[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/15087151/PAAD-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/PAAD-TP/15096458/transformed.cor.cli.txt"

nPatients in clinical file=174, in cluster file=184, common to both=173
[1]  63 173
[1] "AMP PEAK  1(1P34.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                           12                           161 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                           12                           161 
[1] "AMP PEAK  2(1P12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         25                         148 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         25                         148 
[1] "AMP PEAK  3(1Q21.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           55                           118 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           55                           118 
[1] "AMP PEAK  4(2Q36.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           23                           150 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           23                           150 
[1] "AMP PEAK  5(3P12.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                           11                           162 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                           11                           162 
[1] "AMP PEAK  6(3Q26.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           30                           143 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           30                           143 
[1] "AMP PEAK  7(4P16.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                           13                           160 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                           13                           160 
[1] "AMP PEAK  8(6P21.31) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             9                            164 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             9                            164 
[1] "AMP PEAK  9(7Q22.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           54                           119 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           54                           119 
[1] "AMP PEAK 10(8P11.22) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            33                            140 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            33                            140 
[1] "AMP PEAK 11(8P11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            32                            141 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            32                            141 
[1] "AMP PEAK 12(8Q24.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            69                            104 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            69                            104 
[1] "AMP PEAK 13(9P13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                           23                           150 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                           23                           150 
[1] "AMP PEAK 14(12P13.33) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             37                             136 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             37                             136 
[1] "AMP PEAK 15(12P11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             40                             133 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             40                             133 
[1] "AMP PEAK 16(12Q15) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                          28                          145 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                          28                          145 
[1] "AMP PEAK 17(15Q26.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                            21                            152 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                            21                            152 
[1] "AMP PEAK 18(17P11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                            14                            159 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                            14                            159 
[1] "AMP PEAK 19(17Q12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          29                          144 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          29                          144 
[1] "AMP PEAK 20(18Q11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            50                            123 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            50                            123 
[1] "AMP PEAK 21(19P13.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                            16                            157 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                            16                            157 
[1] "AMP PEAK 22(19Q13.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                            41                            132 
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                            41                            132 
[1] "AMP PEAK 23(20P11.23) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                             38                             135 
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                             38                             135 
[1] "AMP PEAK 24(XP22.11) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                            11                            162 
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                            11                            162 
[1] "AMP PEAK 25(XQ27.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                           20                           153 
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                           20                           153 
[1] "DEL PEAK  1(1P36.32) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                            50                            123 
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                            50                            123 
[1] "DEL PEAK  2(1P36.11) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                            65                            108 
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                            65                            108 
[1] "DEL PEAK  3(2Q14.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                            9                           164 
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                            9                           164 
[1] "DEL PEAK  4(3P21.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                            50                            123 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                            50                            123 
[1] "DEL PEAK  5(4P15.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                            27                            146 
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                            27                            146 
[1] "DEL PEAK  6(4Q22.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                           25                           148 
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                           25                           148 
[1] "DEL PEAK  7(4Q34.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                           33                           140 
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                           33                           140 
[1] "DEL PEAK  8(5Q14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                           32                           141 
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                           32                           141 
[1] "DEL PEAK  9(6P25.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                           68                           105 
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                           68                           105 
[1] "DEL PEAK 10(6P22.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                           65                           108 
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                           65                           108 
[1] "DEL PEAK 11(6Q25.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           86                            87 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           86                            87 
[1] "DEL PEAK 12(7Q36.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                           12                           161 
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                           12                           161 
[1] "DEL PEAK 13(8P23.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                           55                           118 
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                           55                           118 
[1] "DEL PEAK 14(9P21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                          108                            65 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                          108                            65 
[1] "DEL PEAK 15(9Q22.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                            46                            127 
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                            46                            127 
[1] "DEL PEAK 16(10P15.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                            36                            137 
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                            36                            137 
[1] "DEL PEAK 17(10Q23.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                             32                             141 
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                             32                             141 
[1] "DEL PEAK 18(11P15.4) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                            27                            146 
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                            27                            146 
[1] "DEL PEAK 19(12P13.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                            25                            148 
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                            25                            148 
[1] "DEL PEAK 20(12Q12) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                          22                          151 
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                          22                          151 
[1] "DEL PEAK 21(12Q21.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                             40                             133 
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                             40                             133 
[1] "DEL PEAK 22(12Q24.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                             39                             134 
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                             39                             134 
[1] "DEL PEAK 23(13Q14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                            20                            153 
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                            20                            153 
[1] "DEL PEAK 24(14Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                            17                            156 
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                            17                            156 
[1] "DEL PEAK 25(15Q15.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                            32                            141 
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                            32                            141 
[1] "DEL PEAK 26(16Q23.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                            16                            157 
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                            16                            157 
[1] "DEL PEAK 27(17P12) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                          83                           90 
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                          83                           90 
[1] "DEL PEAK 28(17Q22) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                          46                          127 
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                          46                          127 
[1] "DEL PEAK 29(18P11.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                             48                             125 
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                             48                             125 
[1] "DEL PEAK 30(18Q21.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                           117                             56 
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                           117                             56 
[1] "DEL PEAK 31(19P13.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                            33                            140 
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                            33                            140 
[1] "DEL PEAK 32(19P13.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                            25                            148 
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                            25                            148 
[1] "DEL PEAK 33(19Q13.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                             22                             151 
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                             22                             151 
[1] "DEL PEAK 34(21Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                            57                            116 
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                            57                            116 
[1] "DEL PEAK 35(22Q13.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                             56                             117 
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                             56                             117 
[1] "DEL PEAK 36(22Q13.32) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                             58                             115 
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                             58                             115 
[1] "DEL PEAK 37(XP21.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                           27                           146 
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                           27                           146 
[1] "DEL PEAK 38(XQ11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                           21                           152 
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                           21                           152 
[1] "data2feature, selection=ALL"
 [1] "YEARS_TO_BIRTH"                        
 [2] "VITAL_STATUS"                          
 [3] "DAYS_TO_DEATH"                         
 [4] "DAYS_TO_LAST_FOLLOWUP"                 
 [5] "PRIMARY_SITE_OF_DISEASE"               
 [6] "NEOPLASM_DISEASESTAGE"                 
 [7] "PATHOLOGY_T_STAGE"                     
 [8] "PATHOLOGY_N_STAGE"                     
 [9] "PATHOLOGY_M_STAGE"                     
[10] "DCC_UPLOAD_DATE"                       
[11] "GENDER"                                
[12] "DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS"  
[13] "RADIATION_THERAPY"                     
[14] "HISTOLOGICAL_TYPE"                     
[15] "RADIATIONS_RADIATION_REGIMENINDICATION"
[16] "NUMBER_PACK_YEARS_SMOKED"              
[17] "YEAR_OF_TOBACCO_SMOKING_ONSET"         
[18] "COMPLETENESS_OF_RESECTION"             
[19] "NUMBER_OF_LYMPH_NODES"                 
[20] "RACE"                                  
[21] "ETHNICITY"                             
[22] "BATCH_NUMBER"                          

Input Data has 22 rows and 173 columns.

[1] "Batch" "22"   
[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=88,	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=100,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('FOLLOWUP', vnms) to deal with survival parameters seperately"
Variable 5:'PRIMARY_SITE_OF_DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "PRIMARY_SITE_OF_DISEASE is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 6:'NEOPLASM_DISEASESTAGE':	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:'DCC_UPLOAD_DATE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "DCC_UPLOAD_DATE is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 11:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'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 13:'RADIATION_THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "RADIATION_THERAPY is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 14:'HISTOLOGICAL_TYPE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'RADIATIONS_RADIATION_REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "RADIATIONS_RADIATION_REGIMENINDICATION is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 16:'NUMBER_PACK_YEARS_SMOKED':	nDistinctValues=30,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 17:'YEAR_OF_TOBACCO_SMOKING_ONSET':	nDistinctValues=28,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'COMPLETENESS_OF_RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'NUMBER_OF_LYMPH_NODES':	nDistinctValues=16,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 20:'RACE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 21:'ETHNICITY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 22:'BATCH_NUMBER':	nDistinctValues=12,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] NA
[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 173 columns, 1 survival variables, and 13 non-survival variables.
[1] "* survival variables: "
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "* non-survival variables: "
 [1] "YEARS_TO_BIRTH"                "NEOPLASM_DISEASESTAGE"        
 [3] "PATHOLOGY_T_STAGE"             "PATHOLOGY_N_STAGE"            
 [5] "PATHOLOGY_M_STAGE"             "GENDER"                       
 [7] "HISTOLOGICAL_TYPE"             "NUMBER_PACK_YEARS_SMOKED"     
 [9] "YEAR_OF_TOBACCO_SMOKING_ONSET" "COMPLETENESS_OF_RESECTION"    
[11] "NUMBER_OF_LYMPH_NODES"         "RACE"                         
[13] "ETHNICITY"                    
YEARS_TO_BIRTH, nv=46, binary=FALSE, numeric=TRUE
NEOPLASM_DISEASESTAGE, 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 
  8  21 139   4 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
  8  21 139   4 
$ClinVariableName
[1] "PATHOLOGY_T_STAGE"

$Table
vv
 T1  T2  T3  T4 
  8  21 139   4 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
  8  21 139   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
HISTOLOGICAL_TYPE, nv=4, binary=FALSE, numeric=FALSE
NUMBER_PACK_YEARS_SMOKED, nv=30, binary=FALSE, numeric=TRUE
YEAR_OF_TOBACCO_SMOKING_ONSET, nv=28, binary=FALSE, numeric=TRUE
COMPLETENESS_OF_RESECTION, 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    3  8
  AMP PEAK  1(1P34.2) WILD-TYPE 76 84
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                           11                           160 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                            8                            84 
$`AMP PEAK  1(1P34.2) MUTATED`
TCGA-2J-AAB6 TCGA-2J-AABF TCGA-2J-AABP TCGA-FB-AAQ2 TCGA-FZ-5923 TCGA-HZ-7289 
        9.63        22.72        11.84         5.03        20.35        21.73 
TCGA-HZ-7925 TCGA-IB-7654 TCGA-IB-AAUM TCGA-RB-A7B8 TCGA-US-A776 
       20.19        15.65         0.26        15.32        27.75 

$`AMP PEAK  1(1P34.2) WILD-TYPE`
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-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT 
       22.26        31.86        15.91        14.47        14.40        10.49 
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-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
        9.60        45.47        53.00        23.61        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO 
       24.26        28.73        60.95        84.10        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ 
       50.70        30.64        15.06        31.79        34.09        10.13 
TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 
       12.39        75.12        71.74        10.98         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 
        7.10         7.66        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        14.76        12.43        11.61        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-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        1.02         8.02        24.36         2.01         5.10        36.20 
TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 
       15.78        17.79        12.89        13.84        22.06         0.92 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 
       19.50         7.76         0.13         0.26        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         0.69         3.95         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       14.93        17.92         4.96        21.70        16.14        10.13 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 
        6.38        21.60         5.26        10.85         1.08         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-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       23.80        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        21.30         3.85        15.98         2.47        17.16 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF 
       12.00        15.85         7.20        15.12        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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
        7.56         9.14        12.92        12.46        10.29        19.20 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-RL-AAAS 
        8.78        15.45        13.68         3.12         9.40         0.30 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E 
       21.24        17.26        23.08        22.85        16.80        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL 
        0.39        18.67        13.81        12.99        12.03        13.32 
TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        12.76        66.28         0.69 

  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 
                        27.75                         84.10 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                        15.65                         13.99 
[1] "0.3 - 27.8 (15.7)" "0.1 - 84.1 (14.0)"
[1] "hr=" "1.4"
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        6       13        24       108
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  1(1P34.2) MUTATED           0        1
  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                             6
  STAGE IB                            0                            13
  STAGE IIA                           2                            24
  STAGE IIB                           9                           108
  STAGE III                           0                             5
  STAGE IV                            1                             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   9   1
  AMP PEAK  1(1P34.2) WILD-TYPE   8  19 130   3
D1V4, multiclass
    clus
vv   AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  T1                           0                             8
  T2                           2                            19
  T3                           9                           130
  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     2  10
  AMP PEAK  1(1P34.2) WILD-TYPE  43 114
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      2   10
  AMP PEAK  1(1P34.2) WILD-TYPE   43  114
   clus
vv  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  0                           2                            43
  1                          10                           114
[1] 2 2
[1] FALSE
D1V6, binary
                               cls
clus                             0  1
  AMP PEAK  1(1P34.2) MUTATED    5  1
  AMP PEAK  1(1P34.2) WILD-TYPE 75  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      5    1
  AMP PEAK  1(1P34.2) WILD-TYPE   75    3
   clus
vv  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  0                           5                            75
  1                           1                             3
[1] 2 2
[1] FALSE
D1V7, binary
                               cls
clus                             0  1
  AMP PEAK  1(1P34.2) MUTATED    4  8
  AMP PEAK  1(1P34.2) WILD-TYPE 74 87
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      4    8
  AMP PEAK  1(1P34.2) WILD-TYPE   74   87
        clus
vv       AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  FEMALE                           4                            74
  MALE                             8                            87
[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                                 137
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  1(1P34.2) MUTATED                                       2
  AMP PEAK  1(1P34.2) WILD-TYPE                                    20
                               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
D1V8, multiclass
                                                  clus
vv                                                 AMP PEAK  1(1P34.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        8
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 AMP PEAK  1(1P34.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        137
  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"
D1V9, 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                            53 
                   TCGA-2J-AAB1                    TCGA-2J-AABA 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-2J-AABE                    TCGA-2J-AABI 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-2J-AABO                    TCGA-2J-AABV 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-2L-AAQA                    TCGA-2L-AAQE 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-3A-A9I9                    TCGA-3A-A9IB 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-3A-A9IJ                    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-H6-A45N                    TCGA-H8-A6C1 
"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-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-A5SS                    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-AAUU 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-AAUV                    TCGA-LB-A7SX 
"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-XD-AAUL 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-YY-A8LH 
"AMP PEAK  1(1P34.2) WILD-TYPE" 
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                            44 
                   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-A9IJ 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-3A-A9IR                    TCGA-3A-A9IX 
"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-HZ-A77Q 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-HZ-A8P0                    TCGA-HZ-A8P1 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-7644                    TCGA-IB-7649 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-7651                    TCGA-IB-7885 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-7886                    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-A5SS                    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-A7SX                    TCGA-LB-A9Q5 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-OE-A75W                    TCGA-S4-A8RM 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-US-A774                    TCGA-XD-AAUI 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-XD-AAUL                    TCGA-YY-A8LH 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  1(1P34.2) MUTATED    9  2  0  1
  AMP PEAK  1(1P34.2) WILD-TYPE 99 49  2  3
D1V11, multiclass
    clus
vv   AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  R0                           9                            99
  R1                           2                            49
  R2                           0                             2
  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"
D1V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  1(1P34.2) MUTATED       0                         0    12
  AMP PEAK  1(1P34.2) WILD-TYPE     3                         7   146
D1V13, multiclass
                           clus
vv                          AMP PEAK  1(1P34.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              12
                           clus
vv                          AMP PEAK  1(1P34.2) WILD-TYPE
  ASIAN                                                 3
  BLACK OR AFRICAN AMERICAN                             7
  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"
D1V14, binary
                               cls
clus                              0   1
  AMP PEAK  1(1P34.2) MUTATED     1   8
  AMP PEAK  1(1P34.2) WILD-TYPE   2 127
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      1    8
  AMP PEAK  1(1P34.2) WILD-TYPE    2  127
                        clus
vv                       AMP PEAK  1(1P34.2) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                           8
                        clus
vv                       AMP PEAK  1(1P34.2) WILD-TYPE
  HISPANIC OR LATINO                                 2
  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   10 14
  AMP PEAK  2(1P12) WILD-TYPE 69 78
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         24                         147 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         14                          78 
$`AMP PEAK  2(1P12) MUTATED`
TCGA-2J-AABF TCGA-2J-AABP TCGA-2L-AAQI TCGA-3A-A9J0 TCGA-FB-A78T TCGA-FB-AAPQ 
       22.72        11.84         3.39        12.39        12.43        37.15 
TCGA-FB-AAQ3 TCGA-FZ-5920 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-HZ-7925 TCGA-HZ-8636 
        1.02         2.01        20.35        15.78        20.19        17.92 
TCGA-HZ-A8P1 TCGA-IB-7645 TCGA-IB-7889 TCGA-IB-7893 TCGA-IB-A6UG TCGA-IB-AAUM 
        0.23        49.38        15.81         3.85         1.35         0.26 
TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-RB-A7B8 TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A776 
       12.46        19.20        15.32        21.24        17.26        27.75 

$`AMP PEAK  2(1P12) WILD-TYPE`
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-AABR 
       22.22        22.26        31.86        15.91        14.47        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQJ 
       10.49         9.11        21.44         4.70        22.49        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
        9.60        45.47        53.00        23.61        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO 
       24.26        28.73        60.95        84.10        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ 
       50.70        30.64        15.06        31.79        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-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
        7.66        19.27         3.12        17.00         5.88        24.07 
TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY 
       14.76        11.61        15.95         7.50        12.53        34.82 
TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ6 TCGA-FZ-5919 
       23.54        15.55         4.04         5.03         8.02        24.36 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
        5.10        36.20        17.79        12.89        13.84        22.06 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       21.73         0.92        19.50         7.76         0.13         0.26 
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         0.69         3.95 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
        9.83        12.43        14.93         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q 
       10.13         6.38        21.60         5.26        10.85         1.08 
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        23.80 
TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7890 
       15.65        41.33         4.04         3.62        43.79        19.66 
TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
       21.30        15.98         2.47        17.16        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7LX TCGA-IB-A7M4 
        7.20        15.12        20.88        21.90         8.22        15.88 
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-A7SX 
        9.44         8.05        13.28         7.56         9.14        12.92 
TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M 
       10.29         8.78        15.45        13.68         3.12         9.40 
TCGA-RL-AAAS TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G 
        0.30        23.08        22.85        16.80        14.14         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D 
       18.67        13.81        12.99        12.03        13.32        11.51 
TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.76        66.28         0.69 

  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                       84.10 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                      15.55                       14.14 
[1] "0.2 - 49.4 (15.6)" "0.1 - 84.1 (14.1)"
[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         4        18
  AMP PEAK  2(1P12) WILD-TYPE       1        6       12        22        99
                             vv
clus                          STAGE III STAGE IV
  AMP PEAK  2(1P12) MUTATED           0        2
  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                           6
  STAGE IB                          1                          12
  STAGE IIA                         4                          22
  STAGE IIB                        18                          99
  STAGE III                         0                           5
  STAGE IV                          2                           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  22   1
  AMP PEAK  2(1P12) WILD-TYPE   8  19 117   3
D2V4, multiclass
    clus
vv   AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  T1                         0                           8
  T2                         2                          19
  T3                        22                         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"
D2V5, binary
                             cls
clus                            0   1
  AMP PEAK  2(1P12) MUTATED     6  19
  AMP PEAK  2(1P12) WILD-TYPE  39 105
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED      6   19
  AMP PEAK  2(1P12) WILD-TYPE   39  105
   clus
vv  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  0                         6                          39
  1                        19                         105
[1] 2 2
[1] FALSE
D2V6, binary
                             cls
clus                           0  1
  AMP PEAK  2(1P12) MUTATED   11  2
  AMP PEAK  2(1P12) WILD-TYPE 69  2
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED     11    2
  AMP PEAK  2(1P12) WILD-TYPE   69    2
   clus
vv  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  0                        11                          69
  1                         2                           2
[1] 2 2
[1] FALSE
D2V7, binary
                             cls
clus                           0  1
  AMP PEAK  2(1P12) MUTATED   11 14
  AMP PEAK  2(1P12) WILD-TYPE 67 81
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED     11   14
  AMP PEAK  2(1P12) WILD-TYPE   67   81
        clus
vv       AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  FEMALE                        11                          67
  MALE                          14                          81
[1] 2 2
[1] FALSE
                             vv
clus                          PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  2(1P12) MUTATED                                    22
  AMP PEAK  2(1P12) WILD-TYPE                                 123
                             vv
clus                          PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  2(1P12) MUTATED                                       1
  AMP PEAK  2(1P12) WILD-TYPE                                    21
                             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
D2V8, multiclass
                                                  clus
vv                                                 AMP PEAK  2(1P12) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                     22
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                    1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                         1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                      1
                                                  clus
vv                                                 AMP PEAK  2(1P12) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      123
  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"
D2V9, continuous
D2V10, continuous
                             vv
clus                          R0 R1 R2 RX
  AMP PEAK  2(1P12) MUTATED   19  6  0  0
  AMP PEAK  2(1P12) WILD-TYPE 89 45  2  4
D2V11, multiclass
    clus
vv   AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  R0                        19                          89
  R1                         6                          45
  R2                         0                           2
  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"
D2V12, continuous
                             vv
clus                          ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  2(1P12) MUTATED       0                         2    21
  AMP PEAK  2(1P12) WILD-TYPE     3                         5   137
D2V13, multiclass
                           clus
vv                          AMP PEAK  2(1P12) MUTATED
  ASIAN                                             0
  BLACK OR AFRICAN AMERICAN                         2
  WHITE                                            21
                           clus
vv                          AMP PEAK  2(1P12) WILD-TYPE
  ASIAN                                               3
  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"
D2V14, binary
                             cls
clus                            0   1
  AMP PEAK  2(1P12) MUTATED     1  19
  AMP PEAK  2(1P12) WILD-TYPE   2 116
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED      1   19
  AMP PEAK  2(1P12) WILD-TYPE    2  116
                        clus
vv                       AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  HISPANIC OR LATINO                             1                           2
  NOT HISPANIC OR LATINO                        19                         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   23 30
  AMP PEAK  3(1Q21.3) WILD-TYPE 56 62
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           53                           118 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           30                            62 
$`AMP PEAK  3(1Q21.3) MUTATED`
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI 
        9.63         2.63        22.22        22.72        22.26        31.86 
TCGA-2J-AABK TCGA-2J-AABP TCGA-2L-AAQA TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 
       15.91        11.84         4.70        12.95         9.60        53.00 
TCGA-3A-A9IC TCGA-3A-A9IU TCGA-3A-A9J0 TCGA-3E-AAAZ TCGA-FB-A78T TCGA-FB-AAPP 
       24.26        15.06        12.39        71.74        12.43        15.95 
TCGA-FB-AAPQ TCGA-FB-AAPU TCGA-FB-AAQ0 TCGA-FB-AAQ6 TCGA-FZ-5920 TCGA-FZ-5923 
       37.15        12.53        15.55         8.02         2.01        20.35 
TCGA-FZ-5924 TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7925 TCGA-HZ-8636 TCGA-HZ-A77O 
       15.78        22.06         0.92        20.19        17.92         5.26 
TCGA-HZ-A8P1 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7651 TCGA-IB-7886 TCGA-IB-7889 
        0.23        49.38         4.77        19.82         4.04        15.81 
TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SQ TCGA-IB-A6UF TCGA-IB-A6UG 
       21.30         3.85        17.16         7.20        21.90         1.35 
TCGA-IB-A7LX TCGA-IB-AAUM TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-RB-A7B8 TCGA-S4-A8RM 
        8.22         0.26        12.46        19.20        15.32        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A776 TCGA-YH-A8SY TCGA-YY-A8LH 
       17.26        23.08        27.75        12.76        66.28 

$`AMP PEAK  3(1Q21.3) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABO TCGA-2J-AABR 
        2.17        23.97        20.61        19.96        14.47        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQM 
       10.49         9.11        21.44        22.49         3.39        45.47 
TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL 
       23.61        20.84         7.36        28.73        60.95        84.10 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9IX 
       68.52        63.85        50.70        30.64        31.79        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-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
        7.66        19.27         3.12        17.00         5.88        24.07 
TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ1 
       14.76        11.61         7.50        34.82        23.54         4.04 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5926 
        5.03         1.02        24.36         5.10        36.20        17.79 
TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       12.89        13.84        21.73        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
        0.26        27.62        17.03        23.21        12.03         0.69 
TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G 
        3.95         9.83        12.43        14.93         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q 
       16.14        10.13         6.38        21.60        10.85         1.08 
TCGA-IB-7644 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 
       12.95        21.90        15.35        23.80        15.65        41.33 
TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7890 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO 
        3.62        43.79        19.66        15.98         2.47        12.00 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUO 
       15.85        15.12        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-A7SX TCGA-LB-A9Q5 TCGA-OE-A75W 
       13.28         7.56         9.14        12.92        10.29         8.78 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-RL-AAAS TCGA-US-A774 
       15.45        13.68         3.12         9.40         0.30        22.85 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-Z5-AAPL 
       12.03        13.32        11.51         0.69 

  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                         84.10 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                       15.780                        13.745 
[1] "0.2 - 71.7 (15.8)" "0.1 - 84.1 (13.7)"
[1] "hr=" "1"  
D3V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  3(1Q21.3) MUTATED         0        2        2        12        35
  AMP PEAK  3(1Q21.3) WILD-TYPE       1        4       11        14        82
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  3(1Q21.3) MUTATED           2        2
  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                            2                             4
  STAGE IB                            2                            11
  STAGE IIA                          12                            14
  STAGE IIB                          35                            82
  STAGE III                           2                             3
  STAGE IV                            2                             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    2  4 47  2
  AMP PEAK  3(1Q21.3) WILD-TYPE  6 17 92  2
D3V4, multiclass
    clus
vv   AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  T1                           2                             6
  T2                           4                            17
  T3                          47                            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"
D3V5, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED   18 37
  AMP PEAK  3(1Q21.3) WILD-TYPE 27 87
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED     18   37
  AMP PEAK  3(1Q21.3) WILD-TYPE   27   87
   clus
vv  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  0                          18                            27
  1                          37                            87
[1] 2 2
[1] FALSE
D3V6, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED   25  2
  AMP PEAK  3(1Q21.3) WILD-TYPE 55  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED     25    2
  AMP PEAK  3(1Q21.3) WILD-TYPE   55    2
   clus
vv  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  0                          25                            55
  1                           2                             2
[1] 2 2
[1] FALSE
D3V7, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED   21 34
  AMP PEAK  3(1Q21.3) WILD-TYPE 57 61
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED     21   34
  AMP PEAK  3(1Q21.3) WILD-TYPE   57   61
        clus
vv       AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  FEMALE                          21                            57
  MALE                            34                            61
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  3(1Q21.3) MUTATED                                    48
  AMP PEAK  3(1Q21.3) WILD-TYPE                                  97
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  3(1Q21.3) MUTATED                                       4
  AMP PEAK  3(1Q21.3) WILD-TYPE                                    18
                               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
D3V8, multiclass
                                                  clus
vv                                                 AMP PEAK  3(1Q21.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       48
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 AMP PEAK  3(1Q21.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         97
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       18
  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"
D3V9, continuous
D3V10, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  3(1Q21.3) MUTATED   38 14  0  1
  AMP PEAK  3(1Q21.3) WILD-TYPE 70 37  2  3
D3V11, multiclass
    clus
vv   AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  R0                          38                            70
  R1                          14                            37
  R2                           0                             2
  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"
D3V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  3(1Q21.3) MUTATED       1                         2    50
  AMP PEAK  3(1Q21.3) WILD-TYPE     2                         5   108
D3V13, multiclass
                           clus
vv                          AMP PEAK  3(1Q21.3) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              50
                           clus
vv                          AMP PEAK  3(1Q21.3) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             5
  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"
D3V14, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED    2 39
  AMP PEAK  3(1Q21.3) WILD-TYPE  1 96
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED      2   39
  AMP PEAK  3(1Q21.3) WILD-TYPE    1   96
                        clus
vv                       AMP PEAK  3(1Q21.3) MUTATED
  HISPANIC OR LATINO                               2
  NOT HISPANIC OR LATINO                          39
                        clus
vv                       AMP PEAK  3(1Q21.3) WILD-TYPE
  HISPANIC OR LATINO                                 1
  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   13 10
  AMP PEAK  4(2Q36.2) WILD-TYPE 66 82
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           23                           148 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           10                            82 
$`AMP PEAK  4(2Q36.2) MUTATED`
TCGA-2J-AABE TCGA-2J-AABO TCGA-2L-AAQL TCGA-3A-A9J0 TCGA-FB-A545 TCGA-FB-AAPQ 
       22.22        14.47         9.60        12.39        24.07        37.15 
TCGA-FB-AAPZ TCGA-FZ-5921 TCGA-HZ-7918 TCGA-HZ-A77P TCGA-IB-7646 TCGA-IB-7651 
       23.54         5.10         0.92        10.85         4.77        19.82 
TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-AAUU 
       23.80         4.04         3.85        17.16        15.85         8.05 
TCGA-L1-A7W4 TCGA-OE-A75W TCGA-S4-A8RO TCGA-YB-A89D TCGA-YH-A8SY 
        9.14         8.78        17.26        11.51        12.76 

