q13.31) WILD-TYPE 87 30
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 30(22Q13.31) MUTATED     38   14
  DEL PEAK 30(22Q13.31) WILD-TYPE   87   30
     clus
vv    DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE
  NO                             38                              87
  YES                            14                              30
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 30(22Q13.31) MUTATED                                    51
  DEL PEAK 30(22Q13.31) WILD-TYPE                                 102
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 30(22Q13.31) MUTATED                                       8
  DEL PEAK 30(22Q13.31) WILD-TYPE                                    17
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 30(22Q13.31) MUTATED                                                  1
  DEL PEAK 30(22Q13.31) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 30(22Q13.31) MUTATED                                     0
  DEL PEAK 30(22Q13.31) WILD-TYPE                                   1
D53V9, multiclass
                                                  clus
vv                                                 DEL PEAK 30(22Q13.31) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         51
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 DEL PEAK 30(22Q13.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          102
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         17
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                               3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                            1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D53V10, continuous
D53V11, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 30(22Q13.31) MUTATED   34 21  2  0
  DEL PEAK 30(22Q13.31) WILD-TYPE 77 32  3  4
D53V12, multiclass
    clus
vv   DEL PEAK 30(22Q13.31) MUTATED DEL PEAK 30(22Q13.31) WILD-TYPE
  R0                            34                              77
  R1                            21                              32
  R2                             2                               3
  RX                             0                               4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D53V13, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 30(22Q13.31) MUTATED       4                         1    55
  DEL PEAK 30(22Q13.31) WILD-TYPE     7                         6   106
D53V14, multiclass
                           clus
vv                          DEL PEAK 30(22Q13.31) MUTATED
  ASIAN                                                 4
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                55
                           clus
vv                          DEL PEAK 30(22Q13.31) WILD-TYPE
  ASIAN                                                   7
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D53V15, binary
                                 cls
clus                               0  1
  DEL PEAK 30(22Q13.31) MUTATED    1 45
  DEL PEAK 30(22Q13.31) WILD-TYPE  4 91
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 30(22Q13.31) MUTATED      1   45
  DEL PEAK 30(22Q13.31) WILD-TYPE    4   91
                        clus
vv                       DEL PEAK 30(22Q13.31) MUTATED
  HISPANIC OR LATINO                                 1
  NOT HISPANIC OR LATINO                            45
                        clus
vv                       DEL PEAK 30(22Q13.31) WILD-TYPE
  HISPANIC OR LATINO                                   4
  NOT HISPANIC OR LATINO                              91
[1] 2 2
[1] FALSE

Clustering(54) Variable = DEL PEAK 31(22Q13.32) MUTATION ANALYSIS
D54V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 31(22Q13.32) MUTATED   27 34
  DEL PEAK 31(22Q13.32) WILD-TYPE 56 66
  DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE 
                             61                             122 
  DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE 
                             34                              66 
$`DEL PEAK 31(22Q13.32) MUTATED`
TCGA-3A-A9IL TCGA-FZ-5924 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-XD-AAUL 
       90.12        15.78        21.60         1.08        15.65        16.37 
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-2L-AAQE 
        2.63        22.72        42.31        31.86        14.47        22.49 
TCGA-2L-AAQM TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IU TCGA-F2-6879 
       45.47        20.84        24.26        33.57        15.06        10.98 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPU TCGA-FB-AAPZ 
       19.27        17.00        12.33        11.61        12.53        23.54 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 
       15.55         4.04         5.03         1.02        24.36         2.01 
TCGA-HV-A5A5 TCGA-HV-A7OL TCGA-HZ-7919 TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A4BH 
        9.50         8.28        19.50         3.95        17.92         6.38 
TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-7644 TCGA-IB-7646 TCGA-IB-7649 
        5.26         0.23        19.82        12.95         4.77        15.35 
TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A6UG 
        4.04        30.02        17.16        15.85        21.90         1.35 
TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUO TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-OE-A75W 
        8.22        15.88         7.86         8.05         9.14         8.78 