$`AMP PEAK  4(2Q36.2) WILD-TYPE`
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-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR 
       22.72        22.26        31.86        15.91        11.84        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       10.49         9.11        21.44         4.70        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
       12.95        45.47        53.00        23.61        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO 
       24.26        28.73        60.95        84.10        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ 
       50.70        30.64        15.06        31.79        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-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM 
        7.66        19.27         3.12        17.00         5.88        14.76 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY 
       12.43        11.61        15.95         7.50        12.53        34.82 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 
       15.55         4.04         5.03         1.02         8.02        24.36 
TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 
        2.01        36.20        20.35        15.78        17.79        12.89 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       13.84        22.06        21.73        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.26        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 
        0.69         3.95         9.83        12.43        14.93        17.92 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK 
        4.96        21.70        16.14        10.13         6.38        21.60 
TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 
        5.26         1.08         0.23        12.95        49.38        21.90 
TCGA-IB-7649 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       15.35        15.65        41.33         3.62        43.79        15.81 
TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ 
       19.66        21.30        15.98         2.47        12.00         7.20 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 
       15.12        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-LB-A7SX TCGA-LB-A8F3 
        7.40         9.44        13.28         7.56        12.92        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-A776 
        9.40         0.30        21.24        23.08        22.85        27.75 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        13.32        66.28         0.69 

  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                         0.92                          0.13 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                        37.15                         84.10 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                        12.39                         14.58 
[1] "0.9 - 37.1 (12.4)" "0.1 - 84.1 (14.6)"
[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         4        18
  AMP PEAK  4(2Q36.2) WILD-TYPE       1        6       13        22        99
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  4(2Q36.2) MUTATED           1        0
  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                             6
  STAGE IB                            0                            13
  STAGE IIA                           4                            22
  STAGE IIB                          18                            99
  STAGE III                           1                             4
  STAGE IV                            0                             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   1  22   0
  AMP PEAK  4(2Q36.2) WILD-TYPE   8  20 117   4
D4V4, multiclass
    clus
vv   AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  T1                           0                             8
  T2                           1                            20
  T3                          22                           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"
D4V5, binary
                               cls
clus                              0   1
  AMP PEAK  4(2Q36.2) MUTATED     4  19
  AMP PEAK  4(2Q36.2) WILD-TYPE  41 105
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED      4   19
  AMP PEAK  4(2Q36.2) WILD-TYPE   41  105
   clus
vv  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  0                           4                            41
  1                          19                           105
[1] 2 2
[1] FALSE
D4V6, binary
                               cls
clus                             0  1
  AMP PEAK  4(2Q36.2) MUTATED   15  0
  AMP PEAK  4(2Q36.2) WILD-TYPE 65  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED     15    0
  AMP PEAK  4(2Q36.2) WILD-TYPE   65    4
   clus
vv  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  0                          15                            65
  1                           0                             4
[1] 2 2
[1] FALSE
D4V7, binary
                               cls
clus                             0  1
  AMP PEAK  4(2Q36.2) MUTATED    7 16
  AMP PEAK  4(2Q36.2) WILD-TYPE 71 79
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED      7   16
  AMP PEAK  4(2Q36.2) WILD-TYPE   71   79
        clus
vv       AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  FEMALE                           7                            71
  MALE                            16                            79
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  4(2Q36.2) MUTATED                                    21
  AMP PEAK  4(2Q36.2) WILD-TYPE                                 124
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  4(2Q36.2) MUTATED                                       1
  AMP PEAK  4(2Q36.2) WILD-TYPE                                    21
                               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
D4V8, multiclass
                                                  clus
vv                                                 AMP PEAK  4(2Q36.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       21
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 AMP PEAK  4(2Q36.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        124
  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"
D4V9, continuous
D4V10, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  4(2Q36.2) MUTATED   12  6  1  1
  AMP PEAK  4(2Q36.2) WILD-TYPE 96 45  1  3
D4V11, multiclass
    clus
vv   AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  R0                          12                            96
  R1                           6                            45
  R2                           1                             1
  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"
D4V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  4(2Q36.2) MUTATED       1                         0    21
  AMP PEAK  4(2Q36.2) WILD-TYPE     2                         7   137
D4V13, multiclass
                           clus
vv                          AMP PEAK  4(2Q36.2) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              21
                           clus
vv                          AMP PEAK  4(2Q36.2) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             7
  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"
D4V14, binary
                               cls
clus                              0   1
  AMP PEAK  4(2Q36.2) MUTATED     0  18
  AMP PEAK  4(2Q36.2) WILD-TYPE   3 117
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED      0   18
  AMP PEAK  4(2Q36.2) WILD-TYPE    3  117
                        clus
vv                       AMP PEAK  4(2Q36.2) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                          18
                        clus
vv                       AMP PEAK  4(2Q36.2) WILD-TYPE
  HISPANIC OR LATINO                                 3
  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  7
  AMP PEAK  5(3P12.2) WILD-TYPE 75 85
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                           11                           160 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                            7                            85 
$`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        12.39        14.76        23.54         4.04         2.01 
TCGA-HZ-7918 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7893 TCGA-IB-A6UG 
        0.92         4.77        21.90         3.85         1.35 

$`AMP PEAK  5(3P12.2) WILD-TYPE`
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        22.26        31.86        15.91        14.47        11.84 
TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       14.40        10.49         9.11        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 
        3.39        12.95         9.60        45.47        53.00        23.61 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL 
       20.84         7.36        24.26        28.73        60.95        84.10 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV 
       68.52        63.85        50.70        30.64        15.06        31.79 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       34.09        10.13        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
       19.46         7.10         7.66        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        12.43        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-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 
        8.02        24.36         5.10        36.20        20.35        15.78 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7919 
       17.79        12.89        13.84        22.06        21.73        19.50 
TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
        7.76         0.13         0.26        27.62        20.19        17.03 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 
       23.21        12.03         0.69         3.95         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       14.93        17.92         4.96        21.70        16.14        10.13 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 
        6.38        21.60         5.26        10.85         1.08         0.23 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 
       12.95        49.38        15.35        19.82        23.80        15.65 
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-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
       21.30        15.98         2.47        17.16        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7LX TCGA-IB-A7M4 
        7.20        15.12        20.88        21.90         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-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
        7.40         9.44         8.05        13.28         7.56         9.14 
TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
       12.92        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        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E 
       17.26        23.08        22.85        27.75        16.80        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL 
        0.39        18.67        13.81        12.99        12.03        13.32 
TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        12.76        66.28         0.69 

  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                         0.92                          0.13 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                        23.54                         84.10 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                         4.77                         14.70 
[1] "0.9 - 23.5 (4.8)"  "0.1 - 84.1 (14.7)"
[1] "hr=" "2.3"
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        6       12        24       109
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  5(3P12.2) MUTATED           0        0
  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                             6
  STAGE IB                            1                            12
  STAGE IIA                           2                            24
  STAGE IIB                           8                           109
  STAGE III                           0                             5
  STAGE IV                            0                             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   9   0
  AMP PEAK  5(3P12.2) WILD-TYPE   8  19 130   4
D5V4, multiclass
    clus
vv   AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  T1                           0                             8
  T2                           2                            19
  T3                           9                           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"
D5V5, binary
                               cls
clus                              0   1
  AMP PEAK  5(3P12.2) MUTATED     3   8
  AMP PEAK  5(3P12.2) WILD-TYPE  42 116
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED      3    8
  AMP PEAK  5(3P12.2) WILD-TYPE   42  116
   clus
vv  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  0                           3                            42
  1                           8                           116
[1] 2 2
[1] FALSE
D5V6, binary
                               cls
clus                             0  1
  AMP PEAK  5(3P12.2) MUTATED    8  0
  AMP PEAK  5(3P12.2) WILD-TYPE 72  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED      8    0
  AMP PEAK  5(3P12.2) WILD-TYPE   72    4
   clus
vv  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  0                           8                            72
  1                           0                             4
[1] 2 2
[1] FALSE
D5V7, binary
                               cls
clus                             0  1
  AMP PEAK  5(3P12.2) MUTATED    0 11
  AMP PEAK  5(3P12.2) WILD-TYPE 78 84
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED      0   11
  AMP PEAK  5(3P12.2) WILD-TYPE   78   84
        clus
vv       AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  FEMALE                           0                            78
  MALE                            11                            84
[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                                 134
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  5(3P12.2) MUTATED                                       0
  AMP PEAK  5(3P12.2) WILD-TYPE                                    22
                               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
D5V8, multiclass
                                                  clus
vv                                                 AMP PEAK  5(3P12.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       11
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      0
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 AMP PEAK  5(3P12.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        134
  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"
D5V9, 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                            52 
                   TCGA-2J-AAB1                    TCGA-2J-AABA 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2J-AABE                    TCGA-2J-AABF 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2J-AABI                    TCGA-2J-AABO 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2J-AABV                    TCGA-2L-AAQA 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-2L-AAQE                    TCGA-3A-A9I9 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-3A-A9IB                    TCGA-3A-A9IJ 
"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-H6-A45N                    TCGA-H8-A6C1 
"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-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-A5SS                    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-AAUU                    TCGA-IB-AAUV 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-LB-A7SX                    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-XD-AAUL                    TCGA-YY-A8LH 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
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                            43 
                   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-A9IJ                    TCGA-3A-A9IR 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-3A-A9IX                    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-HZ-A77Q 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-HZ-A8P0                    TCGA-HZ-A8P1 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-7644                    TCGA-IB-7649 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-7651                    TCGA-IB-7885 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-7886                    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-A5SS                    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-A7SX 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-LB-A9Q5                    TCGA-OE-A75W 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-S4-A8RM                    TCGA-US-A774 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-XD-AAUI                    TCGA-XD-AAUL 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-YY-A8LH 
"AMP PEAK  5(3P12.2) WILD-TYPE" 
                               vv
clus                             R0  R1  R2  RX
  AMP PEAK  5(3P12.2) MUTATED     7   4   0   0
  AMP PEAK  5(3P12.2) WILD-TYPE 101  47   2   4
D5V11, multiclass
    clus
vv   AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  R0                           7                           101
  R1                           4                            47
  R2                           0                             2
  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"
D5V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  5(3P12.2) MUTATED       0                         1    10
  AMP PEAK  5(3P12.2) WILD-TYPE     3                         6   148
D5V13, multiclass
                           clus
vv                          AMP PEAK  5(3P12.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              10
                           clus
vv                          AMP PEAK  5(3P12.2) WILD-TYPE
  ASIAN                                                 3
  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"
D5V14, binary
                               cls
clus                              0   1
  AMP PEAK  5(3P12.2) MUTATED     0  10
  AMP PEAK  5(3P12.2) WILD-TYPE   3 125
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED      0   10
  AMP PEAK  5(3P12.2) WILD-TYPE    3  125
                        clus
vv                       AMP PEAK  5(3P12.2) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                          10
                        clus
vv                       AMP PEAK  5(3P12.2) WILD-TYPE
  HISPANIC OR LATINO                                 3
  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 22
  AMP PEAK  6(3Q26.2) WILD-TYPE 71 70
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           30                           141 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           22                            70 
$`AMP PEAK  6(3Q26.2) MUTATED`
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2L-AAQL TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IZ 
        9.63         2.63         9.60         7.36        24.26        10.13 
TCGA-3A-A9J0 TCGA-F2-A7TX TCGA-FB-A5VM TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FZ-5920 
       12.39         3.12        14.76        23.54         4.04         2.01 
TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A4BK TCGA-IB-7646 
        0.92         0.13         3.95        17.92        21.60         4.77 
TCGA-IB-7647 TCGA-IB-7887 TCGA-IB-7890 TCGA-IB-7893 TCGA-IB-A6UG TCGA-IB-A7LX 
       21.90         3.62        19.66         3.85         1.35         8.22 
TCGA-IB-AAUO TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-RB-A7B8 TCGA-US-A77E 
        7.86         9.14        12.92        19.20        15.32        14.14 

$`AMP PEAK  6(3Q26.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
        2.17        23.97        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-AABR 
       22.26        31.86        15.91        14.47        11.84        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       10.49         9.11        21.44         4.70        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IH 
       12.95        45.47        53.00        23.61        20.84        28.73 
TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       60.95        84.10        68.52        63.85        50.70        30.64 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       15.06        31.79        34.09        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN 
        9.70        19.46         7.10         7.66        19.27        17.00 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ 
        5.88        24.07        12.43        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-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 
        8.02        24.36         5.10        36.20        20.35        15.78 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7919 
       17.79        12.89        13.84        22.06        21.73        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76         0.26        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         0.69         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-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7649 TCGA-IB-7651 
        1.08         0.23        12.95        49.38        15.35        19.82 
TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7888 TCGA-IB-7889 
       23.80        15.65        41.33         4.04        43.79        15.81 
TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
       21.30        15.98         2.47        17.16        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM 
        7.20        15.12        20.88        21.90        15.88         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-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-OE-A75W 
        8.05        13.28         7.56        12.46        10.29         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        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G 
       17.26        23.08        22.85        27.75        16.80         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D 
       18.67        13.81        12.99        12.03        13.32        11.51 
TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.76        66.28         0.69 

  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 
                        24.26                         84.10 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                         9.37                         15.35 
[1] "0.1 - 24.3 (9.4)"  "0.2 - 84.1 (15.3)"
[1] "hr=" "2.8"
D6V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  6(3Q26.2) MUTATED         0        0        2         3        24
  AMP PEAK  6(3Q26.2) WILD-TYPE       1        6       11        23        93
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  6(3Q26.2) MUTATED           0        1
  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                             6
  STAGE IB                            2                            11
  STAGE IIA                           3                            23
  STAGE IIB                          24                            93
  STAGE III                           0                             5
  STAGE IV                            1                             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  27   0
  AMP PEAK  6(3Q26.2) WILD-TYPE   8  18 112   4
D6V4, multiclass
    clus
vv   AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  T1                           0                             8
  T2                           3                            18
  T3                          27                           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"
D6V5, binary
                               cls
clus                              0   1
  AMP PEAK  6(3Q26.2) MUTATED     6  24
  AMP PEAK  6(3Q26.2) WILD-TYPE  39 100
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED      6   24
  AMP PEAK  6(3Q26.2) WILD-TYPE   39  100
   clus
vv  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  0                           6                            39
  1                          24                           100
[1] 2 2
[1] FALSE
D6V6, binary
                               cls
clus                             0  1
  AMP PEAK  6(3Q26.2) MUTATED   15  1
  AMP PEAK  6(3Q26.2) WILD-TYPE 65  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED     15    1
  AMP PEAK  6(3Q26.2) WILD-TYPE   65    3
   clus
vv  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  0                          15                            65
  1                           1                             3
[1] 2 2
[1] FALSE
D6V7, binary
                               cls
clus                             0  1
  AMP PEAK  6(3Q26.2) MUTATED   10 20
  AMP PEAK  6(3Q26.2) WILD-TYPE 68 75
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED     10   20
  AMP PEAK  6(3Q26.2) WILD-TYPE   68   75
        clus
vv       AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  FEMALE                          10                            68
  MALE                            20                            75
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  6(3Q26.2) MUTATED                                    27
  AMP PEAK  6(3Q26.2) WILD-TYPE                                 118
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  6(3Q26.2) MUTATED                                       3
  AMP PEAK  6(3Q26.2) WILD-TYPE                                    19
                               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
D6V8, multiclass
                                                  clus
vv                                                 AMP PEAK  6(3Q26.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       27
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 AMP PEAK  6(3Q26.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        118
  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"
D6V9, continuous
D6V10, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  6(3Q26.2) MUTATED   13 15  1  1
  AMP PEAK  6(3Q26.2) WILD-TYPE 95 36  1  3
D6V11, multiclass
    clus
vv   AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  R0                          13                            95
  R1                          15                            36
  R2                           1                             1
  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"
D6V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  6(3Q26.2) MUTATED       0                         2    26
  AMP PEAK  6(3Q26.2) WILD-TYPE     3                         5   132
D6V13, multiclass
                           clus
vv                          AMP PEAK  6(3Q26.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              26
                           clus
vv                          AMP PEAK  6(3Q26.2) WILD-TYPE
  ASIAN                                                 3
  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"
D6V14, binary
                               cls
clus                              0   1
  AMP PEAK  6(3Q26.2) MUTATED     1  23
  AMP PEAK  6(3Q26.2) WILD-TYPE   2 112
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED      1   23
  AMP PEAK  6(3Q26.2) WILD-TYPE    2  112
                        clus
vv                       AMP PEAK  6(3Q26.2) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          23
                        clus
vv                       AMP PEAK  6(3Q26.2) WILD-TYPE
  HISPANIC OR LATINO                                 2
  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    8  4
  AMP PEAK  7(4P16.3) WILD-TYPE 71 88
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                           12                           159 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                            4                            88 
$`AMP PEAK  7(4P16.3) MUTATED`
TCGA-2J-AAB6 TCGA-2J-AABP TCGA-2L-AAQM TCGA-3A-A9IN TCGA-3A-A9IS TCGA-3A-A9IV 
        9.63        11.84        45.47        68.52        30.64        31.79 
TCGA-FB-A7DR TCGA-FB-AAPP TCGA-HZ-7922 TCGA-IB-A5SS TCGA-IB-AAUU TCGA-YB-A89D 
       11.61        15.95         0.13        15.12         8.05        11.51 

$`AMP PEAK  7(4P16.3) WILD-TYPE`
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-AABR 
       22.72        22.26        31.86        15.91        14.47        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       10.49         9.11        21.44         4.70        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
       12.95         9.60        53.00        23.61        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IO TCGA-3A-A9IR 
       24.26        28.73        60.95        84.10        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        12.39        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H 
       10.98         9.70        19.46         7.10         7.66        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        14.76        12.43 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 
       37.15         7.50        12.53        34.82        23.54        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 
        4.04         5.03         1.02         8.02        24.36         2.01 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 
        5.10        36.20        20.35        15.78        17.79        12.89 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 
       13.84        22.06        21.73         0.92        19.50         7.76 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.26        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 
        0.69         3.95         9.83        12.43        14.93        17.92 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK 
        4.96        21.70        16.14        10.13         6.38        21.60 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 
        5.26        10.85         1.08         0.23        12.95        49.38 
TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 
        4.77        21.90        15.35        19.82        23.80        15.65 
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 
       21.30         3.85        15.98         2.47        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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
       12.92        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        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E 
       17.26        23.08        22.85        27.75        16.80        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL 
        0.39        18.67        13.81        12.99        12.03        13.32 
TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.76        66.28         0.69 

  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                         84.10 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                        13.48                         14.17 
[1] "0.1 - 68.5 (13.5)" "0.2 - 84.1 (14.2)"
[1] "hr=" "1.9"
D7V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  7(4P16.3) MUTATED         0        0        3         2         8
  AMP PEAK  7(4P16.3) WILD-TYPE       1        6       10        24       109
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  7(4P16.3) MUTATED           0        0
  AMP PEAK  7(4P16.3) WILD-TYPE         5        4
D7V3, multiclass
           clus
vv          AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             6
  STAGE IB                            3                            10
  STAGE IIA                           2                            24
  STAGE IIB                           8                           109
  STAGE III                           0                             5
  STAGE IV                            0                             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  7(4P16.3) MUTATED     0   3  10   0
  AMP PEAK  7(4P16.3) WILD-TYPE   8  18 129   4
D7V4, multiclass
    clus
vv   AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  T1                           0                             8
  T2                           3                            18
  T3                          10                           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"
D7V5, binary
                               cls
clus                              0   1
  AMP PEAK  7(4P16.3) MUTATED     3   8
  AMP PEAK  7(4P16.3) WILD-TYPE  42 116
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED      3    8
  AMP PEAK  7(4P16.3) WILD-TYPE   42  116
   clus
vv  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  0                           3                            42
  1                           8                           116
[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 75  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED      5    0
  AMP PEAK  7(4P16.3) WILD-TYPE   75    4
   clus
vv  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  0                           5                            75
  1                           0                             4
[1] 2 2
[1] FALSE
D7V7, binary
                               cls
clus                             0  1
  AMP PEAK  7(4P16.3) MUTATED    6  7
  AMP PEAK  7(4P16.3) WILD-TYPE 72 88
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED      6    7
  AMP PEAK  7(4P16.3) WILD-TYPE   72   88
        clus
vv       AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  FEMALE                           6                            72
  MALE                             7                            88
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  7(4P16.3) MUTATED                                     7
  AMP PEAK  7(4P16.3) WILD-TYPE                                 138
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  7(4P16.3) MUTATED                                       4
  AMP PEAK  7(4P16.3) WILD-TYPE                                    18
                               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
D7V8, multiclass
                                                  clus
vv                                                 AMP PEAK  7(4P16.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        7
  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                                        138
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       18
  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"
D7V9, continuous
D7V10, 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                            43 
                   TCGA-2J-AAB1                    TCGA-2J-AABE 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-2J-AABF                    TCGA-2J-AABI 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-2J-AABO                    TCGA-3A-A9IB 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-3A-A9IJ                    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-A77Q 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-HZ-A8P0                    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-A7SX 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-LB-A9Q5                    TCGA-OE-A75W 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-S4-A8RM                    TCGA-US-A774 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-XD-AAUI                    TCGA-XD-AAUL 
"AMP PEAK  7(4P16.3) WILD-TYPE" "AMP PEAK  7(4P16.3) WILD-TYPE" 
                   TCGA-YY-A8LH 
"AMP PEAK  7(4P16.3) WILD-TYPE" 
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  7(4P16.3) MUTATED   11  2  0  0
  AMP PEAK  7(4P16.3) WILD-TYPE 97 49  2  4
D7V11, multiclass
    clus
vv   AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  R0                          11                            97
  R1                           2                            49
  R2                           0                             2
  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"
D7V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  7(4P16.3) MUTATED       1                         0    12
  AMP PEAK  7(4P16.3) WILD-TYPE     2                         7   146
D7V13, multiclass
                           clus
vv                          AMP PEAK  7(4P16.3) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              12
                           clus
vv                          AMP PEAK  7(4P16.3) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             7
  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"
D7V14, binary
                               cls
clus                              0   1
  AMP PEAK  7(4P16.3) MUTATED     1   9
  AMP PEAK  7(4P16.3) WILD-TYPE   2 126
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED      1    9
  AMP PEAK  7(4P16.3) WILD-TYPE    2  126
                        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                                 2
  NOT HISPANIC OR LATINO                           126
[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    4  5
  AMP PEAK  8(6P21.31) WILD-TYPE 75 87
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             9                            162 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             5                             87 
$`AMP PEAK  8(6P21.31) MUTATED`
TCGA-2J-AABF TCGA-3A-A9IO TCGA-FB-AAPZ TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A77O 
       22.72        63.85        23.54         3.95        17.92         5.26 
TCGA-IB-AAUN TCGA-LB-A8F3 TCGA-US-A776 
        4.73        12.46        27.75 

$`AMP PEAK  8(6P21.31) WILD-TYPE`
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        22.26        31.86        15.91        14.47        11.84 
TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       14.40        10.49         9.11        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 
        3.39        12.95         9.60        45.47        53.00        23.61 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL 
       20.84         7.36        24.26        28.73        60.95        84.10 
TCGA-3A-A9IN TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX 
       68.52        50.70        30.64        15.06        31.79        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       10.13        12.39        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
       19.46         7.10         7.66        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        14.76        12.43        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-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 
        5.03         1.02         8.02        24.36         2.01         5.10 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N 
       36.20        20.35        15.78        17.79        12.89        13.84 
TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       22.06        21.73         0.92        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.26        27.62        20.19        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G 
        0.69         9.83        12.43        14.93         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q 
       16.14        10.13         6.38        21.60        10.85         1.08 
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-7654 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 
       19.82        23.80        15.65        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        21.30         3.85        15.98 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS 
        2.47        17.16        12.00        15.85         7.20        15.12 
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-A7SX TCGA-LB-A9Q5 
        8.05        13.28         7.56         9.14        12.92        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-A8RO TCGA-S4-A8RP TCGA-US-A774 
        9.40         0.30        21.24        17.26        23.08        22.85 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        13.32        11.51        12.76        66.28         0.69 