TCGA-PZ-A5RE TCGA-RB-AA9M TCGA-US-A779 TCGA-XD-AAUI TCGA-XN-A8T3 TCGA-YB-A89D 
       15.45         9.40        16.80        12.03        31.27        11.51 
TCGA-YY-A8LH 
       66.28 

$`DEL PEAK 31(22Q13.32) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-H6-A45N TCGA-HZ-7289 TCGA-IB-A5SS TCGA-LB-A7SX TCGA-S4-A8RO TCGA-US-A77E 
       13.84        21.73        15.12        12.92        17.26        14.14 
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE 
        2.17        23.97         9.63        20.61        19.96        22.22 
TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI 
       15.91        15.22         9.11        21.44         4.70         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IN TCGA-3A-A9IO 
       12.95         9.60        43.50         7.36        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 
       50.70        32.81        36.26        34.09        10.13        24.43 
TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A7TX 
       75.12        71.74         9.70        19.46         7.10         3.12 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS 
        5.88        24.07        16.37        15.95        37.15         7.50 
TCGA-FB-AAPY TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
       34.82         5.10        36.20        20.35        17.79        12.89 
TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 TCGA-HV-A5A6 TCGA-HV-A7OP TCGA-HV-AA8V 
       22.06         4.21         7.63        66.94        32.15        30.25 
TCGA-HV-AA8X TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
       17.49        31.86         7.76         0.13        10.32        27.62 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 
       20.19        17.03        23.21        12.03        19.59         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       12.43        14.93        17.00         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A77P TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7651 TCGA-IB-7652 
       10.13        10.85        49.38        21.90        19.82        36.69 
TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7893 
       41.33         3.62        43.79        15.81        19.66         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-AAUM 
       15.98        15.19        12.00         7.20        20.88         0.26 
TCGA-IB-AAUN TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        4.73        14.17         6.02        11.11         7.40         9.44 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-Q3-A5QY 
       13.28         7.56        12.46        10.29        19.20        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 
        3.12        15.32         0.30        24.23        23.08        22.85 
TCGA-US-A776 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XN-A8T5 
       39.98         0.39        18.67        13.81        12.99        23.67 
TCGA-YH-A8SY TCGA-Z5-AAPL 
       12.76        15.35 

  DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE 
                           0.23                            0.13 
  DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE 
                          90.12                           75.12 
  DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE 
                         15.350                          15.335 
[1] "0.2 - 90.1 (15.3)" "0.1 - 75.1 (15.3)"
[1] "hr=" "1.2"
D54V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 31(22Q13.32) MUTATED         1        1        2        13        41
  DEL PEAK 31(22Q13.32) WILD-TYPE       0        4       13        17        80
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 31(22Q13.32) MUTATED           0        3
  DEL PEAK 31(22Q13.32) WILD-TYPE         5        2
D54V3, multiclass
           clus
vv          DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE
  STAGE I                               1                               0
  STAGE IA                              1                               4
  STAGE IB                              2                              13
  STAGE IIA                            13                              17
  STAGE IIB                            41                              80
  STAGE III                             0                               5
  STAGE IV                              3                               2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              T1 T2 T3 T4
  DEL PEAK 31(22Q13.32) MUTATED    3  5 53  0
  DEL PEAK 31(22Q13.32) WILD-TYPE  4 19 94  4
D54V4, multiclass
    clus
vv   DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE
  T1                             3                               4
  T2                             5                              19
  T3                            53                              94
  T4                             0                               4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D54V5, binary
                                 cls
clus                               0  1
  DEL PEAK 31(22Q13.32) MUTATED   16 43
  DEL PEAK 31(22Q13.32) WILD-TYPE 34 86
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 31(22Q13.32) MUTATED     16   43
  DEL PEAK 31(22Q13.32) WILD-TYPE   34   86
   clus
vv  DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE
  0                            16                              34
  1                            43                              86
[1] 2 2
[1] FALSE
D54V6, binary
                                 cls
clus                               0  1
  DEL PEAK 31(22Q13.32) MUTATED   29  3
  DEL PEAK 31(22Q13.32) WILD-TYPE 56  2
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 31(22Q13.32) MUTATED     29    3
  DEL PEAK 31(22Q13.32) WILD-TYPE   56    2
   clus
vv  DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE
  0                            29                              56
  1                             3                               2
[1] 2 2
[1] FALSE
D54V7, binary
                                 cls
clus                               0  1
  DEL PEAK 31(22Q13.32) MUTATED   23 38
  DEL PEAK 31(22Q13.32) WILD-TYPE 60 63
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 31(22Q13.32) MUTATED     23   38
  DEL PEAK 31(22Q13.32) WILD-TYPE   60   63
        clus
vv       DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE
  FEMALE                            23                              60
  MALE                              38                              63
[1] 2 2
[1] FALSE
D54V8, binary
                                 cls
clus                               0  1
  DEL PEAK 31(22Q13.32) MUTATED   41 13
  DEL PEAK 31(22Q13.32) WILD-TYPE 84 31
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 31(22Q13.32) MUTATED     41   13
  DEL PEAK 31(22Q13.32) WILD-TYPE   84   31
     clus
vv    DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE
  NO                             41                              84
  YES                            13                              31
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 31(22Q13.32) MUTATED                                    52
  DEL PEAK 31(22Q13.32) WILD-TYPE                                 101
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 31(22Q13.32) MUTATED                                       8
  DEL PEAK 31(22Q13.32) WILD-TYPE                                    17
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 31(22Q13.32) MUTATED                                                  1
  DEL PEAK 31(22Q13.32) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 31(22Q13.32) MUTATED                                     0
  DEL PEAK 31(22Q13.32) WILD-TYPE                                   1
D54V9, multiclass
                                                  clus
vv                                                 DEL PEAK 31(22Q13.32) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         52
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 DEL PEAK 31(22Q13.32) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          101
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         17
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                               3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                            1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D54V10, continuous
D54V11, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 31(22Q13.32) MUTATED   33 23  2  0
  DEL PEAK 31(22Q13.32) WILD-TYPE 78 30  3  4
D54V12, multiclass
    clus
vv   DEL PEAK 31(22Q13.32) MUTATED DEL PEAK 31(22Q13.32) WILD-TYPE
  R0                            33                              78
  R1                            23                              30
  R2                             2                               3
  RX                             0                               4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D54V13, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 31(22Q13.32) MUTATED       4                         1    55
  DEL PEAK 31(22Q13.32) WILD-TYPE     7                         6   106
D54V14, multiclass
                           clus
vv                          DEL PEAK 31(22Q13.32) MUTATED
  ASIAN                                                 4
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                55
                           clus
vv                          DEL PEAK 31(22Q13.32) WILD-TYPE
  ASIAN                                                   7
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D54V15, binary
                                 cls
clus                               0  1
  DEL PEAK 31(22Q13.32) MUTATED    1 47
  DEL PEAK 31(22Q13.32) WILD-TYPE  4 89
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 31(22Q13.32) MUTATED      1   47
  DEL PEAK 31(22Q13.32) WILD-TYPE    4   89
                        clus
vv                       DEL PEAK 31(22Q13.32) MUTATED
  HISPANIC OR LATINO                                 1
  NOT HISPANIC OR LATINO                            47
                        clus
vv                       DEL PEAK 31(22Q13.32) WILD-TYPE
  HISPANIC OR LATINO                                   4
  NOT HISPANIC OR LATINO                              89
[1] 2 2
[1] FALSE

Clustering(55) Variable = DEL PEAK 32(XP21.1) MUTATION ANALYSIS
D55V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 32(XP21.1) MUTATED   15 13
  DEL PEAK 32(XP21.1) WILD-TYPE 68 87
  DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE 
                           28                           155 
  DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE 
                           13                            87 
$`DEL PEAK 32(XP21.1) MUTATED`
TCGA-3A-A9IL TCGA-FZ-5924 TCGA-S4-A8RO TCGA-2J-AAB4 TCGA-2J-AABI TCGA-2J-AABU 
       90.12        15.78        17.26        23.97        31.86         9.11 
TCGA-2L-AAQE TCGA-3A-A9I9 TCGA-3A-A9IS TCGA-F2-6879 TCGA-F2-A8YN TCGA-FB-A78T 
       22.49        20.84        32.81        10.98        17.00        12.33 
TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-H6-8124 TCGA-HV-A7OP TCGA-HZ-7918 TCGA-HZ-8001 
       23.54        15.55        12.89        32.15        31.86        23.21 
TCGA-HZ-8637 TCGA-HZ-A8P1 TCGA-HZ-A9TJ TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUN 
       17.00         0.23        19.82         1.35         8.22         4.73 
TCGA-OE-A75W TCGA-Q3-AA2A TCGA-US-A774 TCGA-YY-A8LH 
        8.78         3.12        22.85        66.28 

$`DEL PEAK 32(XP21.1) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS 
       13.84        21.73        21.60         1.08        15.65        15.12 
TCGA-LB-A7SX TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AAB8 
       12.92        14.14        16.37         2.17         9.63         2.63 
TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABK 
       20.61        19.96        22.22        22.72        42.31        15.91 
TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ 
       14.47        15.22        21.44         4.70         3.39        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH 
        9.60        45.47        43.50         7.36        24.26        33.57 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX 
       68.52        63.85        50.70        15.06        36.26        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 
       10.13        24.43        75.12        71.74         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
        7.10        19.27         3.12         5.88        24.07        16.37 
TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY 
       11.61        15.95        37.15         7.50        12.53        34.82 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 
        4.04         5.03         1.02        24.36         2.01         5.10 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HV-A5A3 TCGA-HV-A5A4 
       36.20        20.35        17.79        22.06         4.21         7.63 
TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HV-AA8X TCGA-HZ-7919 
        9.50        66.94         8.28        30.25        17.49        19.50 
TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
        7.76         0.13        10.32        27.62        20.19        17.03 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
       12.03        19.59         3.95         9.83        12.43        14.93 
TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH 
       17.92         4.96        21.70        16.14        10.13         6.38 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 
        5.26        10.85        12.95        49.38         4.77        21.90 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 
       15.35        19.82        36.69        41.33         4.04         3.62 
TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 
       43.79        15.81        19.66        30.02         3.85        15.98 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST 
       15.19        17.16        12.00        15.85         7.20        20.88 
TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ 
       21.90        15.88         0.26         7.86        14.17         6.02 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
       11.11         7.40         9.44         8.05        13.28         7.56 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY 
        9.14        12.46        10.29        19.20        15.45        13.68 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A776 
       15.32         9.40         0.30        24.23        23.08        39.98 
TCGA-US-A779 TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI 
       16.80         0.39        18.67        13.81        12.99        12.03 
TCGA-XN-A8T3 TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-Z5-AAPL 
       31.27        23.67        11.51        12.76        15.35 

  DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE 
                         0.23                          0.13 
  DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE 
                        90.12                         75.12 
  DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE 
                        17.13                         15.12 
[1] "0.2 - 90.1 (17.1)" "0.1 - 75.1 (15.1)"
[1] "hr=" "1.4"
D55V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 32(XP21.1) MUTATED         1        0        4         6        15
  DEL PEAK 32(XP21.1) WILD-TYPE       0        5       11        24       106
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 32(XP21.1) MUTATED           1        1
  DEL PEAK 32(XP21.1) WILD-TYPE         4        4
D55V3, multiclass
           clus
vv          DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            0                             5
  STAGE IB                            4                            11
  STAGE IIA                           6                            24
  STAGE IIB                          15                           106
  STAGE III                           1                             4
  STAGE IV                            1                             4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  DEL PEAK 32(XP21.1) MUTATED     1   5  21   1
  DEL PEAK 32(XP21.1) WILD-TYPE   6  19 126   3
D55V4, multiclass
    clus
vv   DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE
  T1                           1                             6
  T2                           5                            19
  T3                          21                           126