  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 
                         63.85                          84.10 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                        17.920                         14.155 
[1] "4.0 - 63.9 (17.9)" "0.1 - 84.1 (14.2)"
[1] "hr=" "1.2"
D8V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  8(6P21.31) MUTATED         0        0        1         2         4
  AMP PEAK  8(6P21.31) WILD-TYPE       1        6       12        24       113
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK  8(6P21.31) MUTATED           0        1
  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                              6
  STAGE IB                             1                             12
  STAGE IIA                            2                             24
  STAGE IIB                            4                            113
  STAGE III                            0                              5
  STAGE IV                             1                              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   3   5   0
  AMP PEAK  8(6P21.31) WILD-TYPE   8  18 134   4
D8V4, multiclass
    clus
vv   AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  T1                            0                              8
  T2                            3                             18
  T3                            5                            134
  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     4   4
  AMP PEAK  8(6P21.31) WILD-TYPE  41 120
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      4    4
  AMP PEAK  8(6P21.31) WILD-TYPE   41  120
   clus
vv  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  0                            4                             41
  1                            4                            120
[1] 2 2
[1] FALSE
D8V6, binary
                                cls
clus                              0  1
  AMP PEAK  8(6P21.31) MUTATED    2  1
  AMP PEAK  8(6P21.31) WILD-TYPE 78  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      2    1
  AMP PEAK  8(6P21.31) WILD-TYPE   78    3
   clus
vv  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  0                            2                             78
  1                            1                              3
[1] 2 2
[1] FALSE
D8V7, binary
                                cls
clus                              0  1
  AMP PEAK  8(6P21.31) MUTATED    4  5
  AMP PEAK  8(6P21.31) WILD-TYPE 74 90
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      4    5
  AMP PEAK  8(6P21.31) WILD-TYPE   74   90
        clus
vv       AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  FEMALE                            4                             74
  MALE                              5                             90
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  8(6P21.31) MUTATED                                     7
  AMP PEAK  8(6P21.31) WILD-TYPE                                 138
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  8(6P21.31) MUTATED                                       1
  AMP PEAK  8(6P21.31) WILD-TYPE                                    21
                                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
D8V8, multiclass
                                                  clus
vv                                                 AMP PEAK  8(6P21.31) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         7
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK  8(6P21.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         138
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        21
  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"
D8V9, 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                             53 
                    TCGA-2J-AAB1                     TCGA-2J-AABA 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-2J-AABE                     TCGA-2J-AABI 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-2J-AABO                     TCGA-2J-AABV 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-2L-AAQA                     TCGA-2L-AAQE 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-3A-A9I9                     TCGA-3A-A9IB 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-3A-A9IJ                     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-H6-A45N                     TCGA-H8-A6C1 
"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-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-A5SS                     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-AAUU 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-AAUV                     TCGA-LB-A7SX 
"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-XD-AAUL 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-YY-A8LH 
"AMP PEAK  8(6P21.31) WILD-TYPE" 
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                             44 
                    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-A9IJ 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-3A-A9IR                     TCGA-3A-A9IX 
"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-HZ-A77Q 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-HZ-A8P0                     TCGA-HZ-A8P1 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-7644                     TCGA-IB-7649 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-7651                     TCGA-IB-7885 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-7886                     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-A5SS                     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-A7SX                     TCGA-LB-A9Q5 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-OE-A75W                     TCGA-S4-A8RM 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-US-A774                     TCGA-XD-AAUI 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-XD-AAUL                     TCGA-YY-A8LH 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                                vv
clus                              R0  R1  R2  RX
  AMP PEAK  8(6P21.31) MUTATED     5   4   0   0
  AMP PEAK  8(6P21.31) WILD-TYPE 103  47   2   4
D8V11, multiclass
    clus
vv   AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  R0                            5                            103
  R1                            4                             47
  R2                            0                              2
  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"
D8V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  8(6P21.31) MUTATED       0                         1     8
  AMP PEAK  8(6P21.31) WILD-TYPE     3                         6   150
D8V13, multiclass
                           clus
vv                          AMP PEAK  8(6P21.31) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                                8
                           clus
vv                          AMP PEAK  8(6P21.31) WILD-TYPE
  ASIAN                                                  3
  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"
D8V14, binary
                                cls
clus                               0   1
  AMP PEAK  8(6P21.31) MUTATED     0   8
  AMP PEAK  8(6P21.31) WILD-TYPE   3 127
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      0    8
  AMP PEAK  8(6P21.31) WILD-TYPE    3  127
                        clus
vv                       AMP PEAK  8(6P21.31) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                            8
                        clus
vv                       AMP PEAK  8(6P21.31) WILD-TYPE
  HISPANIC OR LATINO                                  3
  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   22 32
  AMP PEAK  9(7Q22.1) WILD-TYPE 57 60
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           54                           117 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           32                            60 
$`AMP PEAK  9(7Q22.1) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABT TCGA-2L-AAQL 
        2.17         9.63         2.63        22.72        10.49         9.60 
TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN 
       45.47        23.61        20.84        60.95        84.10        68.52 
TCGA-3A-A9IO TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-A7TX TCGA-FB-A545 
       63.85        31.79        10.13        12.39         3.12        24.07 
TCGA-FB-AAPP TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FZ-5919 
       15.95        12.53        23.54        15.55         4.04        24.36 
TCGA-FZ-5921 TCGA-FZ-5923 TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7926 TCGA-HZ-8005 
        5.10        20.35        12.89        21.73        17.03         3.95 
TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-IB-7645 TCGA-IB-7652 TCGA-IB-7886 
       17.92         6.38         5.26        49.38        23.80         4.04 
TCGA-IB-7889 TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-A7LX 
       15.81         3.85        17.16        15.85         1.35         8.22 
TCGA-IB-AAUQ TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-PZ-A5RE 
        6.02         8.05         9.14        12.92        19.20        15.45 
TCGA-RB-A7B8 TCGA-S4-A8RM TCGA-US-A776 TCGA-US-A77E TCGA-XD-AAUL TCGA-YB-A89D 
       15.32        21.24        27.75        14.14        13.32        11.51 

$`AMP PEAK  9(7Q22.1) WILD-TYPE`
TCGA-2J-AAB4 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI 
       23.97        20.61        19.96        22.22        22.26        31.86 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABU TCGA-2J-AABV 
       15.91        14.47        11.84        14.40         9.11        21.44 
TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I5 TCGA-3A-A9IB 
        4.70        22.49         3.39        12.95        53.00         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IX 
       24.26        28.73        50.70        30.64        15.06        34.09 
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-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T 
        7.66        19.27        17.00         5.88        14.76        12.43 
TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAQ2 TCGA-FB-AAQ3 
       11.61        37.15         7.50        34.82         5.03         1.02 
TCGA-FB-AAQ6 TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-A45N 
        8.02         2.01        36.20        15.78        17.79        13.84 
TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       22.06         0.92        19.50         7.76         0.13         0.26 
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         0.69         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-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7646 
       21.60        10.85         1.08         0.23        12.95         4.77 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7887 
       21.90        15.35        19.82        15.65        41.33         3.62 
TCGA-IB-7888 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO 
       43.79        19.66        21.30        15.98         2.47        12.00 
TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM 
        7.20        15.12        20.88        21.90        15.88         0.26 
TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        4.73         7.86        14.17        11.11         7.40         9.44 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-Q3-A5QY 
       13.28         7.56        12.46        10.29         8.78        13.68 
TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 
        3.12         9.40         0.30        17.26        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-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.76        66.28         0.69 

  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 
                        84.10                         75.12 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                       15.385                        13.840 
[1] "1.4 - 84.1 (15.4)" "0.1 - 75.1 (13.8)"
[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        38
  AMP PEAK  9(7Q22.1) WILD-TYPE       0        6       10        17        79
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK  9(7Q22.1) MUTATED           0        2
  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                             6
  STAGE IB                            3                            10
  STAGE IIA                           9                            17
  STAGE IIB                          38                            79
  STAGE III                           0                             5
  STAGE IV                            2                             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 46  1
  AMP PEAK  9(7Q22.1) WILD-TYPE  7 16 93  3
D9V4, multiclass
    clus
vv   AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  T1                           1                             7
  T2                           5                            16
  T3                          46                            93
  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   12 39
  AMP PEAK  9(7Q22.1) WILD-TYPE 33 85
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED     12   39
  AMP PEAK  9(7Q22.1) WILD-TYPE   33   85
   clus
vv  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  0                          12                            33
  1                          39                            85
[1] 2 2
[1] FALSE
D9V6, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q22.1) MUTATED   21  2
  AMP PEAK  9(7Q22.1) WILD-TYPE 59  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED     21    2
  AMP PEAK  9(7Q22.1) WILD-TYPE   59    2
   clus
vv  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  0                          21                            59
  1                           2                             2
[1] 2 2
[1] FALSE
D9V7, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q22.1) MUTATED   19 35
  AMP PEAK  9(7Q22.1) WILD-TYPE 59 60
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED     19   35
  AMP PEAK  9(7Q22.1) WILD-TYPE   59   60
        clus
vv       AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  FEMALE                          19                            59
  MALE                            35                            60
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  9(7Q22.1) MUTATED                                    43
  AMP PEAK  9(7Q22.1) WILD-TYPE                                 102
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  9(7Q22.1) MUTATED                                      10
  AMP PEAK  9(7Q22.1) WILD-TYPE                                    12
                               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
D9V8, multiclass
                                                  clus
vv                                                 AMP PEAK  9(7Q22.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       43
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     10
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 AMP PEAK  9(7Q22.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        102
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       12
  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"
D9V9, continuous
D9V10, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  9(7Q22.1) MUTATED   26 20  1  3
  AMP PEAK  9(7Q22.1) WILD-TYPE 82 31  1  1
D9V11, multiclass
    clus
vv   AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  R0                          26                            82
  R1                          20                            31
  R2                           1                             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"
D9V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  9(7Q22.1) MUTATED       2                         3    46
  AMP PEAK  9(7Q22.1) WILD-TYPE     1                         4   112
D9V13, multiclass
                           clus
vv                          AMP PEAK  9(7Q22.1) MUTATED
  ASIAN                                               2
  BLACK OR AFRICAN AMERICAN                           3
  WHITE                                              46
                           clus
vv                          AMP PEAK  9(7Q22.1) WILD-TYPE
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             4
  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"
D9V14, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q22.1) MUTATED    1 40
  AMP PEAK  9(7Q22.1) WILD-TYPE  2 95
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED      1   40
  AMP PEAK  9(7Q22.1) WILD-TYPE    2   95
                        clus
vv                       AMP PEAK  9(7Q22.1) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          40
                        clus
vv                       AMP PEAK  9(7Q22.1) WILD-TYPE
  HISPANIC OR LATINO                                 2
  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   13 19
  AMP PEAK 10(8P11.22) WILD-TYPE 66 73
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            32                            139 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            19                             73 
$`AMP PEAK 10(8P11.22) MUTATED`
TCGA-2J-AAB6 TCGA-2J-AABF TCGA-2J-AABV TCGA-3A-A9I5 TCGA-3A-A9IO TCGA-3A-A9IS 
        9.63        22.72        21.44        53.00        63.85        30.64 
TCGA-3A-A9IX TCGA-F2-A7TX TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAQ0 TCGA-FB-AAQ1 
       34.09         3.12        24.07        15.95        15.55         4.04 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-A77O TCGA-HZ-A77P 
        5.10        36.20         3.95         9.83         5.26        10.85 
TCGA-IB-7646 TCGA-IB-7886 TCGA-IB-7893 TCGA-IB-8126 TCGA-IB-A5SP TCGA-IB-A6UG 
        4.77         4.04         3.85         2.47        15.85         1.35 
TCGA-IB-A7M4 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-S4-A8RM TCGA-S4-A8RO TCGA-XD-AAUI 
       15.88        19.20        15.45        21.24        17.26        12.03 
TCGA-YB-A89D TCGA-YH-A8SY 
       11.51        12.76 

$`AMP PEAK 10(8P11.22) WILD-TYPE`
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-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR 
       22.26        31.86        15.91        14.47        11.84        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ 
       10.49         9.11         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        23.61        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IR TCGA-3A-A9IU 
       28.73        60.95        84.10        68.52        50.70        15.06 
TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       31.79        10.13        12.39        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN 
        9.70        19.46         7.10         7.66        19.27        17.00 
TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS 
        5.88        14.76        12.43        11.61        37.15         7.50 
TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 
       12.53        34.82        23.54         5.03         1.02         8.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 
       24.36         2.01        20.35        15.78        17.79        12.89 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 
       13.84        22.06        21.73         0.92        19.50         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        0.13         0.26        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         0.69        12.43        14.93        17.92         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77Q 
       21.70        16.14        10.13         6.38        21.60         1.08 
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-7654 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       23.80        15.65        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        21.30        15.98        17.16        12.00         7.20 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7LX TCGA-IB-AAUM TCGA-IB-AAUN 
       15.12        20.88        21.90         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-A7SX TCGA-LB-A8F3 
        8.05        13.28         7.56         9.14        12.92        12.46 
TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
       10.29         8.78        13.68         3.12        15.32         9.40 
TCGA-RL-AAAS TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E 
        0.30        23.08        22.85        27.75        16.80        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUL TCGA-YY-A8LH 
        0.39        18.67        13.81        12.99        13.32        66.28 
TCGA-Z5-AAPL 
        0.69 

  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                          84.10 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                        14.105                         14.170 
[1] "1.4 - 63.9 (14.1)" "0.1 - 84.1 (14.2)"
[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        2        1         7        20
  AMP PEAK 10(8P11.22) WILD-TYPE       1        4       12        19        97
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 10(8P11.22) MUTATED           2        0
  AMP PEAK 10(8P11.22) WILD-TYPE         3        4
D10V3, multiclass
           clus
vv          AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             2                              4
  STAGE IB                             1                             12
  STAGE IIA                            7                             19
  STAGE IIB                           20                             97
  STAGE III                            2                              3
  STAGE IV                             0                              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 10(8P11.22) MUTATED     2   2  27   1
  AMP PEAK 10(8P11.22) WILD-TYPE   6  19 112   3
D10V4, multiclass
    clus
vv   AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  T1                            2                              6
  T2                            2                             19
  T3                           27                            112
  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  22
  AMP PEAK 10(8P11.22) WILD-TYPE  35 102
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED     10   22
  AMP PEAK 10(8P11.22) WILD-TYPE   35  102
   clus
vv  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  0                           10                             35
  1                           22                            102
[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 66  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED     14    0
  AMP PEAK 10(8P11.22) WILD-TYPE   66    4
   clus
vv  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  0                           14                             66
  1                            0                              4
[1] 2 2
[1] FALSE
D10V7, binary
                                cls
clus                              0  1
  AMP PEAK 10(8P11.22) MUTATED   11 22
  AMP PEAK 10(8P11.22) WILD-TYPE 67 73
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED     11   22
  AMP PEAK 10(8P11.22) WILD-TYPE   67   73
        clus
vv       AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  FEMALE                           11                             67
  MALE                             22                             73
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 10(8P11.22) MUTATED                                    29
  AMP PEAK 10(8P11.22) WILD-TYPE                                 116
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 10(8P11.22) MUTATED                                       3
  AMP PEAK 10(8P11.22) WILD-TYPE                                    19
                                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
D10V8, multiclass
                                                  clus
vv                                                 AMP PEAK 10(8P11.22) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        29
  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                                         116
  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"
D10V9, continuous
D10V10, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 10(8P11.22) MUTATED   15 14  0  0
  AMP PEAK 10(8P11.22) WILD-TYPE 93 37  2  4
D10V11, multiclass
    clus
vv   AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  R0                           15                             93
  R1                           14                             37
  R2                            0                              2
  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"
D10V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 10(8P11.22) MUTATED       0                         0    31
  AMP PEAK 10(8P11.22) WILD-TYPE     3                         7   127
D10V13, multiclass
                           clus
vv                          AMP PEAK 10(8P11.22) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               31
                           clus
vv                          AMP PEAK 10(8P11.22) WILD-TYPE
  ASIAN                                                  3
  BLACK OR AFRICAN AMERICAN                              7
  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"
D10V14, binary
                                cls
clus                               0   1
  AMP PEAK 10(8P11.22) MUTATED     1  25
  AMP PEAK 10(8P11.22) WILD-TYPE   2 110
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED      1   25
  AMP PEAK 10(8P11.22) WILD-TYPE    2  110
                        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                                  2
  NOT HISPANIC OR LATINO                            110
[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   15 16
  AMP PEAK 11(8P11.21) WILD-TYPE 64 76
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            31                            140 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            16                             76 
$`AMP PEAK 11(8P11.21) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABP TCGA-3A-A9I5 TCGA-3A-A9IO TCGA-3A-A9IS 
        2.63        22.72        11.84        53.00        63.85        30.64 
TCGA-3A-A9IX TCGA-F2-A7TX TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPZ TCGA-FB-AAQ0 
       34.09         3.12        24.07        15.95        23.54        15.55 
TCGA-FB-AAQ1 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-A77O 
        4.04         5.10        36.20         3.95         9.83         5.26 
TCGA-HZ-A77P TCGA-IB-7646 TCGA-IB-7649 TCGA-IB-7886 TCGA-IB-7893 TCGA-IB-A5SP 
       10.85         4.77        15.35         4.04         3.85        15.85 
TCGA-IB-A6UG TCGA-IB-AAUU TCGA-M8-A5N4 TCGA-S4-A8RM TCGA-S4-A8RO TCGA-YB-A89D 
        1.35         8.05        19.20        21.24        17.26        11.51 
TCGA-YH-A8SY 
       12.76 

$`AMP PEAK 11(8P11.21) WILD-TYPE`
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-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT 
       22.26        31.86        15.91        14.47        14.40        10.49 
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        23.61        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IR TCGA-3A-A9IU 
       28.73        60.95        84.10        68.52        50.70        15.06 
TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       31.79        10.13        12.39        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN 
        9.70        19.46         7.10         7.66        19.27        17.00 
TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS 
        5.88        14.76        12.43        11.61        37.15         7.50 
TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 
       12.53        34.82         5.03         1.02         8.02        24.36 
TCGA-FZ-5920 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N 
        2.01        20.35        15.78        17.79        12.89        13.84 
TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       22.06        21.73         0.92        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.26        27.62        20.19        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G 
        0.69        12.43        14.93        17.92         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-HZ-A8P1 
       16.14        10.13         6.38        21.60         1.08         0.23 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 
       12.95        49.38        21.90        19.82        23.80        15.65 
TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 
       41.33         3.62        43.79        15.81        19.66        21.30 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5SS 
       15.98         2.47        17.16        12.00         7.20        15.12 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN 
       20.88        21.90         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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
       13.28         7.56         9.14        12.92        12.46        10.29 
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-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E 
        0.30        23.08        22.85        27.75        16.80        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL 
        0.39        18.67        13.81        12.99        12.03        13.32 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28         0.69 

  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 
                         63.85                          84.10 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                        12.760                         14.285 
[1] "1.4 - 63.9 (12.8)" "0.1 - 84.1 (14.3)"
[1] "hr=" "1"  
D11V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 11(8P11.21) MUTATED         0        2        1         6        21
  AMP PEAK 11(8P11.21) WILD-TYPE       1        4       12        20        96
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 11(8P11.21) MUTATED           1        0
  AMP PEAK 11(8P11.21) WILD-TYPE         4        4
D11V3, multiclass
           clus
vv          AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             2                              4
  STAGE IB                             1                             12
  STAGE IIA                            6                             20
  STAGE IIB                           21                             96
  STAGE III                            1                              4
  STAGE IV                             0                              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 11(8P11.21) MUTATED     2   3  26   0
  AMP PEAK 11(8P11.21) WILD-TYPE   6  18 113   4
D11V4, multiclass
    clus
vv   AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  T1                            2                              6
  T2                            3                             18
  T3                           26                            113
  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  22
  AMP PEAK 11(8P11.21) WILD-TYPE  36 102
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED      9   22
  AMP PEAK 11(8P11.21) WILD-TYPE   36  102
   clus
vv  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  0                            9                             36
  1                           22                            102
[1] 2 2
[1] FALSE
D11V6, binary
                                cls
clus                              0  1
  AMP PEAK 11(8P11.21) MUTATED   15  0
  AMP PEAK 11(8P11.21) WILD-TYPE 65  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED     15    0
  AMP PEAK 11(8P11.21) WILD-TYPE   65    4
   clus
vv  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  0                           15                             65
  1                            0                              4
[1] 2 2
[1] FALSE
D11V7, binary
                                cls
clus                              0  1
  AMP PEAK 11(8P11.21) MUTATED   10 22
  AMP PEAK 11(8P11.21) WILD-TYPE 68 73
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED     10   22
  AMP PEAK 11(8P11.21) WILD-TYPE   68   73
        clus
vv       AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  FEMALE                           10                             68
  MALE                             22                             73
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 11(8P11.21) MUTATED                                    27
  AMP PEAK 11(8P11.21) WILD-TYPE                                 118
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 11(8P11.21) MUTATED                                       3
  AMP PEAK 11(8P11.21) WILD-TYPE                                    19
                                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
D11V8, multiclass
                                                  clus
vv                                                 AMP PEAK 11(8P11.21) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        27
  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                                         118
  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"
D11V9, continuous
D11V10, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 11(8P11.21) MUTATED   16 13  0  0
  AMP PEAK 11(8P11.21) WILD-TYPE 92 38  2  4
D11V11, multiclass
    clus
vv   AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  R0                           16                             92
  R1                           13                             38
  R2                            0                              2
  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"
D11V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 11(8P11.21) MUTATED       0                         0    29
  AMP PEAK 11(8P11.21) WILD-TYPE     3                         7   129
D11V13, multiclass
                           clus
vv                          AMP PEAK 11(8P11.21) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               29
                           clus
vv                          AMP PEAK 11(8P11.21) WILD-TYPE
  ASIAN                                                  3
  BLACK OR AFRICAN AMERICAN                              7
  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"
D11V14, binary
                                cls
clus                               0   1
  AMP PEAK 11(8P11.21) MUTATED     1  23
  AMP PEAK 11(8P11.21) WILD-TYPE   2 112
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED      1   23
  AMP PEAK 11(8P11.21) WILD-TYPE    2  112
                        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                                  2
  NOT HISPANIC OR LATINO                            112
[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   26 42
  AMP PEAK 12(8Q24.21) WILD-TYPE 53 50
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            68                            103 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            42                             50 
$`AMP PEAK 12(8Q24.21) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABP TCGA-2L-AAQE TCGA-2L-AAQI 
       23.97        22.72        22.26        11.84        22.49         3.39 
TCGA-2L-AAQJ TCGA-3A-A9I5 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IO TCGA-3A-A9IS 
       12.95        53.00         7.36        28.73        63.85        30.64 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-F2-6879 TCGA-F2-A7TX TCGA-FB-A545 TCGA-FB-A5VM 
       34.09        10.13        10.98         3.12        24.07        14.76 
TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 
       12.43        15.95        12.53        23.54        15.55         4.04 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5921 TCGA-FZ-5926 TCGA-H8-A6C1 
        5.03         1.02         8.02         5.10        17.79        22.06 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8005 TCGA-HZ-8315 
       21.73         0.92         0.13        20.19         3.95         9.83 
TCGA-HZ-8636 TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 
       17.92         5.26         0.23         4.77        21.90        15.35 
TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7893 
       23.80        15.65         4.04        15.81        19.66         3.85 
TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX 
       17.16        15.85        15.12        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-A8RO TCGA-S4-A8RP TCGA-US-A776 TCGA-US-A779 TCGA-XD-AAUI 
       21.24        17.26        23.08        27.75        16.80        12.03 
TCGA-YB-A89D TCGA-YH-A8SY 
       11.51        12.76 

$`AMP PEAK 12(8Q24.21) WILD-TYPE`
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-AABR TCGA-2J-AABT TCGA-2J-AABU 
       31.86        15.91        14.47        14.40        10.49         9.11 
TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 
       21.44         4.70         9.60        45.47        23.61        20.84 
TCGA-3A-A9IC TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IR TCGA-3A-A9IU 
       24.26        60.95        84.10        68.52        50.70        15.06 
TCGA-3A-A9IV TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 
       31.79        12.39        75.12        71.74         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A7DR 
        7.10         7.66        19.27        17.00         5.88        11.61 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 
       37.15         7.50        34.82        24.36         2.01        36.20 
TCGA-FZ-5923 TCGA-FZ-5924 TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7919 TCGA-HZ-7920 
       20.35        15.78        12.89        13.84        19.50         7.76 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
        0.26        27.62        17.03        23.21        12.03         0.69 
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-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-IB-7644 TCGA-IB-7645 
        6.38        21.60        10.85         1.08        12.95        49.38 
TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7891 TCGA-IB-7897 
       19.82        41.33         3.62        43.79        21.30        15.98 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-AAUM TCGA-IB-AAUO 
        2.47        12.00         7.20        20.88         0.26         7.86 
TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
       14.17        11.11         7.40         9.44         8.05        13.28 
TCGA-IB-AAUW TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-PZ-A5RE TCGA-Q3-A5QY 
        7.56        12.92        12.46        10.29        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-US-A774 TCGA-US-A77E 
        3.12        15.32         9.40         0.30        22.85        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUL TCGA-YY-A8LH 
        0.39        18.67        13.81        12.99        13.32        66.28 
TCGA-Z5-AAPL 
        0.69 

  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 
                         63.85                          84.10 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                        15.235                         13.840 
[1] "0.1 - 63.9 (15.2)" "0.3 - 84.1 (13.8)"
[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        4        5        10        45
  AMP PEAK 12(8Q24.21) WILD-TYPE       1        2        8        16        72
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 12(8Q24.21) MUTATED           3        1
  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                             4                              2
  STAGE IB                             5                              8
  STAGE IIA                           10                             16
  STAGE IIB                           45                             72
  STAGE III                            3                              2
  STAGE IV                             1                              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    4  9 54  1
  AMP PEAK 12(8Q24.21) WILD-TYPE  4 12 85  3
D12V4, multiclass
    clus
vv   AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  T1                            4                              4
  T2                            9                             12
  T3                           54                             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"
D12V5, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED   21 47
  AMP PEAK 12(8Q24.21) WILD-TYPE 24 77
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     21   47
  AMP PEAK 12(8Q24.21) WILD-TYPE   24   77
   clus
vv  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  0                           21                             24
  1                           47                             77
[1] 2 2
[1] FALSE
D12V6, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED   32  1
  AMP PEAK 12(8Q24.21) WILD-TYPE 48  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     32    1
  AMP PEAK 12(8Q24.21) WILD-TYPE   48    3
   clus
vv  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  0                           32                             48
  1                            1                              3
[1] 2 2
[1] FALSE
D12V7, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED   28 41
  AMP PEAK 12(8Q24.21) WILD-TYPE 50 54
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     28   41
  AMP PEAK 12(8Q24.21) WILD-TYPE   50   54
        clus
vv       AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  FEMALE                           28                             50
  MALE                             41                             54
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 12(8Q24.21) MUTATED                                    59
  AMP PEAK 12(8Q24.21) WILD-TYPE                                  86
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 12(8Q24.21) MUTATED                                       7
  AMP PEAK 12(8Q24.21) WILD-TYPE                                    15
                                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
D12V8, multiclass
                                                  clus
vv                                                 AMP PEAK 12(8Q24.21) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        59
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       7
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 12(8Q24.21) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          86
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        15
  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"
D12V9, continuous
D12V10, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 12(8Q24.21) MUTATED   39 25  1  1
  AMP PEAK 12(8Q24.21) WILD-TYPE 69 26  1  3
D12V11, multiclass
    clus
vv   AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  R0                           39                             69
  R1                           25                             26
  R2                            1                              1
  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"
D12V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 12(8Q24.21) MUTATED       2                         0    63
  AMP PEAK 12(8Q24.21) WILD-TYPE     1                         7    95
D12V13, multiclass
                           clus
vv                          AMP PEAK 12(8Q24.21) MUTATED
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               63
                           clus
vv                          AMP PEAK 12(8Q24.21) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              7
  WHITE                                                 95
[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"
D12V14, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED    2 52
  AMP PEAK 12(8Q24.21) WILD-TYPE  1 83
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED      2   52
  AMP PEAK 12(8Q24.21) WILD-TYPE    1   83
                        clus
vv                       AMP PEAK 12(8Q24.21) MUTATED
  HISPANIC OR LATINO                                2
  NOT HISPANIC OR LATINO                           52
                        clus
vv                       AMP PEAK 12(8Q24.21) WILD-TYPE
  HISPANIC OR LATINO                                  1
  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   10 12
  AMP PEAK 13(9P13.3) WILD-TYPE 69 80
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                           22                           149 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                           12                            80 
$`AMP PEAK 13(9P13.3) MUTATED`
TCGA-2J-AABP TCGA-2J-AABT TCGA-2J-AABU TCGA-2L-AAQM TCGA-3A-A9IN TCGA-3A-A9IV 
       11.84        10.49         9.11        45.47        68.52        31.79 
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         2.47 
TCGA-IB-A7LX TCGA-IB-AAUP TCGA-M8-A5N4 TCGA-US-A779 
        8.22        14.17        19.20        16.80 