  T4                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D55V5, binary
                               cls
clus                              0   1
  DEL PEAK 32(XP21.1) MUTATED    10  17
  DEL PEAK 32(XP21.1) WILD-TYPE  40 112
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 32(XP21.1) MUTATED     10   17
  DEL PEAK 32(XP21.1) WILD-TYPE   40  112
   clus
vv  DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE
  0                          10                            40
  1                          17                           112
[1] 2 2
[1] FALSE
D55V6, binary
                               cls
clus                             0  1
  DEL PEAK 32(XP21.1) MUTATED   14  1
  DEL PEAK 32(XP21.1) WILD-TYPE 71  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 32(XP21.1) MUTATED     14    1
  DEL PEAK 32(XP21.1) WILD-TYPE   71    4
   clus
vv  DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE
  0                          14                            71
  1                           1                             4
[1] 2 2
[1] FALSE
D55V7, binary
                               cls
clus                             0  1
  DEL PEAK 32(XP21.1) MUTATED   10 18
  DEL PEAK 32(XP21.1) WILD-TYPE 73 83
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 32(XP21.1) MUTATED     10   18
  DEL PEAK 32(XP21.1) WILD-TYPE   73   83
        clus
vv       DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE
  FEMALE                          10                            73
  MALE                            18                            83
[1] 2 2
[1] FALSE
D55V8, binary
                               cls
clus                              0   1
  DEL PEAK 32(XP21.1) MUTATED    18   9
  DEL PEAK 32(XP21.1) WILD-TYPE 107  35
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 32(XP21.1) MUTATED     18    9
  DEL PEAK 32(XP21.1) WILD-TYPE  107   35
     clus
vv    DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE
  NO                           18                           107
  YES                           9                            35
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 32(XP21.1) MUTATED                                    21
  DEL PEAK 32(XP21.1) WILD-TYPE                                 132
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 32(XP21.1) MUTATED                                       7
  DEL PEAK 32(XP21.1) WILD-TYPE                                    18
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 32(XP21.1) MUTATED                                                  0
  DEL PEAK 32(XP21.1) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 32(XP21.1) MUTATED                                     0
  DEL PEAK 32(XP21.1) WILD-TYPE                                   1
D55V9, multiclass
                                                  clus
vv                                                 DEL PEAK 32(XP21.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       21
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      7
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 32(XP21.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        132
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       18
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D55V10, continuous
D55V11, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 32(XP21.1) MUTATED   23  4  0  1
  DEL PEAK 32(XP21.1) WILD-TYPE 88 49  5  3
D55V12, multiclass
    clus
vv   DEL PEAK 32(XP21.1) MUTATED DEL PEAK 32(XP21.1) WILD-TYPE
  R0                          23                            88
  R1                           4                            49
  R2                           0                             5
  RX                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D55V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 32(XP21.1) MUTATED       1                         0    27
  DEL PEAK 32(XP21.1) WILD-TYPE    10                         7   134
D55V14, multiclass
                           clus
vv                          DEL PEAK 32(XP21.1) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              27
                           clus
vv                          DEL PEAK 32(XP21.1) WILD-TYPE
  ASIAN                                                10
  BLACK OR AFRICAN AMERICAN                             7
  WHITE                                               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D55V15, binary
                               cls
clus                              0   1
  DEL PEAK 32(XP21.1) MUTATED     1  21
  DEL PEAK 32(XP21.1) WILD-TYPE   4 115
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 32(XP21.1) MUTATED      1   21
  DEL PEAK 32(XP21.1) WILD-TYPE    4  115
                        clus
vv                       DEL PEAK 32(XP21.1) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          21
                        clus
vv                       DEL PEAK 32(XP21.1) WILD-TYPE
  HISPANIC OR LATINO                                 4
  NOT HISPANIC OR LATINO                           115
[1] 2 2
[1] FALSE

Clustering(56) Variable = DEL PEAK 33(XQ11.2) MUTATION ANALYSIS
D56V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 33(XQ11.2) MUTATED   12 11
  DEL PEAK 33(XQ11.2) WILD-TYPE 71 89
  DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE 
                           23                           160 
  DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE 
                           11                            89 