$`AMP PEAK 13(9P13.3) WILD-TYPE`
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        22.26        31.86        15.91        14.47 
TCGA-2J-AABR TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ 
       14.40        21.44         4.70        22.49         3.39        12.95 
TCGA-2L-AAQL TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
        9.60        53.00        23.61        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       28.73        60.95        84.10        63.85        50.70        30.64 
TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       15.06        34.09        10.13        12.39        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H 
       10.98         9.70        19.46         7.10         7.66        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        14.76        12.43 
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-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 
        8.02        24.36         5.10        36.20        20.35        15.78 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 
       17.79        12.89        13.84        21.73         0.92        19.50 
TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76         0.13         0.26        27.62        17.03        23.21 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
       12.03         0.69         3.95         9.83        12.43        14.93 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK 
        4.96        21.70        16.14        10.13         6.38        21.60 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 
        5.26        10.85         1.08         0.23        12.95        49.38 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 
       21.90        15.35        19.82        23.80        15.65        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        21.30 
TCGA-IB-7897 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS 
       15.98        17.16        12.00        15.85         7.20        15.12 
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-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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
       13.28         7.56         9.14        12.92        12.46        10.29 
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-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 
        0.30        21.24        17.26        23.08        22.85        27.75 
TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI 
       14.14         0.39        18.67        13.81        12.99        12.03 
TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       13.32        11.51        12.76        66.28         0.69 

  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                         84.10 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                        15.75                         13.84 
[1] "2.0 - 68.5 (15.8)" "0.1 - 84.1 (13.8)"
[1] "hr=" "1"  
D13V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 13(9P13.3) MUTATED         0        0        2         4        15
  AMP PEAK 13(9P13.3) WILD-TYPE       1        6       11        22       102
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK 13(9P13.3) MUTATED           1        1
  AMP PEAK 13(9P13.3) WILD-TYPE         4        3
D13V3, multiclass
           clus
vv          AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             6
  STAGE IB                            2                            11
  STAGE IIA                           4                            22
  STAGE IIB                          15                           102
  STAGE III                           1                             4
  STAGE IV                            1                             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 13(9P13.3) MUTATED     0   3  19   1
  AMP PEAK 13(9P13.3) WILD-TYPE   8  18 120   3
D13V4, multiclass
    clus
vv   AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  T1                           0                             8
  T2                           3                            18
  T3                          19                           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"
D13V5, binary
                               cls
clus                              0   1
  AMP PEAK 13(9P13.3) MUTATED     6  16
  AMP PEAK 13(9P13.3) WILD-TYPE  39 108
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED      6   16
  AMP PEAK 13(9P13.3) WILD-TYPE   39  108
   clus
vv  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  0                           6                            39
  1                          16                           108
[1] 2 2
[1] FALSE
D13V6, binary
                               cls
clus                             0  1
  AMP PEAK 13(9P13.3) MUTATED    9  1
  AMP PEAK 13(9P13.3) WILD-TYPE 71  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED      9    1
  AMP PEAK 13(9P13.3) WILD-TYPE   71    3
   clus
vv  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  0                           9                            71
  1                           1                             3
[1] 2 2
[1] FALSE
D13V7, binary
                               cls
clus                             0  1
  AMP PEAK 13(9P13.3) MUTATED    8 15
  AMP PEAK 13(9P13.3) WILD-TYPE 70 80
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED      8   15
  AMP PEAK 13(9P13.3) WILD-TYPE   70   80
        clus
vv       AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  FEMALE                           8                            70
  MALE                            15                            80
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 13(9P13.3) MUTATED                                    18
  AMP PEAK 13(9P13.3) WILD-TYPE                                 127
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 13(9P13.3) MUTATED                                       4
  AMP PEAK 13(9P13.3) WILD-TYPE                                    18
                               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
D13V8, multiclass
                                                  clus
vv                                                 AMP PEAK 13(9P13.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       18
  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                                        127
  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"
D13V9, continuous
D13V10, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK 13(9P13.3) MUTATED   15  8  0  0
  AMP PEAK 13(9P13.3) WILD-TYPE 93 43  2  4
D13V11, multiclass
    clus
vv   AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  R0                          15                            93
  R1                           8                            43
  R2                           0                             2
  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"
D13V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 13(9P13.3) MUTATED       0                         1    21
  AMP PEAK 13(9P13.3) WILD-TYPE     3                         6   137
D13V13, multiclass
                           clus
vv                          AMP PEAK 13(9P13.3) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              21
                           clus
vv                          AMP PEAK 13(9P13.3) WILD-TYPE
  ASIAN                                                 3
  BLACK OR AFRICAN AMERICAN                             6
  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"
D13V14, binary
                               cls
clus                              0   1
  AMP PEAK 13(9P13.3) MUTATED     0  18
  AMP PEAK 13(9P13.3) WILD-TYPE   3 117
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED      0   18
  AMP PEAK 13(9P13.3) WILD-TYPE    3  117
                        clus
vv                       AMP PEAK 13(9P13.3) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                          18
                        clus
vv                       AMP PEAK 13(9P13.3) WILD-TYPE
  HISPANIC OR LATINO                                 3
  NOT HISPANIC OR LATINO                           117
[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   17 20
  AMP PEAK 14(12P13.33) WILD-TYPE 62 72
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             37                             134 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             20                              72 
$`AMP PEAK 14(12P13.33) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABI TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 
        2.63        22.72        31.86         9.60        45.47        53.00 
TCGA-3A-A9IB TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IS TCGA-3A-A9IV 
        7.36        84.10        68.52        63.85        30.64        31.79 
TCGA-F2-6879 TCGA-F2-A7TX TCGA-FB-AAPP TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ0 
       10.98         3.12        15.95        12.53        23.54        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5924 TCGA-HZ-7289 TCGA-HZ-7922 TCGA-HZ-8005 
        4.04         5.03        15.78        21.73         0.13         3.95 
TCGA-HZ-A77O TCGA-IB-7646 TCGA-IB-7654 TCGA-IB-7890 TCGA-IB-8127 TCGA-IB-A6UF 
        5.26         4.77        15.65        19.66        17.16        21.90 
TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUT TCGA-LB-A7SX TCGA-Q3-AA2A TCGA-US-A776 
        1.35         8.22         9.44        12.92         3.12        27.75 
TCGA-YH-A8SY 
       12.76 

$`AMP PEAK 14(12P13.33) WILD-TYPE`
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-AABR TCGA-2J-AABT 
       22.26        15.91        14.47        11.84        14.40        10.49 
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-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IR 
       23.61        20.84        24.26        28.73        60.95        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        12.39        75.12        71.74 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN 
        9.70        19.46         7.10         7.66        19.27        17.00 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ 
        5.88        24.07        14.76        12.43        11.61        37.15 
TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 
        7.50        34.82         1.02         8.02        24.36         2.01 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N 
        5.10        36.20        20.35        17.79        12.89        13.84 
TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 
       22.06         0.92        19.50         7.76         0.26        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         0.69         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       12.43        14.93        17.92         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 
       10.13         6.38        21.60        10.85         1.08         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        23.80 
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        21.30 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
        3.85        15.98         2.47        12.00        15.85         7.20 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO 
       15.12        20.88        15.88         0.26         4.73         7.86 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUU TCGA-IB-AAUV 
       14.17         6.02        11.11         7.40         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        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G 
       17.26        23.08        22.85        16.80        14.14         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D 
       18.67        13.81        12.99        12.03        13.32        11.51 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28         0.69 

  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 
                          84.10                           75.12 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                         15.550                          14.155 
[1] "0.1 - 84.1 (15.6)" "0.2 - 75.1 (14.2)"
[1] "hr=" "1.1"
D14V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 14(12P13.33) MUTATED         1        1        5         4        24
  AMP PEAK 14(12P13.33) WILD-TYPE       0        5        8        22        93
                                 vv
clus                              STAGE III STAGE IV
  AMP PEAK 14(12P13.33) MUTATED           1        0
  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                              1                               5
  STAGE IB                              5                               8
  STAGE IIA                             4                              22
  STAGE IIB                            24                              93
  STAGE III                             1                               4
  STAGE IV                              0                               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     2   8  26   0
  AMP PEAK 14(12P13.33) WILD-TYPE   6  13 113   4
D14V4, multiclass
    clus
vv   AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  T1                             2                               6
  T2                             8                              13
  T3                            26                             113
  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    8 26
  AMP PEAK 14(12P13.33) WILD-TYPE 37 98
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED      8   26
  AMP PEAK 14(12P13.33) WILD-TYPE   37   98
   clus
vv  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  0                             8                              37
  1                            26                              98
[1] 2 2
[1] FALSE
D14V6, binary
                                 cls
clus                               0  1
  AMP PEAK 14(12P13.33) MUTATED   13  0
  AMP PEAK 14(12P13.33) WILD-TYPE 67  4
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED     13    0
  AMP PEAK 14(12P13.33) WILD-TYPE   67    4
   clus
vv  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  0                            13                              67
  1                             0                               4
[1] 2 2
[1] FALSE
D14V7, binary
                                 cls
clus                               0  1
  AMP PEAK 14(12P13.33) MUTATED   12 25
  AMP PEAK 14(12P13.33) WILD-TYPE 66 70
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED     12   25
  AMP PEAK 14(12P13.33) WILD-TYPE   66   70
        clus
vv       AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  FEMALE                            12                              66
  MALE                              25                              70
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 14(12P13.33) MUTATED                                    25
  AMP PEAK 14(12P13.33) WILD-TYPE                                 120
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 14(12P13.33) MUTATED                                       9
  AMP PEAK 14(12P13.33) WILD-TYPE                                    13
                                 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
D14V8, multiclass
                                                  clus
vv                                                 AMP PEAK 14(12P13.33) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         25
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        9
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 AMP PEAK 14(12P13.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          120
  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"
D14V9, continuous
D14V10, continuous
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 14(12P13.33) MUTATED   18 15  0  3
  AMP PEAK 14(12P13.33) WILD-TYPE 90 36  2  1
D14V11, multiclass
    clus
vv   AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  R0                            18                              90
  R1                            15                              36
  R2                             0                               2
  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"
D14V12, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 14(12P13.33) MUTATED       1                         1    34
  AMP PEAK 14(12P13.33) WILD-TYPE     2                         6   124
D14V13, multiclass
                           clus
vv                          AMP PEAK 14(12P13.33) MUTATED
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                34
                           clus
vv                          AMP PEAK 14(12P13.33) WILD-TYPE
  ASIAN                                                   2
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 124
[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"
D14V14, binary
                                 cls
clus                                0   1
  AMP PEAK 14(12P13.33) MUTATED     0  29
  AMP PEAK 14(12P13.33) WILD-TYPE   3 106
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED      0   29
  AMP PEAK 14(12P13.33) WILD-TYPE    3  106
                        clus
vv                       AMP PEAK 14(12P13.33) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            29
                        clus
vv                       AMP PEAK 14(12P13.33) WILD-TYPE
  HISPANIC OR LATINO                                   3
  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   19 21
  AMP PEAK 15(12P11.21) WILD-TYPE 60 71
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             40                             131 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             21                              71 
$`AMP PEAK 15(12P11.21) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABU TCGA-2L-AAQJ 
        2.63        22.72        31.86        14.47         9.11        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IL 
        9.60        45.47        53.00         7.36        28.73        84.10 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IS TCGA-3A-A9IV TCGA-F2-A7TX TCGA-F2-A8YN 
       68.52        63.85        30.64        31.79         3.12        17.00 
TCGA-FB-AAPP TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5920 
       15.95        23.54        15.55         4.04         5.03         2.01 
TCGA-FZ-5924 TCGA-HZ-7289 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A4BH 
       15.78        21.73         0.13         3.95        17.92         6.38 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-IB-7646 TCGA-IB-7886 TCGA-IB-7890 TCGA-IB-8127 
       21.60         5.26         4.77         4.04        19.66        17.16 
TCGA-IB-A6UG TCGA-IB-A7LX TCGA-Q3-AA2A TCGA-YH-A8SY 
        1.35         8.22         3.12        12.76 

$`AMP PEAK 15(12P11.21) WILD-TYPE`
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-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABV 
       22.26        15.91        11.84        14.40        10.49        21.44 
TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IC 
        4.70        22.49         3.39        23.61        20.84        24.26 
TCGA-3A-A9IJ TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 
       60.95        50.70        15.06        34.09        10.13        12.39 
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-A44G TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
        7.66        19.27         5.88        24.07        14.76        12.43 
TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ3 
       11.61        37.15         7.50        12.53        34.82         1.02 
TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 
        8.02        24.36         5.10        36.20        20.35        17.79 
TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 
       12.89        13.84        22.06         0.92        19.50         7.76 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.26        27.62        20.19        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G 
        0.69         9.83        12.43        14.93         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 
       16.14        10.13        10.85         1.08         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 
       49.38        21.90        15.35        19.82        23.80        15.65 
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        21.30         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS 
       15.98         2.47        12.00        15.85         7.20        15.12 
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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
       13.28         7.56         9.14        12.92        12.46        10.29 
TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M 
       19.20         8.78        15.45        13.68        15.32         9.40 
TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 
        0.30        21.24        17.26        23.08        22.85        27.75 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        13.32        11.51        66.28         0.69 

  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 
                          84.10                           75.12 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                          15.01                           14.14 
[1] "0.1 - 84.1 (15.0)" "0.2 - 75.1 (14.1)"
[1] "hr=" "1.1"
D15V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 15(12P11.21) MUTATED         1        2        5         3        25
  AMP PEAK 15(12P11.21) WILD-TYPE       0        4        8        23        92
                                 vv
clus                              STAGE III STAGE IV
  AMP PEAK 15(12P11.21) MUTATED           2        1
  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                              2                               4
  STAGE IB                              5                               8
  STAGE IIA                             3                              23
  STAGE IIB                            25                              92
  STAGE III                             2                               3
  STAGE IV                              1                               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     3   6  29   1
  AMP PEAK 15(12P11.21) WILD-TYPE   5  15 110   3
D15V4, multiclass
    clus
vv   AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  T1                             3                               5
  T2                             6                              15
  T3                            29                             110
  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   10 27
  AMP PEAK 15(12P11.21) WILD-TYPE 35 97
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED     10   27
  AMP PEAK 15(12P11.21) WILD-TYPE   35   97
   clus
vv  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  0                            10                              35
  1                            27                              97
[1] 2 2
[1] FALSE
D15V6, binary
                                 cls
clus                               0  1
  AMP PEAK 15(12P11.21) MUTATED   14  1
  AMP PEAK 15(12P11.21) WILD-TYPE 66  3
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED     14    1
  AMP PEAK 15(12P11.21) WILD-TYPE   66    3
   clus
vv  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  0                            14                              66
  1                             1                               3
[1] 2 2
[1] FALSE
D15V7, binary
                                 cls
clus                               0  1
  AMP PEAK 15(12P11.21) MUTATED   13 27
  AMP PEAK 15(12P11.21) WILD-TYPE 65 68
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED     13   27
  AMP PEAK 15(12P11.21) WILD-TYPE   65   68
        clus
vv       AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  FEMALE                            13                              65
  MALE                              27                              68
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 15(12P11.21) MUTATED                                    30
  AMP PEAK 15(12P11.21) WILD-TYPE                                 115
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 15(12P11.21) MUTATED                                       9
  AMP PEAK 15(12P11.21) WILD-TYPE                                    13
                                 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
D15V8, multiclass
                                                  clus
vv                                                 AMP PEAK 15(12P11.21) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         30
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        9
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 AMP PEAK 15(12P11.21) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          115
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         13
  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"
D15V9, continuous
D15V10, continuous
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 15(12P11.21) MUTATED   19 17  0  3
  AMP PEAK 15(12P11.21) WILD-TYPE 89 34  2  1
D15V11, multiclass
    clus
vv   AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  R0                            19                              89
  R1                            17                              34
  R2                             0                               2
  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"
D15V12, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 15(12P11.21) MUTATED       0                         1    38
  AMP PEAK 15(12P11.21) WILD-TYPE     3                         6   120
D15V13, multiclass
                           clus
vv                          AMP PEAK 15(12P11.21) MUTATED
  ASIAN                                                 0
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                38
                           clus
vv                          AMP PEAK 15(12P11.21) WILD-TYPE
  ASIAN                                                   3
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 120
[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"
D15V14, binary
                                 cls
clus                                0   1
  AMP PEAK 15(12P11.21) MUTATED     0  29
  AMP PEAK 15(12P11.21) WILD-TYPE   3 106
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED      0   29
  AMP PEAK 15(12P11.21) WILD-TYPE    3  106
                        clus
vv                       AMP PEAK 15(12P11.21) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            29
                        clus
vv                       AMP PEAK 15(12P11.21) WILD-TYPE
  HISPANIC OR LATINO                                   3
  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 14
  AMP PEAK 16(12Q15) WILD-TYPE 65 78
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                          28                          143 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                          14                           78 
$`AMP PEAK 16(12Q15) MUTATED`
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IL 
        9.60        45.47        53.00         7.36        28.73        84.10 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-F2-A7TX 
       68.52        63.85        30.64        31.79        10.13         3.12 
TCGA-F2-A8YN TCGA-FB-AAPP TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FZ-5920 
       17.00        15.95        23.54        15.55         4.04         2.01 
TCGA-HZ-7289 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-A4BK TCGA-IB-7649 TCGA-IB-8127 
       21.73         0.13         3.95        21.60        15.35        17.16 
TCGA-IB-A5SS TCGA-IB-A6UG TCGA-IB-A7LX TCGA-Q3-AA2A 
       15.12         1.35         8.22         3.12 

$`AMP PEAK 16(12Q15) WILD-TYPE`
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        22.26        31.86        15.91        14.47 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       11.84        14.40        10.49         9.11        21.44         4.70 
TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IC 
       22.49         3.39        12.95        23.61        20.84        24.26 
TCGA-3A-A9IJ TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9J0 TCGA-3E-AAAY 
       60.95        50.70        15.06        34.09        12.39        75.12 
TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G 
       71.74        10.98         9.70        19.46         7.10         7.66 
TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR 
       19.27         5.88        24.07        14.76        12.43        11.61 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ2 TCGA-FB-AAQ3 
       37.15         7.50        12.53        34.82         5.03         1.02 
TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 
        8.02        24.36         5.10        36.20        20.35        15.78 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 
       17.79        12.89        13.84        22.06         0.92        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76         0.26        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         0.69         9.83        12.43        14.93        17.92 
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-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 
       10.85         1.08         0.23        12.95        49.38         4.77 
TCGA-IB-7647 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 
       21.90        19.82        23.80        15.65        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        21.30         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST 
       15.98         2.47        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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
        7.56         9.14        12.92        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-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 
       21.24        17.26        23.08        22.85        27.75        16.80 
TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI 
       14.14         0.39        18.67        13.81        12.99        12.03 
TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       13.32        11.51        12.76        66.28         0.69 

  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 
                       84.10                        75.12 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                       15.75                        13.81 
[1] "0.1 - 84.1 (15.8)" "0.2 - 75.1 (13.8)"
[1] "hr=" "1.4"
D16V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 16(12Q15) MUTATED         1        2        4         2        18
  AMP PEAK 16(12Q15) WILD-TYPE       0        4        9        24        99
                              vv
clus                           STAGE III STAGE IV
  AMP PEAK 16(12Q15) MUTATED           0        0
  AMP PEAK 16(12Q15) WILD-TYPE         5        4
D16V3, multiclass
           clus
vv          AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  STAGE I                            1                            0
  STAGE IA                           2                            4
  STAGE IB                           4                            9
  STAGE IIA                          2                           24
  STAGE IIB                         18                           99
  STAGE III                          0                            5
  STAGE IV                           0                            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 16(12Q15) MUTATED     3   4  20   0
  AMP PEAK 16(12Q15) WILD-TYPE   5  17 119   4
D16V4, multiclass
    clus
vv   AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  T1                          3                            5
  T2                          4                           17
  T3                         20                          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"
D16V5, binary
                              cls
clus                             0   1
  AMP PEAK 16(12Q15) MUTATED     6  19
  AMP PEAK 16(12Q15) WILD-TYPE  39 105
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED      6   19
  AMP PEAK 16(12Q15) WILD-TYPE   39  105
   clus
vv  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  0                          6                           39
  1                         19                          105
[1] 2 2
[1] FALSE
D16V6, binary
                              cls
clus                            0  1
  AMP PEAK 16(12Q15) MUTATED    7  0
  AMP PEAK 16(12Q15) WILD-TYPE 73  4
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED      7    0
  AMP PEAK 16(12Q15) WILD-TYPE   73    4
   clus
vv  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  0                          7                           73
  1                          0                            4
[1] 2 2
[1] FALSE
D16V7, binary
                              cls
clus                            0  1
  AMP PEAK 16(12Q15) MUTATED    9 19
  AMP PEAK 16(12Q15) WILD-TYPE 69 76
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED      9   19
  AMP PEAK 16(12Q15) WILD-TYPE   69   76
        clus
vv       AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  FEMALE                          9                           69
  MALE                           19                           76
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 16(12Q15) MUTATED                                    20
  AMP PEAK 16(12Q15) WILD-TYPE                                 125
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 16(12Q15) MUTATED                                       8
  AMP PEAK 16(12Q15) WILD-TYPE                                    14
                              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
D16V8, multiclass
                                                  clus
vv                                                 AMP PEAK 16(12Q15) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      20
  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                                       125
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      14
  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"
D16V9, continuous
D16V10, continuous
                              vv
clus                           R0 R1 R2 RX
  AMP PEAK 16(12Q15) MUTATED   14 11  0  3
  AMP PEAK 16(12Q15) WILD-TYPE 94 40  2  1
D16V11, multiclass
    clus
vv   AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  R0                         14                           94
  R1                         11                           40
  R2                          0                            2
  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"
D16V12, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 16(12Q15) MUTATED       0                         1    26
  AMP PEAK 16(12Q15) WILD-TYPE     3                         6   132
D16V13, multiclass
                           clus
vv                          AMP PEAK 16(12Q15) MUTATED
  ASIAN                                              0
  BLACK OR AFRICAN AMERICAN                          1
  WHITE                                             26
                           clus
vv                          AMP PEAK 16(12Q15) WILD-TYPE
  ASIAN                                                3
  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"
D16V14, binary
                              cls
clus                             0   1
  AMP PEAK 16(12Q15) MUTATED     1  23
  AMP PEAK 16(12Q15) WILD-TYPE   2 112
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED      1   23
  AMP PEAK 16(12Q15) WILD-TYPE    2  112
                        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                                2
  NOT HISPANIC OR LATINO                          112
[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    8 13
  AMP PEAK 17(15Q26.1) WILD-TYPE 71 79
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                            21                            150 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                            13                             79 
$`AMP PEAK 17(15Q26.1) MUTATED`
TCGA-2J-AABO TCGA-2J-AABP TCGA-2L-AAQL TCGA-3A-A9I9 TCGA-3A-A9IL TCGA-3A-A9IZ 
       14.47        11.84         9.60        20.84        84.10        10.13 
TCGA-3A-A9J0 TCGA-F2-A7TX TCGA-FB-AAPU TCGA-FZ-5921 TCGA-HZ-7922 TCGA-HZ-8005 
       12.39         3.12        12.53         5.10         0.13         3.95 
TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-AAUU TCGA-LB-A7SX 
       23.80        15.65         4.04        15.81         8.05        12.92 
TCGA-RB-A7B8 TCGA-S4-A8RP TCGA-US-A776 
       15.32        23.08        27.75 

$`AMP PEAK 17(15Q26.1) WILD-TYPE`
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-AABR 
       22.22        22.72        22.26        31.86        15.91        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       10.49         9.11        21.44         4.70        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IC 
       12.95        45.47        53.00        23.61         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       28.73        60.95        68.52        63.85        50.70        30.64 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       15.06        31.79        34.09        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN 
        9.70        19.46         7.10         7.66        19.27        17.00 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP 
        5.88        24.07        14.76        12.43        11.61        15.95 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 
       37.15         7.50        34.82        23.54        15.55         4.04 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 
        5.03         1.02         8.02        24.36         2.01        36.20 
TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
       20.35        15.78        17.79        12.89        13.84        22.06 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 
       21.73         0.92        19.50         7.76         0.26        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         0.69         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       12.43        14.93        17.92         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q 
       10.13         6.38        21.60         5.26        10.85         1.08 
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-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7890 TCGA-IB-7891 
       19.82        41.33         3.62        43.79        19.66        21.30 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
        3.85        15.98         2.47        17.16        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX 
        7.20        15.12        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-S4-A8RO TCGA-US-A774 
        3.12         9.40         0.30        21.24        17.26        22.85 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        13.32        11.51        12.76        66.28         0.69 

  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 
                         84.10                          75.12 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                         12.53                          14.58 
[1] "0.1 - 84.1 (12.5)" "0.2 - 75.1 (14.6)"
[1] "hr=" "1.4"
D17V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 17(15Q26.1) MUTATED         1        0        0         3        17
  AMP PEAK 17(15Q26.1) WILD-TYPE       0        6       13        23       100
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 17(15Q26.1) MUTATED           0        0
  AMP PEAK 17(15Q26.1) WILD-TYPE         5        4
D17V3, multiclass
           clus
vv          AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             0                              6
  STAGE IB                             0                             13
  STAGE IIA                            3                             23
  STAGE IIB                           17                            100
  STAGE III                            0                              5
  STAGE IV                             0                              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 17(15Q26.1) MUTATED     1   1  19   0
  AMP PEAK 17(15Q26.1) WILD-TYPE   7  20 120   4
D17V4, multiclass
    clus
vv   AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  T1                            1                              7
  T2                            1                             20
  T3                           19                            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"
D17V5, binary
                                cls
clus                               0   1
  AMP PEAK 17(15Q26.1) MUTATED     3  17
  AMP PEAK 17(15Q26.1) WILD-TYPE  42 107
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED      3   17
  AMP PEAK 17(15Q26.1) WILD-TYPE   42  107
   clus
vv  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  0                            3                             42
  1                           17                            107
[1] 2 2
[1] FALSE
D17V6, binary
                                cls
clus                              0  1
  AMP PEAK 17(15Q26.1) MUTATED    9  0
  AMP PEAK 17(15Q26.1) WILD-TYPE 71  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED      9    0
  AMP PEAK 17(15Q26.1) WILD-TYPE   71    4
   clus
vv  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  0                            9                             71
  1                            0                              4
[1] 2 2
[1] FALSE
D17V7, binary
                                cls
clus                              0  1
  AMP PEAK 17(15Q26.1) MUTATED   10 11
  AMP PEAK 17(15Q26.1) WILD-TYPE 68 84
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED     10   11
  AMP PEAK 17(15Q26.1) WILD-TYPE   68   84
        clus
vv       AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  FEMALE                           10                             68
  MALE                             11                             84
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 17(15Q26.1) MUTATED                                    17
  AMP PEAK 17(15Q26.1) WILD-TYPE                                 128
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 17(15Q26.1) MUTATED                                       2
  AMP PEAK 17(15Q26.1) WILD-TYPE                                    20
                                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
D17V8, multiclass
                                                  clus
vv                                                 AMP PEAK 17(15Q26.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        17
  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                                         128
  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"
D17V9, continuous
D17V10, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 17(15Q26.1) MUTATED   12  7  0  1
  AMP PEAK 17(15Q26.1) WILD-TYPE 96 44  2  3
D17V11, multiclass
    clus
vv   AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  R0                           12                             96
  R1                            7                             44
  R2                            0                              2
  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"
D17V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 17(15Q26.1) MUTATED       2                         1    17
  AMP PEAK 17(15Q26.1) WILD-TYPE     1                         6   141
D17V13, multiclass
                           clus
vv                          AMP PEAK 17(15Q26.1) MUTATED
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               17
                           clus
vv                          AMP PEAK 17(15Q26.1) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              6
  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"
D17V14, binary
                                cls
clus                               0   1
  AMP PEAK 17(15Q26.1) MUTATED     1  14
  AMP PEAK 17(15Q26.1) WILD-TYPE   2 121
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED      1   14
  AMP PEAK 17(15Q26.1) WILD-TYPE    2  121
                        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                                  2
  NOT HISPANIC OR LATINO                            121
[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    9  5
  AMP PEAK 18(17P11.2) WILD-TYPE 70 87
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                            14                            157 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                             5                             87 
$`AMP PEAK 18(17P11.2) MUTATED`
TCGA-2J-AABP TCGA-2L-AAQA TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9IL TCGA-3A-A9IN 
       11.84         4.70        45.47        53.00        84.10        68.52 
TCGA-3A-A9IO TCGA-3A-A9IV TCGA-FB-A545 TCGA-FB-AAPQ TCGA-FB-AAPZ TCGA-HZ-8315 
       63.85        31.79        24.07        37.15        23.54         9.83 
TCGA-IB-7654 TCGA-LB-A8F3 
       15.65        12.46 

$`AMP PEAK 18(17P11.2) WILD-TYPE`
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        22.26        31.86        15.91        14.47 
TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQE TCGA-2L-AAQI 
       14.40        10.49         9.11        21.44        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
       12.95         9.60        23.61        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IX 
       28.73        60.95        50.70        30.64        15.06        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       10.13        12.39        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
       19.46         7.10         7.66        19.27         3.12        17.00 
TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPS 
        5.88        14.76        12.43        11.61        15.95         7.50 
TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 
       12.53        34.82        15.55         4.04         5.03         1.02 
TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 
        8.02        24.36         2.01         5.10        36.20        20.35 
TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 
       15.78        17.79        12.89        13.84        22.06        21.73 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
        0.92        19.50         7.76         0.13         0.26        27.62 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 
       20.19        17.03        23.21        12.03         0.69         3.95 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       12.43        14.93        17.92         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q 
       10.13         6.38        21.60         5.26        10.85         1.08 
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        23.80        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        21.30         3.85        15.98         2.47 
TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST 
       17.16        12.00        15.85         7.20        15.12        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-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A9Q5 
        8.05        13.28         7.56         9.14        12.92        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-A8RO TCGA-S4-A8RP TCGA-US-A774 
        9.40         0.30        21.24        17.26        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG 
       27.75        16.80        14.14         0.39        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH 
       12.99        12.03        13.32        11.51        12.76        66.28 
TCGA-Z5-AAPL 
        0.69 

  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 
                         84.10                          75.12 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                         27.93                          13.81 
[1] "4.7 - 84.1 (27.9)" "0.1 - 75.1 (13.8)"
[1] "hr=" "3.2"
D18V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 18(17P11.2) MUTATED         1        1        2         2         7
  AMP PEAK 18(17P11.2) WILD-TYPE       0        5       11        24       110
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 18(17P11.2) MUTATED           0        0
  AMP PEAK 18(17P11.2) WILD-TYPE         5        4
D18V3, multiclass
           clus
vv          AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             1                              5
  STAGE IB                             2                             11
  STAGE IIA                            2                             24
  STAGE IIB                            7                            110
  STAGE III                            0                              5
  STAGE IV                             0                              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 18(17P11.2) MUTATED     2   4   7   0
  AMP PEAK 18(17P11.2) WILD-TYPE   6  17 132   4
D18V4, multiclass
    clus
vv   AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  T1                            2                              6
  T2                            4                             17
  T3                            7                            132
  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     4   7
  AMP PEAK 18(17P11.2) WILD-TYPE  41 117
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED      4    7
  AMP PEAK 18(17P11.2) WILD-TYPE   41  117
   clus
vv  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  0                            4                             41
  1                            7                            117
[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 77  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED      3    0
  AMP PEAK 18(17P11.2) WILD-TYPE   77    4
   clus
vv  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  0                            3                             77
  1                            0                              4
[1] 2 2
[1] FALSE
D18V7, binary
                                cls
clus                              0  1
  AMP PEAK 18(17P11.2) MUTATED    7  7
  AMP PEAK 18(17P11.2) WILD-TYPE 71 88
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED      7    7
  AMP PEAK 18(17P11.2) WILD-TYPE   71   88
        clus
vv       AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  FEMALE                            7                             71
  MALE                              7                             88
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 18(17P11.2) MUTATED                                     8
  AMP PEAK 18(17P11.2) WILD-TYPE                                 137
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 18(17P11.2) MUTATED                                       5
  AMP PEAK 18(17P11.2) WILD-TYPE                                    17
                                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
D18V8, multiclass
                                                  clus
vv                                                 AMP PEAK 18(17P11.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         8
  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                                         137
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        17
  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"
D18V9, 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                             52 
                    TCGA-2J-AAB1                     TCGA-2J-AABA 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-2J-AABE                     TCGA-2J-AABF 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-2J-AABI                     TCGA-2J-AABO 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-2J-AABV                     TCGA-2L-AAQE 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-3A-A9I9                     TCGA-3A-A9IB 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-3A-A9IJ                     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-H6-A45N 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-H8-A6C1                     TCGA-HZ-A77Q 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-HZ-A8P0                     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-A5SS 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-A6UF                     TCGA-IB-A6UG 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-A7M4                     TCGA-IB-AAUQ 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-AAUS                     TCGA-IB-AAUT 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-AAUU                     TCGA-IB-AAUV 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-LB-A7SX                     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-XD-AAUL                     TCGA-YY-A8LH 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
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 
                             1                             44 
                    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-A9IJ                     TCGA-3A-A9IR 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-3A-A9IX                     TCGA-FB-A4P5 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-FB-A5VM                     TCGA-FB-A78T 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-FB-A7DR                     TCGA-FB-AAPS 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-FB-AAPY                     TCGA-H6-8124 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-H8-A6C1                     TCGA-HZ-A77Q 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-HZ-A8P0                     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-7891 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-8126                     TCGA-IB-8127 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-IB-A5SS                     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-A7SX                     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-US-A774                     TCGA-XD-AAUI 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                    TCGA-XD-AAUL                     TCGA-YY-A8LH 
"AMP PEAK 18(17P11.2) WILD-TYPE" "AMP PEAK 18(17P11.2) WILD-TYPE" 
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 18(17P11.2) MUTATED    9  4  0  0
  AMP PEAK 18(17P11.2) WILD-TYPE 99 47  2  4
D18V11, multiclass
    clus
vv   AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  R0                            9                             99
  R1                            4                             47
  R2                            0                              2
  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"
D18V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 18(17P11.2) MUTATED       0                         1    13
  AMP PEAK 18(17P11.2) WILD-TYPE     3                         6   145
D18V13, multiclass
                           clus
vv                          AMP PEAK 18(17P11.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               13
                           clus
vv                          AMP PEAK 18(17P11.2) WILD-TYPE
  ASIAN                                                  3
  BLACK OR AFRICAN AMERICAN                              6
  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"
D18V14, binary
                                cls
clus                               0   1
  AMP PEAK 18(17P11.2) MUTATED     0  11
  AMP PEAK 18(17P11.2) WILD-TYPE   3 124
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED      0   11
  AMP PEAK 18(17P11.2) WILD-TYPE    3  124
                        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                                  3
  NOT HISPANIC OR LATINO                            124
[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   17 12
  AMP PEAK 19(17Q12) WILD-TYPE 62 80
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          29                          142 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          12                           80 
$`AMP PEAK 19(17Q12) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2L-AAQA TCGA-2L-AAQJ 
        2.17        31.86        15.91        14.47         4.70        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO 
        9.60        45.47        53.00        84.10        68.52        63.85 
TCGA-3A-A9IV TCGA-3A-A9J0 TCGA-FB-A545 TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ3 
       31.79        12.39        24.07        15.55         4.04         1.02 
TCGA-HZ-7922 TCGA-HZ-A4BH TCGA-IB-7646 TCGA-IB-7893 TCGA-IB-A7M4 TCGA-LB-A7SX 
        0.13         6.38         4.77         3.85        15.88        12.92 
TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-S4-A8RO TCGA-XD-AAUI TCGA-YH-A8SY 
       12.46        19.20        17.26        12.03        12.76 

$`AMP PEAK 19(17Q12) WILD-TYPE`
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-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU 
       22.72        22.26        11.84        14.40        10.49         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        23.61        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
       24.26        28.73        60.95        50.70        30.64        15.06 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       34.09        10.13        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
       19.46         7.10         7.66        19.27         3.12        17.00 
TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ 
        5.88        14.76        12.43        11.61        15.95        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ2 TCGA-FB-AAQ6 
        7.50        12.53        34.82        23.54         5.03         8.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 
       24.36         2.01         5.10        36.20        20.35        15.78 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 
       17.79        12.89        13.84        22.06        21.73         0.92 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
       19.50         7.76         0.26        27.62        20.19        17.03 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 
       23.21        12.03         0.69         3.95         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       14.93        17.92         4.96        21.70        16.14        10.13 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 
       21.60         5.26        10.85         1.08         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 
       49.38        21.90        15.35        19.82        23.80        15.65 
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-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
       21.30        15.98         2.47        17.16        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX 
        7.20        15.12        20.88        21.90         1.35         8.22 
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-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        21.24        23.08        22.85        27.75 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUL TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       13.32        11.51        66.28         0.69 

  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 
                       84.10                        75.12 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                      12.950                       14.285 
[1] "0.1 - 84.1 (12.9)" "0.2 - 75.1 (14.3)"
[1] "hr=" "1.5"
D19V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 19(17Q12) MUTATED         1        1        2         5        17
  AMP PEAK 19(17Q12) WILD-TYPE       0        5       11        21       100
                              vv
clus                           STAGE III STAGE IV
  AMP PEAK 19(17Q12) MUTATED           2        0
  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                           1                            5
  STAGE IB                           2                           11
  STAGE IIA                          5                           21
  STAGE IIB                         17                          100
  STAGE III                          2                            3
  STAGE IV                           0                            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     2   2  23   1
  AMP PEAK 19(17Q12) WILD-TYPE   6  19 116   3
D19V4, multiclass
    clus
vv   AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  T1                          2                            6
  T2                          2                           19
  T3                         23                          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"
D19V5, binary
                              cls
clus                             0   1
  AMP PEAK 19(17Q12) MUTATED     8  18
  AMP PEAK 19(17Q12) WILD-TYPE  37 106
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED      8   18
  AMP PEAK 19(17Q12) WILD-TYPE   37  106
   clus
vv  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  0                          8                           37
  1                         18                          106
[1] 2 2
[1] FALSE
D19V6, binary
                              cls
clus                            0  1
  AMP PEAK 19(17Q12) MUTATED    8  0
  AMP PEAK 19(17Q12) WILD-TYPE 72  4
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED      8    0
  AMP PEAK 19(17Q12) WILD-TYPE   72    4
   clus
vv  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  0                          8                           72
  1                          0                            4
[1] 2 2
[1] FALSE
D19V7, binary
                              cls
clus                            0  1
  AMP PEAK 19(17Q12) MUTATED   14 15
  AMP PEAK 19(17Q12) WILD-TYPE 64 80
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED     14   15
  AMP PEAK 19(17Q12) WILD-TYPE   64   80
        clus
vv       AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  FEMALE                         14                           64
  MALE                           15                           80
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 19(17Q12) MUTATED                                    21
  AMP PEAK 19(17Q12) WILD-TYPE                                 124
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 19(17Q12) MUTATED                                       7
  AMP PEAK 19(17Q12) WILD-TYPE                                    15
                              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
D19V8, multiclass
                                                  clus
vv                                                 AMP PEAK 19(17Q12) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      21
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     7
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                          0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                       0
                                                  clus
vv                                                 AMP PEAK 19(17Q12) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       124
  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"
D19V9, continuous
D19V10, continuous
                              vv
clus                           R0 R1 R2 RX
  AMP PEAK 19(17Q12) MUTATED   14 12  0  1
  AMP PEAK 19(17Q12) WILD-TYPE 94 39  2  3
D19V11, multiclass
    clus
vv   AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  R0                         14                           94
  R1                         12                           39
  R2                          0                            2
  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"
D19V12, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 19(17Q12) MUTATED       0                         2    26
  AMP PEAK 19(17Q12) WILD-TYPE     3                         5   132
D19V13, multiclass
                           clus
vv                          AMP PEAK 19(17Q12) MUTATED
  ASIAN                                              0
  BLACK OR AFRICAN AMERICAN                          2
  WHITE                                             26
                           clus
vv                          AMP PEAK 19(17Q12) WILD-TYPE
  ASIAN                                                3
  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"
D19V14, binary
                              cls
clus                             0   1
  AMP PEAK 19(17Q12) MUTATED     0  19
  AMP PEAK 19(17Q12) WILD-TYPE   3 116
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED      0   19
  AMP PEAK 19(17Q12) WILD-TYPE    3  116
                        clus
vv                       AMP PEAK 19(17Q12) MUTATED
  HISPANIC OR LATINO                              0
  NOT HISPANIC OR LATINO                         19
                        clus
vv                       AMP PEAK 19(17Q12) WILD-TYPE
  HISPANIC OR LATINO                                3
  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   23 26
  AMP PEAK 20(18Q11.2) WILD-TYPE 56 66
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            49                            122 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            26                             66 
$`AMP PEAK 20(18Q11.2) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABO 
       23.97         9.63         2.63        22.26        15.91        14.47 
TCGA-2J-AABP TCGA-2J-AABT TCGA-2L-AAQE TCGA-2L-AAQM TCGA-3A-A9IN TCGA-3A-A9IV 
       11.84        10.49        22.49        45.47        68.52        31.79 
TCGA-F2-6879 TCGA-F2-A44G TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ 
       10.98         7.66        24.07        12.43        15.95        37.15 
TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FZ-5921 TCGA-FZ-5923 TCGA-H6-8124 
       23.54        15.55         4.04         5.10        20.35        12.89 
TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7925 TCGA-HZ-8636 TCGA-HZ-A4BK TCGA-HZ-A77O 
       22.06        19.50        20.19        17.92        21.60         5.26 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7654 TCGA-IB-7886 TCGA-IB-7893 TCGA-IB-8126 
       12.95        15.35        15.65         4.04         3.85         2.47 
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        21.24         0.39        12.76 
TCGA-YY-A8LH 
       66.28 

$`AMP PEAK 20(18Q11.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABI 
        2.17        20.61        19.96        22.22        22.72        31.86 
TCGA-2J-AABR TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ 
       14.40         9.11        21.44         4.70         3.39        12.95 
TCGA-2L-AAQL TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
        9.60        53.00        23.61        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       28.73        60.95        84.10        63.85        50.70        30.64 
TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       15.06        34.09        10.13        12.39        75.12        71.74 
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-A7DR TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY 
        5.88        14.76        11.61         7.50        12.53        34.82 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 
        5.03         1.02         8.02        24.36         2.01        36.20 
TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7920 
       15.78        17.79        13.84        21.73         0.92         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.13         0.26        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 
        0.69         3.95         9.83        12.43        14.93         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77P TCGA-HZ-A77Q 
       21.70        16.14        10.13         6.38        10.85         1.08 
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        23.80 
TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 
       41.33         3.62        43.79        15.81        19.66        21.30 
TCGA-IB-7897 TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-AAUM 
       15.98         7.20        15.12        20.88        21.90         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-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 
        9.44        13.28         7.56         9.14        12.92        12.46 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
       10.29        19.20        13.68         3.12        15.32         9.40 
TCGA-RL-AAAS TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 
        0.30        17.26        23.08        22.85        27.75        16.80 
TCGA-US-A77E TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL 
       14.14        18.67        13.81        12.99        12.03        13.32 
TCGA-YB-A89D TCGA-Z5-AAPL 
       11.51         0.69 

  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                          84.10 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                        15.450                         13.825 
[1] "0.4 - 68.5 (15.4)" "0.1 - 84.1 (13.8)"
[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         7        36
  AMP PEAK 20(18Q11.2) WILD-TYPE       1        6       11        19        81
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 20(18Q11.2) MUTATED           2        3
  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                              6
  STAGE IB                             2                             11
  STAGE IIA                            7                             19
  STAGE IIB                           36                             81
  STAGE III                            2                              3
  STAGE IV                             3                              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  6 42  2
  AMP PEAK 20(18Q11.2) WILD-TYPE  8 15 97  2
D20V4, multiclass
    clus
vv   AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  T1                            0                              8
  T2                            6                             15
  T3                           42                             97
  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    9 40
  AMP PEAK 20(18Q11.2) WILD-TYPE 36 84
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED      9   40
  AMP PEAK 20(18Q11.2) WILD-TYPE   36   84
   clus
vv  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  0                            9                             36
  1                           40                             84
[1] 2 2
[1] FALSE
D20V6, binary
                                cls
clus                              0  1
  AMP PEAK 20(18Q11.2) MUTATED   27  3
  AMP PEAK 20(18Q11.2) WILD-TYPE 53  1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED     27    3
  AMP PEAK 20(18Q11.2) WILD-TYPE   53    1
   clus
vv  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  0                           27                             53
  1                            3                              1
[1] 2 2
[1] FALSE
D20V7, binary
                                cls
clus                              0  1
  AMP PEAK 20(18Q11.2) MUTATED   18 32
  AMP PEAK 20(18Q11.2) WILD-TYPE 60 63
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED     18   32
  AMP PEAK 20(18Q11.2) WILD-TYPE   60   63
        clus
vv       AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  FEMALE                           18                             60
  MALE                             32                             63
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 20(18Q11.2) MUTATED                                    40
  AMP PEAK 20(18Q11.2) WILD-TYPE                                 105
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 20(18Q11.2) MUTATED                                       8
  AMP PEAK 20(18Q11.2) WILD-TYPE                                    14
                                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
D20V8, multiclass
                                                  clus
vv                                                 AMP PEAK 20(18Q11.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        40
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 20(18Q11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         105
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        14
  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"
D20V9, continuous
D20V10, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 20(18Q11.2) MUTATED   30 16  0  0
  AMP PEAK 20(18Q11.2) WILD-TYPE 78 35  2  4
D20V11, multiclass
    clus
vv   AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  R0                           30                             78
  R1                           16                             35
  R2                            0                              2
  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"
D20V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 20(18Q11.2) MUTATED       0                         0    48
  AMP PEAK 20(18Q11.2) WILD-TYPE     3                         7   110
D20V13, multiclass
                           clus
vv                          AMP PEAK 20(18Q11.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               48
                           clus
vv                          AMP PEAK 20(18Q11.2) WILD-TYPE
  ASIAN                                                  3
  BLACK OR AFRICAN AMERICAN                              7
  WHITE                                                110
[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"
D20V14, binary
                                cls
clus                               0   1
  AMP PEAK 20(18Q11.2) MUTATED     0  35
  AMP PEAK 20(18Q11.2) WILD-TYPE   3 100
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED      0   35
  AMP PEAK 20(18Q11.2) WILD-TYPE    3  100
                        clus
vv                       AMP PEAK 20(18Q11.2) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           35
                        clus
vv                       AMP PEAK 20(18Q11.2) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            100
[1] 2 2
[1] FALSE

Clustering(21) Variable = AMP PEAK 21(19P13.2) MUTATION ANALYSIS
D21V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 21(19P13.2) MUTATED   11  5
  AMP PEAK 21(19P13.2) WILD-TYPE 68 87
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                            16                            155 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                             5                             87 
$`AMP PEAK 21(19P13.2) MUTATED`
TCGA-2J-AAB8 TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9IN TCGA-3A-A9IS TCGA-3A-A9IV 
        2.63         9.60        45.47        68.52        30.64        31.79 
TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-H6-8124 TCGA-IB-7886 
       24.07        15.95        34.82        23.54        12.89         4.04 
TCGA-IB-8127 TCGA-IB-AAUU TCGA-YB-A89D TCGA-YH-A8SY 
       17.16         8.05        11.51        12.76 

$`AMP PEAK 21(19P13.2) WILD-TYPE`
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-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP 
       22.72        22.26        31.86        15.91        14.47        11.84 
TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       14.40        10.49         9.11        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
        3.39        12.95        53.00        23.61        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IO TCGA-3A-A9IR 
       24.26        28.73        60.95        84.10        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        12.39        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H 
       10.98         9.70        19.46         7.10         7.66        19.27 
TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR 
        3.12        17.00         5.88        14.76        12.43        11.61 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 
       37.15         7.50        12.53        15.55         4.04         5.03 
TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        1.02         8.02        24.36         2.01         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 
       20.35        15.78        17.79        13.84        22.06        21.73 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
        0.92        19.50         7.76         0.13         0.26        27.62 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 
       20.19        17.03        23.21        12.03         0.69         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-A4BK TCGA-HZ-A77O TCGA-HZ-A77P 
       16.14        10.13         6.38        21.60         5.26        10.85 
TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 
        1.08         0.23        12.95        49.38         4.77        21.90 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7887 
       15.35        19.82        23.80        15.65        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        21.30         3.85        15.98 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST 
        2.47        12.00        15.85         7.20        15.12        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-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
       13.28         7.56         9.14        12.92        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-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 
        9.40         0.30        21.24        17.26        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG 
       27.75        16.80        14.14         0.39        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.99        12.03        13.32        66.28         0.69 

  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                          2.63                           0.13 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                         68.52                          84.10 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                        16.555                         14.140 
[1] "2.6 - 68.5 (16.6)" "0.1 - 84.1 (14.1)"
[1] "hr=" "2.4"
D21V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 21(19P13.2) MUTATED         0        0        3         0        12
  AMP PEAK 21(19P13.2) WILD-TYPE       1        6       10        26       105
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 21(19P13.2) MUTATED           1        0
  AMP PEAK 21(19P13.2) WILD-TYPE         4        4
D21V3, multiclass
           clus
vv          AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              6
  STAGE IB                             3                             10
  STAGE IIA                            0                             26
  STAGE IIB                           12                            105
  STAGE III                            1                              4
  STAGE IV                             0                              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(19P13.2) MUTATED     0   5  11   0
  AMP PEAK 21(19P13.2) WILD-TYPE   8  16 128   4
D21V4, multiclass
    clus
vv   AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  T1                            0                              8
  T2                            5                             16
  T3                           11                            128
  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"
D21V5, binary
                                cls
clus                               0   1
  AMP PEAK 21(19P13.2) MUTATED     2  13
  AMP PEAK 21(19P13.2) WILD-TYPE  43 111
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19P13.2) MUTATED      2   13
  AMP PEAK 21(19P13.2) WILD-TYPE   43  111
   clus
vv  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  0                            2                             43
  1                           13                            111
[1] 2 2
[1] FALSE
D21V6, binary
                                cls
clus                              0  1
  AMP PEAK 21(19P13.2) MUTATED    6  0
  AMP PEAK 21(19P13.2) WILD-TYPE 74  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19P13.2) MUTATED      6    0
  AMP PEAK 21(19P13.2) WILD-TYPE   74    4
   clus
vv  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  0                            6                             74
  1                            0                              4
[1] 2 2
[1] FALSE
D21V7, binary
                                cls
clus                              0  1
  AMP PEAK 21(19P13.2) MUTATED    5 11
  AMP PEAK 21(19P13.2) WILD-TYPE 73 84
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19P13.2) MUTATED      5   11
  AMP PEAK 21(19P13.2) WILD-TYPE   73   84
        clus
vv       AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  FEMALE                            5                             73
  MALE                             11                             84
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 21(19P13.2) MUTATED                                    11
  AMP PEAK 21(19P13.2) WILD-TYPE                                 134
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 21(19P13.2) MUTATED                                       4
  AMP PEAK 21(19P13.2) WILD-TYPE                                    18
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 21(19P13.2) MUTATED                                                  0
  AMP PEAK 21(19P13.2) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 21(19P13.2) MUTATED                                     0
  AMP PEAK 21(19P13.2) WILD-TYPE                                   1
D21V8, multiclass
                                                  clus
vv                                                 AMP PEAK 21(19P13.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        11
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK 21(19P13.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         134
  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"
D21V9, continuous
D21V10, continuous
                                vv
clus                              R0  R1  R2  RX
  AMP PEAK 21(19P13.2) MUTATED     8   5   0   1
  AMP PEAK 21(19P13.2) WILD-TYPE 100  46   2   3
D21V11, multiclass
    clus
vv   AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  R0                            8                            100
  R1                            5                             46
  R2                            0                              2
  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"
D21V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 21(19P13.2) MUTATED       0                         0    16
  AMP PEAK 21(19P13.2) WILD-TYPE     3                         7   142
D21V13, multiclass
                           clus
vv                          AMP PEAK 21(19P13.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               16
                           clus
vv                          AMP PEAK 21(19P13.2) WILD-TYPE
  ASIAN                                                  3
  BLACK OR AFRICAN AMERICAN                              7
  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"
D21V14, binary
                                cls
clus                               0   1
  AMP PEAK 21(19P13.2) MUTATED     0  13
  AMP PEAK 21(19P13.2) WILD-TYPE   3 122
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19P13.2) MUTATED      0   13
  AMP PEAK 21(19P13.2) WILD-TYPE    3  122
                        clus
vv                       AMP PEAK 21(19P13.2) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           13
                        clus
vv                       AMP PEAK 21(19P13.2) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            122
[1] 2 2
[1] FALSE

Clustering(22) Variable = AMP PEAK 22(19Q13.2) MUTATION ANALYSIS
D22V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 22(19Q13.2) MUTATED   21 20
  AMP PEAK 22(19Q13.2) WILD-TYPE 58 72
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                            41                            130 
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                            20                             72 
$`AMP PEAK 22(19Q13.2) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABO 
       23.97         9.63         2.63        22.72        22.26        14.47 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9IC TCGA-3A-A9IN TCGA-3A-A9IS TCGA-3A-A9IU 
        9.60        45.47        24.26        68.52        30.64        15.06 
TCGA-3A-A9IV TCGA-F2-A7TX TCGA-FB-A545 TCGA-FB-A7DR TCGA-FB-AAPY TCGA-FB-AAPZ 
       31.79         3.12        24.07        11.61        34.82        23.54 
TCGA-FZ-5920 TCGA-H6-8124 TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-8001 TCGA-HZ-A49I 
        2.01        12.89         0.92         0.13        23.21        10.13 
TCGA-HZ-A4BH TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP 
        6.38         4.04        21.30         3.85        17.16        15.85 
TCGA-IB-A5SS TCGA-IB-A6UG TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUU TCGA-L1-A7W4 
       15.12         1.35        14.17         6.02         8.05         9.14 
TCGA-LB-A7SX TCGA-PZ-A5RE TCGA-US-A776 TCGA-XD-AAUI TCGA-YB-A89D 
       12.92        15.45        27.75        12.03        11.51 

$`AMP PEAK 22(19Q13.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABI TCGA-2J-AABK 
        2.17        20.61        19.96        22.22        31.86        15.91 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       11.84        14.40        10.49         9.11        21.44         4.70 
TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 
       22.49         3.39        12.95        53.00        23.61        20.84 
TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IO TCGA-3A-A9IR 
        7.36        28.73        60.95        84.10        63.85        50.70 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       34.09        10.13        12.39        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN 
        9.70        19.46         7.10         7.66        19.27        17.00 
TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS 
        5.88        14.76        12.43        15.95        37.15         7.50 
TCGA-FB-AAPU TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 
       12.53        15.55         4.04         5.03         1.02         8.02 
TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 
       24.36         5.10        36.20        20.35        15.78        17.79 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 
       13.84        22.06        21.73        19.50         7.76         0.26 
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         0.69         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-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 
       16.14        21.60         5.26        10.85         1.08         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-7652 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       23.80        15.65        41.33         3.62        43.79        15.81 
TCGA-IB-7890 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST 
       19.66        15.98         2.47        12.00         7.20        20.88 
TCGA-IB-A6UF TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO 
       21.90         8.22        15.88         0.26         4.73         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-M8-A5N4 TCGA-OE-A75W TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
       10.29        19.20         8.78        13.68         3.12        15.32 
TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 
        9.40         0.30        21.24        17.26        23.08        22.85 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUL TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       13.32        12.76        66.28         0.69 