$`DEL PEAK 33(XQ11.2) MUTATED`
TCGA-3A-A9IL TCGA-FZ-5924 TCGA-HZ-7289 TCGA-LB-A7SX TCGA-2J-AAB4 TCGA-2J-AABI 
       90.12        15.78        21.73        12.92        23.97        31.86 
TCGA-2J-AABU TCGA-2L-AAQE TCGA-3A-A9I9 TCGA-F2-6879 TCGA-F2-A8YN TCGA-FB-AAPZ 
        9.11        22.49        20.84        10.98        17.00        23.54 
TCGA-FZ-5920 TCGA-H6-8124 TCGA-HV-A7OP TCGA-HZ-7918 TCGA-HZ-A8P1 TCGA-HZ-A9TJ 
        2.01        12.89        32.15        31.86         0.23        19.82 
TCGA-IB-7646 TCGA-IB-AAUN TCGA-OE-A75W TCGA-US-A776 TCGA-YY-A8LH 
        4.77         4.73         8.78        39.98        66.28 

$`DEL PEAK 33(XQ11.2) WILD-TYPE`
TCGA-2J-AABR TCGA-2J-AABT TCGA-3A-A9I5 TCGA-3A-A9IJ TCGA-F2-A44G TCGA-FB-AAQ6 
       14.40        10.49        58.98        60.95         7.66         8.02 
TCGA-H6-A45N TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-IB-7654 TCGA-IB-A5SS TCGA-S4-A8RO 
       13.84        21.60         1.08        15.65        15.12        17.26 
TCGA-US-A77E TCGA-XD-AAUL TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 
       14.14        16.37         2.17         9.63         2.63        20.61 
TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABO 
       19.96        22.22        22.72        42.31        15.91        14.47 
TCGA-2J-AABP TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL 
       15.22        21.44         4.70         3.39        12.95         9.60 
TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IN 
       45.47        43.50         7.36        24.26        33.57        68.52 
TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX 
       63.85        50.70        32.81        15.06        36.26        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 
       10.13        24.43        75.12        71.74         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
        7.10        19.27         3.12         5.88        24.07        16.37 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       12.33        11.61        15.95        37.15         7.50        12.53 
TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 
       34.82        15.55         4.04         5.03         1.02        24.36 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HV-A5A3 
        5.10        36.20        20.35        17.79        22.06         4.21 
TCGA-HV-A5A4 TCGA-HV-A5A5 TCGA-HV-A5A6 TCGA-HV-A7OL TCGA-HV-AA8V TCGA-HV-AA8X 
        7.63         9.50        66.94         8.28        30.25        17.49 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
       19.50         7.76         0.13        10.32        27.62        20.19 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 
       17.03        23.21        12.03        19.59         3.95         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G 
       12.43        14.93        17.92        17.00         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-IB-7644 
       16.14        10.13         6.38         5.26        10.85        12.95 
TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
       49.38        21.90        15.35        19.82        36.69        41.33 
TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 
        4.04         3.62        43.79        15.81        19.66        30.02 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
        3.85        15.98        15.19        17.16        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 
        7.20        20.88        21.90         1.35         8.22        15.88 
TCGA-IB-AAUM TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
        0.26         7.86        14.17         6.02        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 
        9.44         8.05        13.28         7.56         9.14        12.46 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
       10.29        19.20        15.45        13.68         3.12        15.32 
TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 
        9.40         0.30        24.23        23.08        22.85        16.80 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XN-A8T3 
        0.39        18.67        13.81        12.99        12.03        31.27 
TCGA-XN-A8T5 TCGA-YB-A89D TCGA-YH-A8SY TCGA-Z5-AAPL 
       23.67        11.51        12.76        15.35 

  DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE 
                         0.23                          0.13 
  DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE 
                        90.12                         75.12 
  DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE 
                       19.820                        15.205 
[1] "0.2 - 90.1 (19.8)" "0.1 - 75.1 (15.2)"
[1] "hr=" "1.4"
D56V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 33(XQ11.2) MUTATED         1        0        2         6        13
  DEL PEAK 33(XQ11.2) WILD-TYPE       0        5       13        24       108
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 33(XQ11.2) MUTATED           0        1
  DEL PEAK 33(XQ11.2) WILD-TYPE         5        4
D56V3, multiclass
           clus
vv          DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            0                             5
  STAGE IB                            2                            13
  STAGE IIA                           6                            24
  STAGE IIB                          13                           108
  STAGE III                           0                             5