  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                          0.13                           0.23 
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                         68.52                          84.10 
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                         14.17                          14.27 
[1] "0.1 - 68.5 (14.2)" "0.2 - 84.1 (14.3)"
[1] "hr=" "1.1"
D22V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 22(19Q13.2) MUTATED         0        0        3         6        31
  AMP PEAK 22(19Q13.2) WILD-TYPE       1        6       10        20        86
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 22(19Q13.2) MUTATED           1        0
  AMP PEAK 22(19Q13.2) WILD-TYPE         4        4
D22V3, multiclass
           clus
vv          AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              6
  STAGE IB                             3                             10
  STAGE IIA                            6                             20
  STAGE IIB                           31                             86
  STAGE III                            1                              4
  STAGE IV                             0                              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 22(19Q13.2) MUTATED     0   6  34   1
  AMP PEAK 22(19Q13.2) WILD-TYPE   8  15 105   3
D22V4, multiclass
    clus
vv   AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  T1                            0                              8
  T2                            6                             15
  T3                           34                            105
  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(19Q13.2) MUTATED    8 31
  AMP PEAK 22(19Q13.2) WILD-TYPE 37 93
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(19Q13.2) MUTATED      8   31
  AMP PEAK 22(19Q13.2) WILD-TYPE   37   93
   clus
vv  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  0                            8                             37
  1                           31                             93
[1] 2 2
[1] FALSE
D22V6, binary
                                cls
clus                              0  1
  AMP PEAK 22(19Q13.2) MUTATED   23  0
  AMP PEAK 22(19Q13.2) WILD-TYPE 57  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(19Q13.2) MUTATED     23    0
  AMP PEAK 22(19Q13.2) WILD-TYPE   57    4
   clus
vv  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  0                           23                             57
  1                            0                              4
[1] 2 2
[1] FALSE
D22V7, binary
                                cls
clus                              0  1
  AMP PEAK 22(19Q13.2) MUTATED   12 29
  AMP PEAK 22(19Q13.2) WILD-TYPE 66 66
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(19Q13.2) MUTATED     12   29
  AMP PEAK 22(19Q13.2) WILD-TYPE   66   66
        clus
vv       AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  FEMALE                           12                             66
  MALE                             29                             66
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 22(19Q13.2) MUTATED                                    33
  AMP PEAK 22(19Q13.2) WILD-TYPE                                 112
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 22(19Q13.2) MUTATED                                       6
  AMP PEAK 22(19Q13.2) WILD-TYPE                                    16
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 22(19Q13.2) MUTATED                                                  2
  AMP PEAK 22(19Q13.2) WILD-TYPE                                                2
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 22(19Q13.2) MUTATED                                     0
  AMP PEAK 22(19Q13.2) WILD-TYPE                                   1
D22V8, multiclass
                                                  clus
vv                                                 AMP PEAK 22(19Q13.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        33
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK 22(19Q13.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         112
  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"
D22V9, continuous
D22V10, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 22(19Q13.2) MUTATED   22 15  1  1
  AMP PEAK 22(19Q13.2) WILD-TYPE 86 36  1  3
D22V11, multiclass
    clus
vv   AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  R0                           22                             86
  R1                           15                             36
  R2                            1                              1
  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"
D22V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 22(19Q13.2) MUTATED       1                         2    38
  AMP PEAK 22(19Q13.2) WILD-TYPE     2                         5   120
D22V13, multiclass
                           clus
vv                          AMP PEAK 22(19Q13.2) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               38
                           clus
vv                          AMP PEAK 22(19Q13.2) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                120
[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"
D22V14, binary
                                cls
clus                               0   1
  AMP PEAK 22(19Q13.2) MUTATED     0  30
  AMP PEAK 22(19Q13.2) WILD-TYPE   3 105
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(19Q13.2) MUTATED      0   30
  AMP PEAK 22(19Q13.2) WILD-TYPE    3  105
                        clus
vv                       AMP PEAK 22(19Q13.2) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           30
                        clus
vv                       AMP PEAK 22(19Q13.2) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            105
[1] 2 2
[1] FALSE

Clustering(23) Variable = AMP PEAK 23(20P11.23) MUTATION ANALYSIS
D23V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 23(20P11.23) MUTATED   20 18
  AMP PEAK 23(20P11.23) WILD-TYPE 59 74
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                             38                             133 
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                             18                              74 
$`AMP PEAK 23(20P11.23) MUTATED`
TCGA-2J-AAB6 TCGA-2J-AABF TCGA-2J-AABP TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM 
        9.63        22.72        11.84        12.95         9.60        45.47 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9J0 TCGA-FB-A545 
       68.52        63.85        30.64        31.79        12.39        24.07 
TCGA-FB-A5VM TCGA-FB-AAPP TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ6 
       14.76        15.95        23.54        15.55         4.04         8.02 
TCGA-FZ-5921 TCGA-HZ-7289 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-A49G TCGA-HZ-A77O 
        5.10        21.73         0.13         3.95        21.70         5.26 
TCGA-HZ-A77Q TCGA-IB-7646 TCGA-IB-7886 TCGA-IB-7890 TCGA-IB-8127 TCGA-IB-A5SP 
        1.08         4.77         4.04        19.66        17.16        15.85 
TCGA-IB-A7LX TCGA-IB-AAUU TCGA-LB-A8F3 TCGA-S4-A8RO TCGA-US-A776 TCGA-US-A77E 
        8.22         8.05        12.46        17.26        27.75        14.14 
TCGA-YB-A89D TCGA-YY-A8LH 
       11.51        66.28 

$`AMP PEAK 23(20P11.23) WILD-TYPE`
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-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT 
       22.26        31.86        15.91        14.47        14.40        10.49 
TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-3A-A9I5 
        9.11        21.44         4.70        22.49         3.39        53.00 
TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ 
       23.61        20.84         7.36        24.26        28.73        60.95 
TCGA-3A-A9IL TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY 
       84.10        50.70        15.06        34.09        10.13        75.12 
TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G 
       71.74        10.98         9.70        19.46         7.10         7.66 
TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A78T TCGA-FB-A7DR 
       19.27         3.12        17.00         5.88        12.43        11.61 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ2 TCGA-FB-AAQ3 
       37.15         7.50        12.53        34.82         5.03         1.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 
       24.36         2.01        36.20        20.35        15.78        17.79 
TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 
       12.89        13.84        22.06         0.92        19.50         7.76 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.26        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 
        0.69         9.83        12.43        14.93        17.92         4.96 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A8P1 
       16.14        10.13         6.38        21.60        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        23.80 
TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 
       15.65        41.33         3.62        43.79        15.81        21.30 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5SS 
        3.85        15.98         2.47        12.00         7.20        15.12 
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-A7SX TCGA-LB-A9Q5 TCGA-M8-A5N4 
       13.28         7.56         9.14        12.92        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        21.24        23.08        22.85        16.80         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YH-A8SY 
       18.67        13.81        12.99        12.03        13.32        12.76 
TCGA-Z5-AAPL 
        0.69 

  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                           0.13                            0.23 
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                          68.52                           84.10 
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                          14.45                           14.17 
[1] "0.1 - 68.5 (14.4)" "0.2 - 84.1 (14.2)"
[1] "hr=" "1.3"
D23V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 23(20P11.23) MUTATED         0        1        5         5        25
  AMP PEAK 23(20P11.23) WILD-TYPE       1        5        8        21        92
                                 vv
clus                              STAGE III STAGE IV
  AMP PEAK 23(20P11.23) MUTATED           1        0
  AMP PEAK 23(20P11.23) WILD-TYPE         4        4
D23V3, multiclass
           clus
vv          AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  STAGE I                               0                               1
  STAGE IA                              1                               5
  STAGE IB                              5                               8
  STAGE IIA                             5                              21
  STAGE IIB                            25                              92
  STAGE III                             1                               4
  STAGE IV                              0                               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(20P11.23) MUTATED     1   8  27   1
  AMP PEAK 23(20P11.23) WILD-TYPE   7  13 112   3
D23V4, multiclass
    clus
vv   AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  T1                             1                               7
  T2                             8                              13
  T3                            27                             112
  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(20P11.23) MUTATED   11 25
  AMP PEAK 23(20P11.23) WILD-TYPE 34 99
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 23(20P11.23) MUTATED     11   25
  AMP PEAK 23(20P11.23) WILD-TYPE   34   99
   clus
vv  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  0                            11                              34
  1                            25                              99
[1] 2 2
[1] FALSE
D23V6, binary
                                 cls
clus                               0  1
  AMP PEAK 23(20P11.23) MUTATED   12  0
  AMP PEAK 23(20P11.23) WILD-TYPE 68  4
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 23(20P11.23) MUTATED     12    0
  AMP PEAK 23(20P11.23) WILD-TYPE   68    4
   clus
vv  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  0                            12                              68
  1                             0                               4
[1] 2 2
[1] FALSE
D23V7, binary
                                 cls
clus                               0  1
  AMP PEAK 23(20P11.23) MUTATED   13 25
  AMP PEAK 23(20P11.23) WILD-TYPE 65 70
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 23(20P11.23) MUTATED     13   25
  AMP PEAK 23(20P11.23) WILD-TYPE   65   70
        clus
vv       AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  FEMALE                            13                              65
  MALE                              25                              70
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 23(20P11.23) MUTATED                                    28
  AMP PEAK 23(20P11.23) WILD-TYPE                                 117
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 23(20P11.23) MUTATED                                       8
  AMP PEAK 23(20P11.23) WILD-TYPE                                    14
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 23(20P11.23) MUTATED                                                  1
  AMP PEAK 23(20P11.23) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 23(20P11.23) MUTATED                                     1
  AMP PEAK 23(20P11.23) WILD-TYPE                                   0
D23V8, multiclass
                                                  clus
vv                                                 AMP PEAK 23(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 23(20P11.23) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          117
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         14
  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"
D23V9, continuous
D23V10, continuous
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 23(20P11.23) MUTATED   21 13  0  2
  AMP PEAK 23(20P11.23) WILD-TYPE 87 38  2  2
D23V11, multiclass
    clus
vv   AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  R0                            21                              87
  R1                            13                              38
  R2                             0                               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"
D23V12, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 23(20P11.23) MUTATED       0                         1    35
  AMP PEAK 23(20P11.23) WILD-TYPE     3                         6   123
D23V13, multiclass
                           clus
vv                          AMP PEAK 23(20P11.23) MUTATED
  ASIAN                                                 0
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                35
                           clus
vv                          AMP PEAK 23(20P11.23) WILD-TYPE
  ASIAN                                                   3
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 123
[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"
D23V14, binary
                                 cls
clus                                0   1
  AMP PEAK 23(20P11.23) MUTATED     0  29
  AMP PEAK 23(20P11.23) WILD-TYPE   3 106
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 23(20P11.23) MUTATED      0   29
  AMP PEAK 23(20P11.23) WILD-TYPE    3  106
                        clus
vv                       AMP PEAK 23(20P11.23) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            29
                        clus
vv                       AMP PEAK 23(20P11.23) WILD-TYPE
  HISPANIC OR LATINO                                   3
  NOT HISPANIC OR LATINO                             106
[1] 2 2
[1] FALSE

Clustering(24) Variable = AMP PEAK 24(XP22.11) MUTATION ANALYSIS
D24V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 24(XP22.11) MUTATED    8  3
  AMP PEAK 24(XP22.11) WILD-TYPE 71 89
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                            11                            160 
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                             3                             89 
$`AMP PEAK 24(XP22.11) MUTATED`
TCGA-2J-AAB8 TCGA-2L-AAQM TCGA-3A-A9IH TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IV 
        2.63        45.47        28.73        68.52        63.85        31.79 
TCGA-F2-6880 TCGA-F2-7276 TCGA-HZ-7925 TCGA-LB-A7SX TCGA-US-A776 
        9.70         7.10        20.19        12.92        27.75 

$`AMP PEAK 24(XP22.11) WILD-TYPE`
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-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP 
       22.72        22.26        31.86        15.91        14.47        11.84 
TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       14.40        10.49         9.11        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 
        3.39        12.95         9.60        53.00        23.61        20.84 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IR TCGA-3A-A9IS 
        7.36        24.26        60.95        84.10        50.70        30.64 
TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       15.06        34.09        10.13        12.39        75.12        71.74 
TCGA-F2-6879 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
       10.98        19.46         7.66        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        14.76        12.43        11.61        15.95 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 
       37.15         7.50        12.53        34.82        23.54        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 
        4.04         5.03         1.02         8.02        24.36         2.01 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 
        5.10        36.20        20.35        15.78        17.79        12.89 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 
       13.84        22.06        21.73         0.92        19.50         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.13         0.26        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-8636 
        0.69         3.95         9.83        12.43        14.93        17.92 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK 
        4.96        21.70        16.14        10.13         6.38        21.60 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 
        5.26        10.85         1.08         0.23        12.95        49.38 
TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 
        4.77        21.90        15.35        19.82        23.80        15.65 
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 
       21.30         3.85        15.98         2.47        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
       15.85         7.20        15.12        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-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-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS 
       15.45        13.68         3.12        15.32         9.40         0.30 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E 
       21.24        17.26        23.08        22.85        16.80        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL 
        0.39        18.67        13.81        12.99        12.03        13.32 
TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       11.51        12.76        66.28         0.69 

  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                          2.63                           0.13 
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                         68.52                          84.10 
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                         27.75                          13.99 
[1] "2.6 - 68.5 (27.8)" "0.1 - 84.1 (14.0)"
[1] "hr=" "3.4"
D24V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 24(XP22.11) MUTATED         0        1        2         1         6
  AMP PEAK 24(XP22.11) WILD-TYPE       1        5       11        25       111
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 24(XP22.11) MUTATED           0        0
  AMP PEAK 24(XP22.11) WILD-TYPE         5        4
D24V3, multiclass
           clus
vv          AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              5
  STAGE IB                             2                             11
  STAGE IIA                            1                             25
  STAGE IIB                            6                            111
  STAGE III                            0                              5
  STAGE IV                             0                              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 24(XP22.11) MUTATED     1   2   7   0
  AMP PEAK 24(XP22.11) WILD-TYPE   7  19 132   4
D24V4, multiclass
    clus
vv   AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  T1                            1                              7
  T2                            2                             19
  T3                            7                            132
  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"
D24V5, binary
                                cls
clus                               0   1
  AMP PEAK 24(XP22.11) MUTATED     3   6
  AMP PEAK 24(XP22.11) WILD-TYPE  42 118
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 24(XP22.11) MUTATED      3    6
  AMP PEAK 24(XP22.11) WILD-TYPE   42  118
   clus
vv  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  0                            3                             42
  1                            6                            118
[1] 2 2
[1] FALSE
D24V6, binary
                                cls
clus                              0  1
  AMP PEAK 24(XP22.11) MUTATED    3  0
  AMP PEAK 24(XP22.11) WILD-TYPE 77  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 24(XP22.11) MUTATED      3    0
  AMP PEAK 24(XP22.11) WILD-TYPE   77    4
   clus
vv  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  0                            3                             77
  1                            0                              4
[1] 2 2
[1] FALSE
D24V7, binary
                                cls
clus                              0  1
  AMP PEAK 24(XP22.11) MUTATED    4  7
  AMP PEAK 24(XP22.11) WILD-TYPE 74 88
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 24(XP22.11) MUTATED      4    7
  AMP PEAK 24(XP22.11) WILD-TYPE   74   88
        clus
vv       AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  FEMALE                            4                             74
  MALE                              7                             88
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 24(XP22.11) MUTATED                                     6
  AMP PEAK 24(XP22.11) WILD-TYPE                                 139
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 24(XP22.11) MUTATED                                       4
  AMP PEAK 24(XP22.11) WILD-TYPE                                    18
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 24(XP22.11) MUTATED                                                  1
  AMP PEAK 24(XP22.11) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 24(XP22.11) MUTATED                                     0
  AMP PEAK 24(XP22.11) WILD-TYPE                                   1
D24V8, multiclass
                                                  clus
vv                                                 AMP PEAK 24(XP22.11) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         6
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK 24(XP22.11) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         139
  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"
D24V9, continuous
[1] "Remove cluster labels:"       "AMP PEAK 24(XP22.11) MUTATED"
clus
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                             2                             52 
                    TCGA-2J-AAB1                     TCGA-2J-AABA 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-2J-AABE                     TCGA-2J-AABF 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-2J-AABI                     TCGA-2J-AABO 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-2J-AABV                     TCGA-2L-AAQA 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-2L-AAQE                     TCGA-3A-A9I9 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-3A-A9IB                     TCGA-3A-A9IJ 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-3A-A9IX                     TCGA-F2-A8YN 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-FB-A4P5                     TCGA-FB-A5VM 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-FB-A78T                     TCGA-FB-A7DR 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-FB-AAPQ                     TCGA-FB-AAPS 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-FB-AAPY                     TCGA-H6-8124 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-H6-A45N                     TCGA-H8-A6C1 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-HZ-A77Q                     TCGA-HZ-A8P0 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-HZ-A8P1                     TCGA-IB-7644 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-7649                     TCGA-IB-7651 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-7885                     TCGA-IB-7886 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-7887                     TCGA-IB-7891 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-8126                     TCGA-IB-8127 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-A5SS                     TCGA-IB-A6UF 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-A6UG                     TCGA-IB-A7M4 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-AAUQ                     TCGA-IB-AAUS 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-AAUT                     TCGA-IB-AAUU 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-AAUV                     TCGA-LB-A9Q5 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-OE-A75W                     TCGA-S4-A8RM 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-S4-A8RP                     TCGA-US-A774 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-XD-AAUL                     TCGA-YY-A8LH 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
D24V10, continuous
[1] "Remove cluster labels:"       "AMP PEAK 24(XP22.11) MUTATED"
clus
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                             1                             44 
                    TCGA-2J-AAB1                     TCGA-2J-AABE 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-2J-AABF                     TCGA-2J-AABI 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-2J-AABO                     TCGA-3A-A9IB 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-3A-A9IJ                     TCGA-3A-A9IR 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-3A-A9IX                     TCGA-FB-A4P5 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-FB-A5VM                     TCGA-FB-A78T 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-FB-A7DR                     TCGA-FB-AAPQ 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-FB-AAPS                     TCGA-FB-AAPY 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-H6-8124                     TCGA-H8-A6C1 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-HZ-A77Q                     TCGA-HZ-A8P0 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-HZ-A8P1                     TCGA-IB-7644 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-7649                     TCGA-IB-7651 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-7885                     TCGA-IB-7886 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-7891                     TCGA-IB-8126 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-8127                     TCGA-IB-A5SS 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-A6UF                     TCGA-IB-A6UG 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-A7M4                     TCGA-IB-AAUQ 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-AAUS                     TCGA-IB-AAUT 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-AAUV                     TCGA-LB-A9Q5 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-OE-A75W                     TCGA-S4-A8RM 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-US-A774                     TCGA-XD-AAUI 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-XD-AAUL                     TCGA-YY-A8LH 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                                vv
clus                              R0  R1  R2  RX
  AMP PEAK 24(XP22.11) MUTATED     7   4   0   0
  AMP PEAK 24(XP22.11) WILD-TYPE 101  47   2   4
D24V11, multiclass
    clus
vv   AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  R0                            7                            101
  R1                            4                             47
  R2                            0                              2
  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"
D24V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 24(XP22.11) MUTATED       0                         1    10
  AMP PEAK 24(XP22.11) WILD-TYPE     3                         6   148
D24V13, multiclass
                           clus
vv                          AMP PEAK 24(XP22.11) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               10
                           clus
vv                          AMP PEAK 24(XP22.11) WILD-TYPE
  ASIAN                                                  3
  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"
D24V14, binary
                                cls
clus                               0   1
  AMP PEAK 24(XP22.11) MUTATED     0   8
  AMP PEAK 24(XP22.11) WILD-TYPE   3 127
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 24(XP22.11) MUTATED      0    8
  AMP PEAK 24(XP22.11) WILD-TYPE    3  127
                        clus
vv                       AMP PEAK 24(XP22.11) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                            8
                        clus
vv                       AMP PEAK 24(XP22.11) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            127
[1] 2 2
[1] FALSE

Clustering(25) Variable = AMP PEAK 25(XQ27.1) MUTATION ANALYSIS
D25V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 25(XQ27.1) MUTATED   12  7
  AMP PEAK 25(XQ27.1) WILD-TYPE 67 85
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                           19                           152 
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                            7                            85 
$`AMP PEAK 25(XQ27.1) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2L-AAQM TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IV 
       23.97         9.63        45.47        68.52        63.85        31.79 
TCGA-F2-6879 TCGA-FB-A78T TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-HZ-7289 
       10.98        12.43        12.53        23.54        15.55        21.73 
TCGA-HZ-7918 TCGA-HZ-8001 TCGA-IB-7652 TCGA-IB-A6UG TCGA-IB-A7LX TCGA-Q3-AA2A 
        0.92        23.21        23.80         1.35         8.22         3.12 
TCGA-S4-A8RO 
       17.26 

$`AMP PEAK 25(XQ27.1) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
        2.17         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-AABR 
       22.26        31.86        15.91        14.47        11.84        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       10.49         9.11        21.44         4.70        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
       12.95         9.60        53.00        23.61        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IR TCGA-3A-A9IS 
       24.26        28.73        60.95        84.10        50.70        30.64 
TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       15.06        34.09        10.13        12.39        75.12        71.74 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX 
        9.70        19.46         7.10         7.66        19.27         3.12 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPP 
       17.00         5.88        24.07        14.76        11.61        15.95 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 
       37.15         7.50        34.82         4.04         5.03         1.02 
TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 
        8.02        24.36         2.01         5.10        36.20        20.35 
TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 
       15.78        17.79        12.89        13.84        22.06        19.50 
TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
        7.76         0.13         0.26        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         0.69         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-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 
       21.60         5.26        10.85         1.08         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7654 
       49.38         4.77        21.90        15.35        19.82        15.65 
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 
       21.30         3.85        15.98         2.47        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 
       15.85         7.20        15.12        20.88        21.90        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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
       12.92        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        21.24        23.08 
TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J 
       22.85        27.75        16.80        14.14         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY 
       13.81        12.99        12.03        13.32        11.51        12.76 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28         0.69 

  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                         0.92                          0.13 
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                        68.52                         84.10 
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                        17.26                         13.99 
[1] "0.9 - 68.5 (17.3)" "0.1 - 84.1 (14.0)"
[1] "hr=" "2"  
D25V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 25(XQ27.1) MUTATED         0        0        3         3        12
  AMP PEAK 25(XQ27.1) WILD-TYPE       1        6       10        23       105
                               vv
clus                            STAGE III STAGE IV
  AMP PEAK 25(XQ27.1) MUTATED           1        0
  AMP PEAK 25(XQ27.1) WILD-TYPE         4        4
D25V3, multiclass
           clus
vv          AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             6
  STAGE IB                            3                            10
  STAGE IIA                           3                            23
  STAGE IIB                          12                           105
  STAGE III                           1                             4
  STAGE IV                            0                             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 25(XQ27.1) MUTATED     0   4  14   1
  AMP PEAK 25(XQ27.1) WILD-TYPE   8  17 125   3
D25V4, multiclass
    clus
vv   AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  T1                           0                             8
  T2                           4                            17
  T3                          14                           125
  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"
D25V5, binary
                               cls
clus                              0   1
  AMP PEAK 25(XQ27.1) MUTATED     5  13
  AMP PEAK 25(XQ27.1) WILD-TYPE  40 111
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 25(XQ27.1) MUTATED      5   13
  AMP PEAK 25(XQ27.1) WILD-TYPE   40  111
   clus
vv  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  0                           5                            40
  1                          13                           111
[1] 2 2
[1] FALSE
D25V6, binary
                               cls
clus                             0  1
  AMP PEAK 25(XQ27.1) MUTATED    7  0
  AMP PEAK 25(XQ27.1) WILD-TYPE 73  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 25(XQ27.1) MUTATED      7    0
  AMP PEAK 25(XQ27.1) WILD-TYPE   73    4
   clus
vv  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  0                           7                            73
  1                           0                             4
[1] 2 2
[1] FALSE
D25V7, binary
                               cls
clus                             0  1
  AMP PEAK 25(XQ27.1) MUTATED    8 12
  AMP PEAK 25(XQ27.1) WILD-TYPE 70 83
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 25(XQ27.1) MUTATED      8   12
  AMP PEAK 25(XQ27.1) WILD-TYPE   70   83
        clus
vv       AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  FEMALE                           8                            70
  MALE                            12                            83
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 25(XQ27.1) MUTATED                                    13
  AMP PEAK 25(XQ27.1) WILD-TYPE                                 132
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 25(XQ27.1) MUTATED                                       7
  AMP PEAK 25(XQ27.1) WILD-TYPE                                    15
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  AMP PEAK 25(XQ27.1) MUTATED                                                  0
  AMP PEAK 25(XQ27.1) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  AMP PEAK 25(XQ27.1) MUTATED                                     0
  AMP PEAK 25(XQ27.1) WILD-TYPE                                   1
D25V8, multiclass
                                                  clus
vv                                                 AMP PEAK 25(XQ27.1) 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 25(XQ27.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        132
  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"
D25V9, continuous
[1] "Remove cluster labels:"      "AMP PEAK 25(XQ27.1) MUTATED"
clus
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                            2                            52 
                   TCGA-2J-AAB1                    TCGA-2J-AABA 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-2J-AABE                    TCGA-2J-AABF 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-2J-AABI                    TCGA-2J-AABO 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-2J-AABV                    TCGA-2L-AAQA 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-2L-AAQE                    TCGA-3A-A9I9 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-3A-A9IB                    TCGA-3A-A9IJ 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-3A-A9IX                    TCGA-F2-6880 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-F2-A8YN                    TCGA-FB-A4P5 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-FB-A5VM                    TCGA-FB-A7DR 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-FB-AAPQ                    TCGA-FB-AAPS 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-FB-AAPY                    TCGA-H6-8124 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-H6-A45N                    TCGA-H8-A6C1 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-HZ-A77Q                    TCGA-HZ-A8P0 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-HZ-A8P1                    TCGA-IB-7644 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-7649                    TCGA-IB-7651 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-7885                    TCGA-IB-7886 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-7887                    TCGA-IB-7891 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-8126                    TCGA-IB-8127 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-A5SS                    TCGA-IB-A6UF 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-A7M4                    TCGA-IB-AAUQ 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-AAUS                    TCGA-IB-AAUT 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-AAUU                    TCGA-IB-AAUV 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-LB-A7SX                    TCGA-LB-A9Q5 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-OE-A75W                    TCGA-S4-A8RM 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-S4-A8RP                    TCGA-US-A774 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-XD-AAUL                    TCGA-YY-A8LH 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
D25V10, continuous
[1] "Remove cluster labels:"      "AMP PEAK 25(XQ27.1) MUTATED"
clus
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                            2                            43 
                   TCGA-2J-AAB1                    TCGA-2J-AABE 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-2J-AABF                    TCGA-2J-AABI 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-2J-AABO                    TCGA-3A-A9IB 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-3A-A9IJ                    TCGA-3A-A9IR 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-3A-A9IX                    TCGA-FB-A4P5 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-FB-A5VM                    TCGA-FB-A7DR 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-FB-AAPQ                    TCGA-FB-AAPS 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-FB-AAPY                    TCGA-H6-8124 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-H8-A6C1                    TCGA-HZ-A77Q 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-HZ-A8P0                    TCGA-HZ-A8P1 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-7644                    TCGA-IB-7649 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-7651                    TCGA-IB-7885 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-7886                    TCGA-IB-7891 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-8126                    TCGA-IB-8127 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-A5SS                    TCGA-IB-A6UF 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-A7M4                    TCGA-IB-AAUQ 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-AAUS                    TCGA-IB-AAUT 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-AAUV                    TCGA-LB-A7SX 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-LB-A9Q5                    TCGA-OE-A75W 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-S4-A8RM                    TCGA-US-A774 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-XD-AAUI                    TCGA-XD-AAUL 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-YY-A8LH 
"AMP PEAK 25(XQ27.1) WILD-TYPE" 
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK 25(XQ27.1) MUTATED   12  6  0  2
  AMP PEAK 25(XQ27.1) WILD-TYPE 96 45  2  2
D25V11, multiclass
    clus
vv   AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  R0                          12                            96
  R1                           6                            45
  R2                           0                             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"
D25V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 25(XQ27.1) MUTATED       2                         0    18
  AMP PEAK 25(XQ27.1) WILD-TYPE     1                         7   140
D25V13, multiclass
                           clus
vv                          AMP PEAK 25(XQ27.1) MUTATED
  ASIAN                                               2
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              18
                           clus
vv                          AMP PEAK 25(XQ27.1) WILD-TYPE
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             7
  WHITE                                               140
[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"
D25V14, binary
                               cls
clus                              0   1
  AMP PEAK 25(XQ27.1) MUTATED     1  15
  AMP PEAK 25(XQ27.1) WILD-TYPE   2 120
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 25(XQ27.1) MUTATED      1   15
  AMP PEAK 25(XQ27.1) WILD-TYPE    2  120
                        clus
vv                       AMP PEAK 25(XQ27.1) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          15
                        clus
vv                       AMP PEAK 25(XQ27.1) WILD-TYPE
  HISPANIC OR LATINO                                 2
  NOT HISPANIC OR LATINO                           120
[1] 2 2
[1] FALSE

Clustering(26) Variable = DEL PEAK  1(1P36.32) MUTATION ANALYSIS
D26V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  1(1P36.32) MUTATED   21 29
  DEL PEAK  1(1P36.32) WILD-TYPE 58 63
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                            50                            121 
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                            29                             63 
$`DEL PEAK  1(1P36.32) MUTATED`
TCGA-2J-AABA TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-2L-AAQA TCGA-2L-AAQE 
       19.96        22.26        31.86        14.47         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I5 TCGA-3A-A9IL TCGA-3A-A9IS TCGA-3A-A9IX 
        3.39        12.95        53.00        84.10        30.64        34.09 
TCGA-3E-AAAZ TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPU 
       71.74        12.43        11.61        15.95        37.15        12.53 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5920 TCGA-FZ-5922 
       15.55         4.04         1.02         8.02         2.01        36.20 
TCGA-FZ-5923 TCGA-FZ-5924 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-8005 TCGA-HZ-A77O 
       20.35        15.78        21.73         0.92         3.95         5.26 
TCGA-HZ-A8P1 TCGA-IB-7646 TCGA-IB-7651 TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-8127 
        0.23         4.77        19.82         4.04        15.81        17.16 
TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-LB-A8F3 
       15.85         1.35         8.22        15.88         4.73        12.46 
TCGA-M8-A5N4 TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP 
       19.20         3.12         9.40        21.24        17.26        23.08 
TCGA-US-A776 TCGA-YY-A8LH 
       27.75        66.28 

$`DEL PEAK  1(1P36.32) WILD-TYPE`
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-AABK TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU 
       22.72        15.91        11.84        14.40        10.49         9.11 
TCGA-2J-AABV TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
       21.44         9.60        45.47        23.61        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
       24.26        28.73        60.95        68.52        63.85        50.70 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-F2-6879 
       15.06        31.79        10.13        12.39        75.12        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX 
        9.70        19.46         7.10         7.66        19.27         3.12 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-AAPS TCGA-FB-AAPY 
       17.00         5.88        24.07        14.76         7.50        34.82 
TCGA-FB-AAPZ TCGA-FB-AAQ2 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5926 TCGA-H6-8124 
       23.54         5.03        24.36         5.10        17.79        12.89 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       13.84        22.06        19.50         7.76         0.13         0.26 
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         0.69 
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-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q 
       16.14        10.13         6.38        21.60        10.85         1.08 
TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7654 
       12.95        49.38        21.90        15.35        23.80        15.65 
TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 
       41.33         3.62        43.79        19.66        21.30         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST 
       15.98         2.47        12.00         7.20        15.12        20.88 
TCGA-IB-A6UF TCGA-IB-AAUM TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
       21.90         0.26         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-A7SX TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 
       12.92        10.29         8.78        15.45        13.68        15.32 
TCGA-RL-AAAS TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J 
        0.30        22.85        16.80        14.14         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY 
       13.81        12.99        12.03        13.32        11.51        12.76 
TCGA-Z5-AAPL 
        0.69 

  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                          0.23                           0.13 
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                         84.10                          75.12 
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                        15.795                         13.810 
[1] "0.2 - 84.1 (15.8)" "0.1 - 75.1 (13.8)"
[1] "hr=" "1"  
D26V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  1(1P36.32) MUTATED         1        3        4        11        29
  DEL PEAK  1(1P36.32) WILD-TYPE       0        3        9        15        88
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK  1(1P36.32) MUTATED           1        1
  DEL PEAK  1(1P36.32) WILD-TYPE         4        3
D26V3, multiclass
           clus
vv          DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             3                              3
  STAGE IB                             4                              9
  STAGE IIA                           11                             15
  STAGE IIB                           29                             88
  STAGE III                            1                              4
  STAGE IV                             1                              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  1(1P36.32) MUTATED     5   4  39   2
  DEL PEAK  1(1P36.32) WILD-TYPE   3  17 100   2
D26V4, multiclass
    clus
vv   DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  T1                            5                              3
  T2                            4                             17
  T3                           39                            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"
D26V5, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.32) MUTATED   17 31
  DEL PEAK  1(1P36.32) WILD-TYPE 28 93
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.32) MUTATED     17   31
  DEL PEAK  1(1P36.32) WILD-TYPE   28   93
   clus
vv  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  0                           17                             28
  1                           31                             93
[1] 2 2
[1] FALSE
D26V6, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.32) MUTATED   20  1
  DEL PEAK  1(1P36.32) WILD-TYPE 60  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.32) MUTATED     20    1
  DEL PEAK  1(1P36.32) WILD-TYPE   60    3
   clus
vv  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  0                           20                             60
  1                            1                              3
[1] 2 2
[1] FALSE
D26V7, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.32) MUTATED   16 34
  DEL PEAK  1(1P36.32) WILD-TYPE 62 61
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.32) MUTATED     16   34
  DEL PEAK  1(1P36.32) WILD-TYPE   62   61
        clus
vv       DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  FEMALE                           16                             62
  MALE                             34                             61
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  1(1P36.32) MUTATED                                    43
  DEL PEAK  1(1P36.32) WILD-TYPE                                 102
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  1(1P36.32) MUTATED                                       5
  DEL PEAK  1(1P36.32) WILD-TYPE                                    17
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  1(1P36.32) MUTATED                                                  2
  DEL PEAK  1(1P36.32) WILD-TYPE                                                2
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  1(1P36.32) MUTATED                                     0
  DEL PEAK  1(1P36.32) WILD-TYPE                                   1
D26V8, multiclass
                                                  clus
vv                                                 DEL PEAK  1(1P36.32) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        43
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK  1(1P36.32) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         102
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        17
  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"
D26V9, continuous
D26V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  1(1P36.32) MUTATED   32 15  0  2
  DEL PEAK  1(1P36.32) WILD-TYPE 76 36  2  2
D26V11, multiclass
    clus
vv   DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  R0                           32                             76
  R1                           15                             36
  R2                            0                              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"
D26V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  1(1P36.32) MUTATED       2                         2    45
  DEL PEAK  1(1P36.32) WILD-TYPE     1                         5   113
D26V13, multiclass
                           clus
vv                          DEL PEAK  1(1P36.32) MUTATED
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               45
                           clus
vv                          DEL PEAK  1(1P36.32) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                113
[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"
D26V14, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.32) MUTATED    1 38
  DEL PEAK  1(1P36.32) WILD-TYPE  2 97
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.32) MUTATED      1   38
  DEL PEAK  1(1P36.32) WILD-TYPE    2   97
                        clus
vv                       DEL PEAK  1(1P36.32) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           38
                        clus
vv                       DEL PEAK  1(1P36.32) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                             97
[1] 2 2
[1] FALSE

Clustering(27) Variable = DEL PEAK  2(1P36.11) MUTATION ANALYSIS
D27V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  2(1P36.11) MUTATED   24 41
  DEL PEAK  2(1P36.11) WILD-TYPE 55 51
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                            65                            106 
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                            41                             51 
$`DEL PEAK  2(1P36.11) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AABA TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO 
        2.17        19.96        22.72        22.26        31.86        14.47 
TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 
        4.70        22.49         3.39        12.95         9.60        53.00 
TCGA-3A-A9I9 TCGA-3A-A9IH TCGA-3A-A9IL TCGA-3A-A9IS TCGA-3A-A9IX TCGA-3E-AAAZ 
       20.84        28.73        84.10        30.64        34.09        71.74 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPU TCGA-FB-AAQ0 
       12.43        11.61        15.95        37.15        12.53        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5920 TCGA-FZ-5922 
        4.04         5.03         1.02         8.02         2.01        36.20 
TCGA-FZ-5923 TCGA-FZ-5924 TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7925 
       20.35        15.78        22.06        21.73         0.92        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        23.80 
TCGA-IB-7654 TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP 
       15.65         4.04        15.81         3.85        17.16        15.85 
TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUN 
       15.12        21.90         1.35         8.22        15.88         4.73 
TCGA-IB-AAUO TCGA-LB-A8F3 TCGA-OE-A75W TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
        7.86        12.46         8.78         3.12        15.32         9.40 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A776 TCGA-YY-A8LH 
       21.24        17.26        23.08        27.75        66.28 

$`DEL PEAK  2(1P36.11) WILD-TYPE`
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABE TCGA-2J-AABK 
       23.97         9.63         2.63        20.61        22.22        15.91 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQM 
       11.84        14.40        10.49         9.11        21.44        45.47 
TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO 
       23.61         7.36        24.26        60.95        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY 
       50.70        15.06        31.79        10.13        12.39        75.12 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H 
       10.98         9.70        19.46         7.10         7.66        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        14.76         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-H6-A45N TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
       13.84        19.50         7.76         0.13         0.26        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         0.69         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I 
       14.93        17.92         4.96        21.70        16.14        10.13 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-IB-7644 TCGA-IB-7645 
        6.38        21.60        10.85         1.08        12.95        49.38 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7890 
       21.90        15.35        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 
       21.30        15.98         2.47        12.00         7.20        20.88 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        0.26        14.17         6.02        11.11         7.40         9.44 
TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A9Q5 
        8.05        13.28         7.56         9.14        12.92        10.29 
TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RL-AAAS TCGA-US-A774 TCGA-US-A779 
       19.20        15.45        13.68         0.30        22.85        16.80 
TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI 
       14.14         0.39        18.67        13.81        12.99        12.03 
TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-Z5-AAPL 
       13.32        11.51        12.76         0.69 

  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                          0.23                           0.13 
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                         84.10                          75.12 
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                         15.65                          13.50 
[1] "0.2 - 84.1 (15.7)" "0.1 - 75.1 (13.5)"
[1] "hr=" "1.2"
D27V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  2(1P36.11) MUTATED         1        4        4        14        40
  DEL PEAK  2(1P36.11) WILD-TYPE       0        2        9        12        77
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK  2(1P36.11) MUTATED           1        1
  DEL PEAK  2(1P36.11) WILD-TYPE         4        3
D27V3, multiclass
           clus
vv          DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             4                              2
  STAGE IB                             4                              9
  STAGE IIA                           14                             12
  STAGE IIB                           40                             77
  STAGE III                            1                              4
  STAGE IV                             1                              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  2(1P36.11) MUTATED    6  5 52  2
  DEL PEAK  2(1P36.11) WILD-TYPE  2 16 87  2
D27V4, multiclass
    clus
vv   DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  T1                            6                              2
  T2                            5                             16
  T3                           52                             87
  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"
D27V5, binary
                                cls
clus                              0  1
  DEL PEAK  2(1P36.11) MUTATED   21 42
  DEL PEAK  2(1P36.11) WILD-TYPE 24 82
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  2(1P36.11) MUTATED     21   42
  DEL PEAK  2(1P36.11) WILD-TYPE   24   82
   clus
vv  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  0                           21                             24
  1                           42                             82
[1] 2 2
[1] FALSE
D27V6, binary
                                cls
clus                              0  1
  DEL PEAK  2(1P36.11) MUTATED   28  1
  DEL PEAK  2(1P36.11) WILD-TYPE 52  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  2(1P36.11) MUTATED     28    1
  DEL PEAK  2(1P36.11) WILD-TYPE   52    3
   clus
vv  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  0                           28                             52
  1                            1                              3
[1] 2 2
[1] FALSE
D27V7, binary
                                cls
clus                              0  1
  DEL PEAK  2(1P36.11) MUTATED   21 44
  DEL PEAK  2(1P36.11) WILD-TYPE 57 51
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  2(1P36.11) MUTATED     21   44
  DEL PEAK  2(1P36.11) WILD-TYPE   57   51
        clus
vv       DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  FEMALE                           21                             57
  MALE                             44                             51
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  2(1P36.11) MUTATED                                    55
  DEL PEAK  2(1P36.11) WILD-TYPE                                  90
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  2(1P36.11) MUTATED                                       8
  DEL PEAK  2(1P36.11) WILD-TYPE                                    14
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  2(1P36.11) MUTATED                                                  2
  DEL PEAK  2(1P36.11) WILD-TYPE                                                2
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  2(1P36.11) MUTATED                                     0
  DEL PEAK  2(1P36.11) WILD-TYPE                                   1
D27V8, multiclass
                                                  clus
vv                                                 DEL PEAK  2(1P36.11) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        55
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK  2(1P36.11) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          90
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        14
  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"
D27V9, continuous
D27V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  2(1P36.11) MUTATED   42 19  0  3
  DEL PEAK  2(1P36.11) WILD-TYPE 66 32  2  1
D27V11, multiclass
    clus
vv   DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  R0                           42                             66
  R1                           19                             32
  R2                            0                              2
  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"
D27V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  2(1P36.11) MUTATED       3                         2    60
  DEL PEAK  2(1P36.11) WILD-TYPE     0                         5    98
D27V13, multiclass
                           clus
vv                          DEL PEAK  2(1P36.11) MUTATED
  ASIAN                                                3
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               60
                           clus
vv                          DEL PEAK  2(1P36.11) WILD-TYPE
  ASIAN                                                  0
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                 98
[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"
D27V14, binary
                                cls
clus                              0  1
  DEL PEAK  2(1P36.11) MUTATED    1 51
  DEL PEAK  2(1P36.11) WILD-TYPE  2 84
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  2(1P36.11) MUTATED      1   51
  DEL PEAK  2(1P36.11) WILD-TYPE    2   84
                        clus
vv                       DEL PEAK  2(1P36.11) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           51
                        clus
vv                       DEL PEAK  2(1P36.11) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                             84
[1] 2 2
[1] FALSE

Clustering(28) Variable = DEL PEAK  3(2Q14.3) MUTATION ANALYSIS
D28V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  3(2Q14.3) MUTATED    5  4
  DEL PEAK  3(2Q14.3) WILD-TYPE 74 88
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                            9                           162 
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                            4                            88 
$`DEL PEAK  3(2Q14.3) MUTATED`
TCGA-3A-A9IL TCGA-3A-A9IS TCGA-FB-AAPU TCGA-FB-AAQ1 TCGA-H6-8124 TCGA-HZ-7289 
       84.10        30.64        12.53         4.04        12.89        21.73 
TCGA-HZ-7918 TCGA-HZ-A49I TCGA-US-A776 
        0.92        10.13        27.75 

$`DEL PEAK  3(2Q14.3) WILD-TYPE`
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        22.26        31.86        15.91        14.47 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       11.84        14.40        10.49         9.11        21.44         4.70 
TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 
       22.49         3.39        12.95         9.60        45.47        53.00 
TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ 
       23.61        20.84         7.36        24.26        28.73        60.95 
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        31.79        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       10.13        12.39        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
       19.46         7.10         7.66        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        14.76        12.43        11.61        15.95 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ2 
       37.15         7.50        34.82        23.54        15.55         5.03 
TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        1.02         8.02        24.36         2.01         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 
       20.35        15.78        17.79        13.84        22.06        19.50 
TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
        7.76         0.13         0.26        27.62        20.19        17.03 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 
       23.21        12.03         0.69         3.95         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
       14.93        17.92         4.96        21.70        16.14         6.38 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 
       21.60         5.26        10.85         1.08         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
       49.38         4.77        21.90        15.35        19.82        23.80 
TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       15.65        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        21.30         3.85        15.98         2.47        17.16 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF 
       12.00        15.85         7.20        15.12        20.88        21.90 
TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO 
        1.35         8.22        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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
       13.28         7.56         9.14        12.92        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-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 
        9.40         0.30        21.24        17.26        23.08        22.85 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        13.32        11.51        12.76        66.28         0.69 

  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                         0.92                          0.13 
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                        84.10                         75.12 
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                       12.890                        14.285 
[1] "0.9 - 84.1 (12.9)" "0.1 - 75.1 (14.3)"
[1] "hr=" "1.5"
D28V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  3(2Q14.3) MUTATED         1        0        1         2         5
  DEL PEAK  3(2Q14.3) WILD-TYPE       0        6       12        24       112
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  3(2Q14.3) MUTATED           0        0
  DEL PEAK  3(2Q14.3) WILD-TYPE         5        4
D28V3, multiclass
           clus
vv          DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            0                             6
  STAGE IB                            1                            12
  STAGE IIA                           2                            24
  STAGE IIB                           5                           112
  STAGE III                           0                             5
  STAGE IV                            0                             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  3(2Q14.3) MUTATED     1   1   7   0
  DEL PEAK  3(2Q14.3) WILD-TYPE   7  20 132   4
D28V4, multiclass
    clus
vv   DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  T1                           1                             7
  T2                           1                            20
  T3                           7                           132
  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  3(2Q14.3) MUTATED     3   5
  DEL PEAK  3(2Q14.3) WILD-TYPE  42 119
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q14.3) MUTATED      3    5
  DEL PEAK  3(2Q14.3) WILD-TYPE   42  119
   clus
vv  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  0                           3                            42
  1                           5                           119
[1] 2 2
[1] FALSE
D28V6, binary
                               cls
clus                             0  1
  DEL PEAK  3(2Q14.3) MUTATED    2  0
  DEL PEAK  3(2Q14.3) WILD-TYPE 78  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q14.3) MUTATED      2    0
  DEL PEAK  3(2Q14.3) WILD-TYPE   78    4
   clus
vv  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  0                           2                            78
  1                           0                             4
[1] 2 2
[1] FALSE
D28V7, binary
                               cls
clus                             0  1
  DEL PEAK  3(2Q14.3) MUTATED    3  6
  DEL PEAK  3(2Q14.3) WILD-TYPE 75 89
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q14.3) MUTATED      3    6
  DEL PEAK  3(2Q14.3) WILD-TYPE   75   89
        clus
vv       DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  FEMALE                           3                            75
  MALE                             6                            89
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  3(2Q14.3) MUTATED                                     5
  DEL PEAK  3(2Q14.3) WILD-TYPE                                 140
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  3(2Q14.3) MUTATED                                       3
  DEL PEAK  3(2Q14.3) WILD-TYPE                                    19
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  3(2Q14.3) MUTATED                                                  1
  DEL PEAK  3(2Q14.3) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  3(2Q14.3) MUTATED                                     0
  DEL PEAK  3(2Q14.3) WILD-TYPE                                   1
D28V8, multiclass
                                                  clus
vv                                                 DEL PEAK  3(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  3(2Q14.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        140
  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"
D28V9, continuous
[1] "Remove cluster labels:"      "DEL PEAK  3(2Q14.3) MUTATED"
clus
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                            1                            53 
                   TCGA-2J-AAB1                    TCGA-2J-AABA 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AABE                    TCGA-2J-AABF 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AABI                    TCGA-2J-AABO 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AABV                    TCGA-2L-AAQA 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-2L-AAQE                    TCGA-3A-A9I9 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-3A-A9IB                    TCGA-3A-A9IJ 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-3A-A9IX                    TCGA-F2-6880 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-F2-A8YN                    TCGA-FB-A4P5 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-FB-A5VM                    TCGA-FB-A78T 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-FB-A7DR                    TCGA-FB-AAPQ 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-FB-AAPS                    TCGA-FB-AAPY 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-H6-A45N                    TCGA-H8-A6C1 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-HZ-A77Q                    TCGA-HZ-A8P0 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-HZ-A8P1                    TCGA-IB-7644 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7649                    TCGA-IB-7651 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7885                    TCGA-IB-7886 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7887                    TCGA-IB-7891 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-8126                    TCGA-IB-8127 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-A5SS                    TCGA-IB-A6UF 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-A6UG                    TCGA-IB-A7M4 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUQ                    TCGA-IB-AAUS 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUT                    TCGA-IB-AAUU 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUV                    TCGA-LB-A7SX 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-LB-A9Q5                    TCGA-OE-A75W 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-S4-A8RM                    TCGA-S4-A8RP 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-US-A774                    TCGA-XD-AAUL 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-YY-A8LH 
"DEL PEAK  3(2Q14.3) WILD-TYPE" 
D28V10, continuous
[1] "Remove cluster labels:"      "DEL PEAK  3(2Q14.3) MUTATED"
clus
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                            1                            44 
                   TCGA-2J-AAB1                    TCGA-2J-AABE 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AABF                    TCGA-2J-AABI 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-2J-AABO                    TCGA-3A-A9IB 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-3A-A9IJ                    TCGA-3A-A9IR 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-3A-A9IX                    TCGA-FB-A4P5 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-FB-A5VM                    TCGA-FB-A78T 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-FB-A7DR                    TCGA-FB-AAPQ 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-FB-AAPS                    TCGA-FB-AAPY 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-H8-A6C1                    TCGA-HZ-A77Q 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-HZ-A8P0                    TCGA-HZ-A8P1 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7644                    TCGA-IB-7649 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7651                    TCGA-IB-7885 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7886                    TCGA-IB-7891 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-8126                    TCGA-IB-8127 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-A5SS                    TCGA-IB-A6UF 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-A6UG                    TCGA-IB-A7M4 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUQ                    TCGA-IB-AAUS 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUT                    TCGA-IB-AAUV 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-LB-A7SX                    TCGA-LB-A9Q5 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-OE-A75W                    TCGA-S4-A8RM 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-US-A774                    TCGA-XD-AAUI 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-XD-AAUL                    TCGA-YY-A8LH 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                               vv
clus                             R0  R1  R2  RX
  DEL PEAK  3(2Q14.3) MUTATED     5   3   0   1
  DEL PEAK  3(2Q14.3) WILD-TYPE 103  48   2   3
D28V11, multiclass
    clus
vv   DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  R0                           5                           103
  R1                           3                            48
  R2                           0                             2
  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"
D28V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  3(2Q14.3) MUTATED       1                         0     8
  DEL PEAK  3(2Q14.3) WILD-TYPE     2                         7   150
D28V13, multiclass
                           clus
vv                          DEL PEAK  3(2Q14.3) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                               8
                           clus
vv                          DEL PEAK  3(2Q14.3) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             7
  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"
D28V14, binary
                               cls
clus                              0   1
  DEL PEAK  3(2Q14.3) MUTATED     0   9
  DEL PEAK  3(2Q14.3) WILD-TYPE   3 126
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q14.3) MUTATED      0    9
  DEL PEAK  3(2Q14.3) WILD-TYPE    3  126
                        clus
vv                       DEL PEAK  3(2Q14.3) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                           9
                        clus
vv                       DEL PEAK  3(2Q14.3) WILD-TYPE
  HISPANIC OR LATINO                                 3
  NOT HISPANIC OR LATINO                           126
[1] 2 2
[1] FALSE

Clustering(29) Variable = DEL PEAK  4(3P21.31) MUTATION ANALYSIS
D29V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  4(3P21.31) MUTATED   22 27
  DEL PEAK  4(3P21.31) WILD-TYPE 57 65
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                            49                            122 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                            27                             65 
$`DEL PEAK  4(3P21.31) MUTATED`
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-A9I5 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IO 
        9.60        45.47        53.00         7.36        24.26        63.85 
TCGA-F2-A44H TCGA-FB-A5VM TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPU TCGA-FB-AAPY 
       19.27        14.76        15.95        37.15        12.53        34.82 
TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FB-AAQ6 TCGA-FZ-5922 TCGA-FZ-5924 TCGA-H8-A6C1 
       23.54         4.04         8.02        36.20        15.78        22.06 
TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8005 TCGA-HZ-A4BK TCGA-HZ-A77O 
        0.92         0.13        20.19         3.95        21.60         5.26 
TCGA-HZ-A8P1 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7654 TCGA-IB-7886 TCGA-IB-7887 
        0.23         4.77        21.90        15.65         4.04         3.62 
TCGA-IB-7890 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A7LX TCGA-IB-AAUO TCGA-IB-AAUU 
       19.66        17.16        15.85         8.22         7.86         8.05 
TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-YH-A8SY 
       12.92        12.46        19.20        15.32         9.40        12.76 
TCGA-YY-A8LH 
       66.28 

$`DEL PEAK  4(3P21.31) WILD-TYPE`
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-AABR TCGA-2J-AABT 
       22.72        22.26        15.91        11.84        14.40        10.49 
TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IH 
       21.44         4.70        22.49        23.61        20.84        28.73 
TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
       60.95        84.10        68.52        50.70        30.64        15.06 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       31.79        34.09        10.13        12.39        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A7TX 
       10.98         9.70        19.46         7.10         7.66         3.12 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPS 
       17.00         5.88        24.07        12.43        11.61         7.50 
TCGA-FB-AAQ0 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 
       15.55         5.03         1.02        24.36         2.01         5.10 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7919 
       20.35        17.79        12.89        13.84        21.73        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        7.76         0.26        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 
        0.69         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-A77Q 
       21.70        16.14        10.13         6.38        10.85         1.08 
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        23.80        41.33 
TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 
       43.79        15.81        21.30         3.85        15.98         2.47 
TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
       12.00         7.20        15.12        20.88        21.90         1.35 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
       15.88         0.26         4.73        14.17         6.02        11.11 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 
        7.40         9.44        13.28         7.56         9.14        10.29 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RL-AAAS TCGA-S4-A8RM 
        8.78        15.45        13.68         3.12         0.30        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E 
       17.26        23.08        22.85        27.75        16.80        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL 
        0.39        18.67        13.81        12.99        12.03        13.32 
TCGA-YB-A89D TCGA-Z5-AAPL 
       11.51         0.69 