  STAGE IV                            1                             4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             T1  T2  T3  T4
  DEL PEAK 33(XQ11.2) MUTATED     1   4  18   0
  DEL PEAK 33(XQ11.2) WILD-TYPE   6  20 129   4
D56V4, multiclass
    clus
vv   DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE
  T1                           1                             6
  T2                           4                            20
  T3                          18                           129
  T4                           0                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D56V5, binary
                               cls
clus                              0   1
  DEL PEAK 33(XQ11.2) MUTATED     8  14
  DEL PEAK 33(XQ11.2) WILD-TYPE  42 115
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 33(XQ11.2) MUTATED      8   14
  DEL PEAK 33(XQ11.2) WILD-TYPE   42  115
   clus
vv  DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE
  0                           8                            42
  1                          14                           115
[1] 2 2
[1] FALSE
D56V6, binary
                               cls
clus                             0  1
  DEL PEAK 33(XQ11.2) MUTATED   14  1
  DEL PEAK 33(XQ11.2) WILD-TYPE 71  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 33(XQ11.2) MUTATED     14    1
  DEL PEAK 33(XQ11.2) WILD-TYPE   71    4
   clus
vv  DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE
  0                          14                            71
  1                           1                             4
[1] 2 2
[1] FALSE
D56V7, binary
                               cls
clus                             0  1
  DEL PEAK 33(XQ11.2) MUTATED    6 17
  DEL PEAK 33(XQ11.2) WILD-TYPE 77 84
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 33(XQ11.2) MUTATED      6   17
  DEL PEAK 33(XQ11.2) WILD-TYPE   77   84
        clus
vv       DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE
  FEMALE                           6                            77
  MALE                            17                            84
[1] 2 2
[1] FALSE
D56V8, binary
                               cls
clus                              0   1
  DEL PEAK 33(XQ11.2) MUTATED    15   7
  DEL PEAK 33(XQ11.2) WILD-TYPE 110  37
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 33(XQ11.2) MUTATED     15    7
  DEL PEAK 33(XQ11.2) WILD-TYPE  110   37
     clus
vv    DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE
  NO                           15                           110
  YES                           7                            37
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 33(XQ11.2) MUTATED                                    15
  DEL PEAK 33(XQ11.2) WILD-TYPE                                 138
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 33(XQ11.2) MUTATED                                       7
  DEL PEAK 33(XQ11.2) WILD-TYPE                                    18
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 33(XQ11.2) MUTATED                                                  1
  DEL PEAK 33(XQ11.2) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 33(XQ11.2) MUTATED                                     0
  DEL PEAK 33(XQ11.2) WILD-TYPE                                   1
D56V9, multiclass
                                                  clus
vv                                                 DEL PEAK 33(XQ11.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       15
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      7
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 33(XQ11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        138
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       18
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D56V10, continuous
D56V11, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 33(XQ11.2) MUTATED   18  4  0  1
  DEL PEAK 33(XQ11.2) WILD-TYPE 93 49  5  3
D56V12, multiclass
    clus
vv   DEL PEAK 33(XQ11.2) MUTATED DEL PEAK 33(XQ11.2) WILD-TYPE
  R0                          18                            93
  R1                           4                            49
  R2                           0                             5
  RX                           1                             3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D56V13, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 33(XQ11.2) MUTATED       1                         2    20
  DEL PEAK 33(XQ11.2) WILD-TYPE    10                         5   141
D56V14, multiclass
                           clus
vv                          DEL PEAK 33(XQ11.2) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              20
                           clus
vv                          DEL PEAK 33(XQ11.2) WILD-TYPE
  ASIAN                                                10
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D56V15, binary
                               cls
clus                              0   1
  DEL PEAK 33(XQ11.2) MUTATED     0  17
  DEL PEAK 33(XQ11.2) WILD-TYPE   5 119
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 33(XQ11.2) MUTATED      0   17
  DEL PEAK 33(XQ11.2) WILD-TYPE    5  119
                        clus
vv                       DEL PEAK 33(XQ11.2) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                          17
                        clus
vv                       DEL PEAK 33(XQ11.2) WILD-TYPE
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           119
[1] 2 2
[1] FALSE