  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                          0.13                           0.26 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                         66.28                          84.10 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                        14.470                         14.155 
[1] "0.1 - 66.3 (14.5)" "0.3 - 84.1 (14.2)"
[1] "hr=" "1.1"
D29V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  4(3P21.31) MUTATED         0        2        3         8        34
  DEL PEAK  4(3P21.31) WILD-TYPE       1        4       10        18        83
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK  4(3P21.31) MUTATED           2        0
  DEL PEAK  4(3P21.31) WILD-TYPE         3        4
D29V3, multiclass
           clus
vv          DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             2                              4
  STAGE IB                             3                             10
  STAGE IIA                            8                             18
  STAGE IIB                           34                             83
  STAGE III                            2                              3
  STAGE IV                             0                              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  4(3P21.31) MUTATED     3   7  38   1
  DEL PEAK  4(3P21.31) WILD-TYPE   5  14 101   3
D29V4, multiclass
    clus
vv   DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  T1                            3                              5
  T2                            7                             14
  T3                           38                            101
  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  4(3P21.31) MUTATED   14 35
  DEL PEAK  4(3P21.31) WILD-TYPE 31 89
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  4(3P21.31) MUTATED     14   35
  DEL PEAK  4(3P21.31) WILD-TYPE   31   89
   clus
vv  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  0                           14                             31
  1                           35                             89
[1] 2 2
[1] FALSE
D29V6, binary
                                cls
clus                              0  1
  DEL PEAK  4(3P21.31) MUTATED   20  0
  DEL PEAK  4(3P21.31) WILD-TYPE 60  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  4(3P21.31) MUTATED     20    0
  DEL PEAK  4(3P21.31) WILD-TYPE   60    4
   clus
vv  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  0                           20                             60
  1                            0                              4
[1] 2 2
[1] FALSE
D29V7, binary
                                cls
clus                              0  1
  DEL PEAK  4(3P21.31) MUTATED   16 34
  DEL PEAK  4(3P21.31) WILD-TYPE 62 61
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  4(3P21.31) MUTATED     16   34
  DEL PEAK  4(3P21.31) WILD-TYPE   62   61
        clus
vv       DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  FEMALE                           16                             62
  MALE                             34                             61
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  4(3P21.31) MUTATED                                    43
  DEL PEAK  4(3P21.31) WILD-TYPE                                 102
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  4(3P21.31) MUTATED                                       6
  DEL PEAK  4(3P21.31) WILD-TYPE                                    16
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  4(3P21.31) MUTATED                                                  0
  DEL PEAK  4(3P21.31) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  4(3P21.31) MUTATED                                     0
  DEL PEAK  4(3P21.31) WILD-TYPE                                   1
D29V8, multiclass
                                                  clus
vv                                                 DEL PEAK  4(3P21.31) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        43
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK  4(3P21.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         102
  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"
D29V9, continuous
D29V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  4(3P21.31) MUTATED   31 17  0  1
  DEL PEAK  4(3P21.31) WILD-TYPE 77 34  2  3
D29V11, multiclass
    clus
vv   DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  R0                           31                             77
  R1                           17                             34
  R2                            0                              2
  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"
D29V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  4(3P21.31) MUTATED       1                         2    45
  DEL PEAK  4(3P21.31) WILD-TYPE     2                         5   113
D29V13, multiclass
                           clus
vv                          DEL PEAK  4(3P21.31) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               45
                           clus
vv                          DEL PEAK  4(3P21.31) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                113
[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"
D29V14, binary
                                cls
clus                              0  1
  DEL PEAK  4(3P21.31) MUTATED    1 38
  DEL PEAK  4(3P21.31) WILD-TYPE  2 97
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  4(3P21.31) MUTATED      1   38
  DEL PEAK  4(3P21.31) WILD-TYPE    2   97
                        clus
vv                       DEL PEAK  4(3P21.31) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           38
                        clus
vv                       DEL PEAK  4(3P21.31) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                             97
[1] 2 2
[1] FALSE

Clustering(30) Variable = DEL PEAK  5(4P15.31) MUTATION ANALYSIS
D30V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  5(4P15.31) MUTATED    9 18
  DEL PEAK  5(4P15.31) WILD-TYPE 70 74
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                            27                            144 
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                            18                             74 
$`DEL PEAK  5(4P15.31) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABO TCGA-2L-AAQE TCGA-3A-A9I5 TCGA-3A-A9IB TCGA-3A-A9IC 
        2.63        14.47        22.49        53.00         7.36        24.26 
TCGA-3A-A9J0 TCGA-3E-AAAZ TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAQ0 TCGA-FB-AAQ1 
       12.39        71.74        14.76        11.61        15.55         4.04 
TCGA-FB-AAQ2 TCGA-FZ-5920 TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7925 TCGA-HZ-8636 
        5.03         2.01        22.06         0.92        20.19        17.92 
TCGA-HZ-A49I TCGA-IB-7646 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7889 TCGA-IB-A5SP 
       10.13         4.77         4.04         3.62        15.81        15.85 
TCGA-IB-A7M4 TCGA-IB-AAUO TCGA-IB-AAUQ 
       15.88         7.86         6.02 

$`DEL PEAK  5(4P15.31) WILD-TYPE`
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-AABI TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR 
       22.72        22.26        31.86        15.91        11.84        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ 
       10.49         9.11        21.44         4.70         3.39        12.95 
TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IH TCGA-3A-A9IJ 
        9.60        45.47        23.61        20.84        28.73        60.95 
TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
       84.10        68.52        63.85        50.70        30.64        15.06 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-F2-6879 TCGA-F2-6880 
       31.79        34.09        10.13        75.12        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
       19.46         7.10         7.66        19.27         3.12        17.00 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS 
        5.88        24.07        12.43        15.95        37.15         7.50 
TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 
       12.53        34.82        23.54         1.02         8.02        24.36 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 
        5.10        36.20        20.35        15.78        17.79        12.89 
TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       13.84        21.73        19.50         7.76         0.13         0.26 
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         0.69         3.95 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
        9.83        12.43        14.93         4.96        21.70        16.14 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 
        6.38        21.60         5.26        10.85         1.08         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        23.80 
TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7888 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 
       15.65        41.33        43.79        19.66        21.30         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5SS 
       15.98         2.47        17.16        12.00         7.20        15.12 
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-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
       14.17        11.11         7.40         9.44         8.05        13.28 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
        7.56         9.14        12.92        12.46        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-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 
        0.30        21.24        17.26        23.08        22.85        27.75 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        13.32        11.51        12.76        66.28         0.69 

  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                          0.92                           0.13 
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                         71.74                          84.10 
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                        12.390                         14.285 
[1] "0.9 - 71.7 (12.4)" "0.1 - 84.1 (14.3)"
[1] "hr=" "1.6"
D30V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  5(4P15.31) MUTATED         0        1        1         5        19
  DEL PEAK  5(4P15.31) WILD-TYPE       1        5       12        21        98
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK  5(4P15.31) MUTATED           0        1
  DEL PEAK  5(4P15.31) WILD-TYPE         5        3
D30V3, multiclass
           clus
vv          DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              5
  STAGE IB                             1                             12
  STAGE IIA                            5                             21
  STAGE IIB                           19                             98
  STAGE III                            0                              5
  STAGE IV                             1                              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  5(4P15.31) MUTATED     1   1  25   0
  DEL PEAK  5(4P15.31) WILD-TYPE   7  20 114   4
D30V4, multiclass
    clus
vv   DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  T1                            1                              7
  T2                            1                             20
  T3                           25                            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"
D30V5, binary
                                cls
clus                               0   1
  DEL PEAK  5(4P15.31) MUTATED     7  19
  DEL PEAK  5(4P15.31) WILD-TYPE  38 105
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(4P15.31) MUTATED      7   19
  DEL PEAK  5(4P15.31) WILD-TYPE   38  105
   clus
vv  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  0                            7                             38
  1                           19                            105
[1] 2 2
[1] FALSE
D30V6, binary
                                cls
clus                              0  1
  DEL PEAK  5(4P15.31) MUTATED   14  1
  DEL PEAK  5(4P15.31) WILD-TYPE 66  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(4P15.31) MUTATED     14    1
  DEL PEAK  5(4P15.31) WILD-TYPE   66    3
   clus
vv  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  0                           14                             66
  1                            1                              3
[1] 2 2
[1] FALSE
D30V7, binary
                                cls
clus                              0  1
  DEL PEAK  5(4P15.31) MUTATED    7 20
  DEL PEAK  5(4P15.31) WILD-TYPE 71 75
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(4P15.31) MUTATED      7   20
  DEL PEAK  5(4P15.31) WILD-TYPE   71   75
        clus
vv       DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  FEMALE                            7                             71
  MALE                             20                             75
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  5(4P15.31) MUTATED                                    25
  DEL PEAK  5(4P15.31) WILD-TYPE                                 120
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  5(4P15.31) MUTATED                                       1
  DEL PEAK  5(4P15.31) WILD-TYPE                                    21
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  5(4P15.31) MUTATED                                                  1
  DEL PEAK  5(4P15.31) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  5(4P15.31) MUTATED                                     0
  DEL PEAK  5(4P15.31) WILD-TYPE                                   1
D30V8, multiclass
                                                  clus
vv                                                 DEL PEAK  5(4P15.31) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        25
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK  5(4P15.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         120
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        21
  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"
D30V9, continuous
D30V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  5(4P15.31) MUTATED   15 11  0  0
  DEL PEAK  5(4P15.31) WILD-TYPE 93 40  2  4
D30V11, multiclass
    clus
vv   DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  R0                           15                             93
  R1                           11                             40
  R2                            0                              2
  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"
D30V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  5(4P15.31) MUTATED       1                         1    25
  DEL PEAK  5(4P15.31) WILD-TYPE     2                         6   133
D30V13, multiclass
                           clus
vv                          DEL PEAK  5(4P15.31) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               25
                           clus
vv                          DEL PEAK  5(4P15.31) WILD-TYPE
  ASIAN                                                  2
  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"
D30V14, binary
                                cls
clus                               0   1
  DEL PEAK  5(4P15.31) MUTATED     1  22
  DEL PEAK  5(4P15.31) WILD-TYPE   2 113
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(4P15.31) MUTATED      1   22
  DEL PEAK  5(4P15.31) WILD-TYPE    2  113
                        clus
vv                       DEL PEAK  5(4P15.31) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           22
                        clus
vv                       DEL PEAK  5(4P15.31) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                            113
[1] 2 2
[1] FALSE

Clustering(31) Variable = DEL PEAK  6(4Q22.1) MUTATION ANALYSIS
D31V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  6(4Q22.1) MUTATED   10 14
  DEL PEAK  6(4Q22.1) WILD-TYPE 69 78
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                           24                           147 
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                           14                            78 
$`DEL PEAK  6(4Q22.1) MUTATED`
TCGA-2J-AABO TCGA-2J-AABP TCGA-2L-AAQA TCGA-2L-AAQE TCGA-3A-A9I5 TCGA-3A-A9J0 
       14.47        11.84         4.70        22.49        53.00        12.39 
TCGA-3E-AAAZ TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ2 
       71.74        14.76        11.61        23.54        15.55         5.03 
TCGA-FZ-5920 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-IB-7886 
        2.01         0.13        20.19        10.13         6.38         4.04 
TCGA-IB-A5SP TCGA-IB-A7LX TCGA-IB-AAUO TCGA-IB-AAUQ TCGA-RB-AA9M TCGA-XD-AAUI 
       15.85         8.22         7.86         6.02         9.40        12.03 

$`DEL PEAK  6(4Q22.1) WILD-TYPE`
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-AABR 
       22.22        22.72        22.26        31.86        15.91        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL 
       10.49         9.11        21.44         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        23.61        20.84         7.36        24.26        28.73 
TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       60.95        84.10        68.52        63.85        50.70        30.64 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-F2-6879 
       15.06        31.79        34.09        10.13        75.12        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX 
        9.70        19.46         7.10         7.66        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        12.43        15.95        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FB-AAQ6 
        7.50        12.53        34.82         4.04         1.02         8.02 
TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 
       24.36         5.10        36.20        20.35        15.78        17.79 
TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 
       12.89        13.84        22.06        21.73         0.92        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        7.76         0.26        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-8636 
        0.69         3.95         9.83        12.43        14.93        17.92 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P 
        4.96        21.70        16.14        21.60         5.26        10.85 
TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 
        1.08         0.23        12.95        49.38         4.77        21.90 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7887 
       15.35        19.82        23.80        15.65        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        21.30         3.85        15.98 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST 
        2.47        17.16        12.00         7.20        15.12        20.88 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUP 
       21.90         1.35        15.88         0.26         4.73        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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
        9.14        12.92        12.46        10.29        19.20         8.78 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RL-AAAS TCGA-S4-A8RM 
       15.45        13.68         3.12        15.32         0.30        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E 
       17.26        23.08        22.85        27.75        16.80        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUL TCGA-YB-A89D 
        0.39        18.67        13.81        12.99        13.32        11.51 
TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.76        66.28         0.69 

  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                        71.74                         84.10 
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                       11.725                        15.060 
[1] "0.1 - 71.7 (11.7)" "0.2 - 84.1 (15.1)"
[1] "hr=" "1.4"
D31V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  6(4Q22.1) MUTATED         0        1        1         4        19
  DEL PEAK  6(4Q22.1) WILD-TYPE       1        5       12        22        98
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  6(4Q22.1) MUTATED           0        0
  DEL PEAK  6(4Q22.1) WILD-TYPE         5        4
D31V3, multiclass
           clus
vv          DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            1                             5
  STAGE IB                            1                            12
  STAGE IIA                           4                            22
  STAGE IIB                          19                            98
  STAGE III                           0                             5
  STAGE IV                            0                             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  6(4Q22.1) MUTATED     2   2  21   0
  DEL PEAK  6(4Q22.1) WILD-TYPE   6  19 118   4
D31V4, multiclass
    clus
vv   DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  T1                           2                             6
  T2                           2                            19
  T3                          21                           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"
D31V5, binary
                               cls
clus                              0   1
  DEL PEAK  6(4Q22.1) MUTATED     5  19
  DEL PEAK  6(4Q22.1) WILD-TYPE  40 105
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q22.1) MUTATED      5   19
  DEL PEAK  6(4Q22.1) WILD-TYPE   40  105
   clus
vv  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  0                           5                            40
  1                          19                           105
[1] 2 2
[1] FALSE
D31V6, binary
                               cls
clus                             0  1
  DEL PEAK  6(4Q22.1) MUTATED   10  0
  DEL PEAK  6(4Q22.1) WILD-TYPE 70  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q22.1) MUTATED     10    0
  DEL PEAK  6(4Q22.1) WILD-TYPE   70    4
   clus
vv  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  0                          10                            70
  1                           0                             4
[1] 2 2
[1] FALSE
D31V7, binary
                               cls
clus                             0  1
  DEL PEAK  6(4Q22.1) MUTATED    6 19
  DEL PEAK  6(4Q22.1) WILD-TYPE 72 76
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q22.1) MUTATED      6   19
  DEL PEAK  6(4Q22.1) WILD-TYPE   72   76
        clus
vv       DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  FEMALE                           6                            72
  MALE                            19                            76
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  6(4Q22.1) MUTATED                                    23
  DEL PEAK  6(4Q22.1) WILD-TYPE                                 122
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  6(4Q22.1) MUTATED                                       0
  DEL PEAK  6(4Q22.1) WILD-TYPE                                    22
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  6(4Q22.1) MUTATED                                                  1
  DEL PEAK  6(4Q22.1) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  6(4Q22.1) MUTATED                                     1
  DEL PEAK  6(4Q22.1) WILD-TYPE                                   0
D31V8, multiclass
                                                  clus
vv                                                 DEL PEAK  6(4Q22.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       23
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      0
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK  6(4Q22.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        122
  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"
D31V9, continuous
D31V10, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  6(4Q22.1) MUTATED   15  9  0  0
  DEL PEAK  6(4Q22.1) WILD-TYPE 93 42  2  4
D31V11, multiclass
    clus
vv   DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  R0                          15                            93
  R1                           9                            42
  R2                           0                             2
  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"
D31V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  6(4Q22.1) MUTATED       1                         1    23
  DEL PEAK  6(4Q22.1) WILD-TYPE     2                         6   135
D31V13, multiclass
                           clus
vv                          DEL PEAK  6(4Q22.1) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              23
                           clus
vv                          DEL PEAK  6(4Q22.1) WILD-TYPE
  ASIAN                                                 2
  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"
D31V14, binary
                               cls
clus                              0   1
  DEL PEAK  6(4Q22.1) MUTATED     2  17
  DEL PEAK  6(4Q22.1) WILD-TYPE   1 118
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q22.1) MUTATED      2   17
  DEL PEAK  6(4Q22.1) WILD-TYPE    1  118
                        clus
vv                       DEL PEAK  6(4Q22.1) MUTATED
  HISPANIC OR LATINO                               2
  NOT HISPANIC OR LATINO                          17
                        clus
vv                       DEL PEAK  6(4Q22.1) WILD-TYPE
  HISPANIC OR LATINO                                 1
  NOT HISPANIC OR LATINO                           118
[1] 2 2
[1] FALSE

Clustering(32) Variable = DEL PEAK  7(4Q34.3) MUTATION ANALYSIS
D32V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  7(4Q34.3) MUTATED   14 18
  DEL PEAK  7(4Q34.3) WILD-TYPE 65 74
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                           32                           139 
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                           18                            74 
$`DEL PEAK  7(4Q34.3) MUTATED`
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABO TCGA-2L-AAQE TCGA-3A-A9I5 
        9.63         2.63        22.26        14.47        22.49        53.00 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9J0 TCGA-3E-AAAZ TCGA-FB-A5VM TCGA-FB-A7DR 
       20.84         7.36        12.39        71.74        14.76        11.61 
TCGA-FB-AAPZ TCGA-FB-AAQ2 TCGA-FZ-5920 TCGA-H8-A6C1 TCGA-HZ-7922 TCGA-HZ-7925 
       23.54         5.03         2.01        22.06         0.13        20.19 
TCGA-HZ-A49G TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-A5SP 
       21.70        10.13         6.38        23.80         4.04        15.85 
TCGA-IB-A7LX TCGA-IB-AAUO TCGA-IB-AAUQ TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-OE-A75W 
        8.22         7.86         6.02         9.14        12.92         8.78 
TCGA-RB-AA9M TCGA-XD-AAUI 
        9.40        12.03 

$`DEL PEAK  7(4Q34.3) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
        2.17        23.97        20.61        19.96        22.22        22.72 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU 
       31.86        15.91        11.84        14.40        10.49         9.11 
TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM 
       21.44         4.70         3.39        12.95         9.60        45.47 
TCGA-3A-A9I7 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN 
       23.61        24.26        28.73        60.95        84.10        68.52 
TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX 
       63.85        50.70        30.64        15.06        31.79        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-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
        7.66        19.27         3.12        17.00         5.88        24.07 
TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY 
       12.43        15.95        37.15         7.50        12.53        34.82 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 
       15.55         4.04         1.02         8.02        24.36         5.10 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N 
       36.20        20.35        15.78        17.79        12.89        13.84 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 
       21.73         0.92        19.50         7.76         0.26        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         0.69         3.95         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49H TCGA-HZ-A4BK 
       12.43        14.93        17.92         4.96        16.14        21.60 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 
        5.26        10.85         1.08         0.23        12.95        49.38 
TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7654 TCGA-IB-7885 
        4.77        21.90        15.35        19.82        15.65        41.33 
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        21.30         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5SS 
       15.98         2.47        17.16        12.00         7.20        15.12 
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-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
       14.17        11.11         7.40         9.44         8.05        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-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP 
        3.12        15.32         0.30        21.24        17.26        23.08 
TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J 
       22.85        27.75        16.80        14.14         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH 
       13.81        12.99        13.32        11.51        12.76        66.28 
TCGA-Z5-AAPL 
        0.69 

  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                        71.74                         84.10 
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                        11.82                         15.06 
[1] "0.1 - 71.7 (11.8)" "0.2 - 84.1 (15.1)"
[1] "hr=" "1.2"
D32V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  7(4Q34.3) MUTATED         0        1        1         8        23
  DEL PEAK  7(4Q34.3) WILD-TYPE       1        5       12        18        94
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  7(4Q34.3) MUTATED           0        0
  DEL PEAK  7(4Q34.3) WILD-TYPE         5        4
D32V3, multiclass
           clus
vv          DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            1                             5
  STAGE IB                            1                            12
  STAGE IIA                           8                            18
  STAGE IIB                          23                            94
  STAGE III                           0                             5
  STAGE IV                            0                             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  7(4Q34.3) MUTATED     2   3  28   0
  DEL PEAK  7(4Q34.3) WILD-TYPE   6  18 111   4
D32V4, multiclass
    clus
vv   DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  T1                           2                             6
  T2                           3                            18
  T3                          28                           111
  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"
D32V5, binary
                               cls
clus                              0   1
  DEL PEAK  7(4Q34.3) MUTATED     9  23
  DEL PEAK  7(4Q34.3) WILD-TYPE  36 101
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q34.3) MUTATED      9   23
  DEL PEAK  7(4Q34.3) WILD-TYPE   36  101
   clus
vv  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  0                           9                            36
  1                          23                           101
[1] 2 2
[1] FALSE
D32V6, binary
                               cls
clus                             0  1
  DEL PEAK  7(4Q34.3) MUTATED   15  0
  DEL PEAK  7(4Q34.3) WILD-TYPE 65  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q34.3) MUTATED     15    0
  DEL PEAK  7(4Q34.3) WILD-TYPE   65    4
   clus
vv  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  0                          15                            65
  1                           0                             4
[1] 2 2
[1] FALSE
D32V7, binary
                               cls
clus                             0  1
  DEL PEAK  7(4Q34.3) MUTATED   10 23
  DEL PEAK  7(4Q34.3) WILD-TYPE 68 72
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q34.3) MUTATED     10   23
  DEL PEAK  7(4Q34.3) WILD-TYPE   68   72
        clus
vv       DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  FEMALE                          10                            68
  MALE                            23                            72
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  7(4Q34.3) MUTATED                                    30
  DEL PEAK  7(4Q34.3) WILD-TYPE                                 115
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  7(4Q34.3) MUTATED                                       2
  DEL PEAK  7(4Q34.3) WILD-TYPE                                    20
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  7(4Q34.3) MUTATED                                                  1
  DEL PEAK  7(4Q34.3) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  7(4Q34.3) MUTATED                                     0
  DEL PEAK  7(4Q34.3) WILD-TYPE                                   1
D32V8, multiclass
                                                  clus
vv                                                 DEL PEAK  7(4Q34.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       30
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK  7(4Q34.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        115
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       20
  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"
D32V9, continuous
D32V10, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  7(4Q34.3) MUTATED   19 12  1  0
  DEL PEAK  7(4Q34.3) WILD-TYPE 89 39  1  4
D32V11, multiclass
    clus
vv   DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  R0                          19                            89
  R1                          12                            39
  R2                           1                             1
  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"
D32V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  7(4Q34.3) MUTATED       2                         2    29
  DEL PEAK  7(4Q34.3) WILD-TYPE     1                         5   129
D32V13, multiclass
                           clus
vv                          DEL PEAK  7(4Q34.3) MUTATED
  ASIAN                                               2
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              29
                           clus
vv                          DEL PEAK  7(4Q34.3) WILD-TYPE
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             5
  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"
D32V14, binary
                               cls
clus                              0   1
  DEL PEAK  7(4Q34.3) MUTATED     2  24
  DEL PEAK  7(4Q34.3) WILD-TYPE   1 111
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q34.3) MUTATED      2   24
  DEL PEAK  7(4Q34.3) WILD-TYPE    1  111
                        clus
vv                       DEL PEAK  7(4Q34.3) MUTATED
  HISPANIC OR LATINO                               2
  NOT HISPANIC OR LATINO                          24
                        clus
vv                       DEL PEAK  7(4Q34.3) WILD-TYPE
  HISPANIC OR LATINO                                 1
  NOT HISPANIC OR LATINO                           111
[1] 2 2
[1] FALSE

Clustering(33) Variable = DEL PEAK  8(5Q14.2) MUTATION ANALYSIS
D33V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  8(5Q14.2) MUTATED   11 20
  DEL PEAK  8(5Q14.2) WILD-TYPE 68 72
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                           31                           140 
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                           20                            72 
$`DEL PEAK  8(5Q14.2) MUTATED`
TCGA-2J-AABO TCGA-2J-AABP TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I9 TCGA-3A-A9IC 
       14.47        11.84         3.39        12.95        20.84        24.26 
TCGA-3A-A9IZ TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FZ-5926 
       10.13        24.07        14.76        12.53        23.54        17.79 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-A77O TCGA-IB-7652 
       21.73         0.92         0.13         3.95         5.26        23.80 
TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-L1-A7W4 
        3.85        17.16         1.35         8.22        15.88         9.14 
TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-OE-A75W TCGA-S4-A8RP TCGA-US-A779 TCGA-XD-AAUI 
       12.92        19.20         8.78        23.08        16.80        12.03 
TCGA-XD-AAUL 
       13.32 

$`DEL PEAK  8(5Q14.2) WILD-TYPE`
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-AABR 
       22.22        22.72        22.26        31.86        15.91        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQL 
       10.49         9.11        21.44         4.70        22.49         9.60 
TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IJ 
       45.47        53.00        23.61         7.36        28.73        60.95 
TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
       84.10        68.52        63.85        50.70        30.64        15.06 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       31.79        34.09        12.39        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX 
        9.70        19.46         7.10         7.66        19.27         3.12 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ 
       17.00         5.88        12.43        11.61        15.95        37.15 
TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 
        7.50        34.82        15.55         4.04         5.03         1.02 
TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 
        8.02        24.36         2.01         5.10        36.20        20.35 
TCGA-FZ-5924 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7920 
       15.78        12.89        13.84        22.06        19.50         7.76 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.26        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 
        0.69         9.83        12.43        14.93        17.92         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P 
       21.70        16.14        10.13         6.38        21.60        10.85 
TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 
        1.08         0.23        12.95        49.38         4.77        21.90 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 
       15.35        19.82        15.65        41.33         4.04         3.62 
TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 
       43.79        15.81        19.66        21.30        15.98         2.47 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF 
       12.00        15.85         7.20        15.12        20.88        21.90 
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-LB-A8F3 
        7.40         9.44         8.05        13.28         7.56        12.46 
TCGA-LB-A9Q5 TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
       10.29        15.45        13.68         3.12        15.32         9.40 
TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-US-A77E 
        0.30        21.24        17.26        22.85        27.75        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YH-A8SY 
        0.39        18.67        13.81        12.99        11.51        12.76 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28         0.69 

  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                        24.26                         84.10 
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                       12.950                        14.665 
[1] "0.1 - 24.3 (12.9)" "0.2 - 84.1 (14.7)"
[1] "hr=" "1.6"
D33V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  8(5Q14.2) MUTATED         0        0        1         6        23
  DEL PEAK  8(5Q14.2) WILD-TYPE       1        6       12        20        94
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  8(5Q14.2) MUTATED           2        0
  DEL PEAK  8(5Q14.2) WILD-TYPE         3        4
D33V3, multiclass
           clus
vv          DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             6
  STAGE IB                            1                            12
  STAGE IIA                           6                            20
  STAGE IIB                          23                            94
  STAGE III                           2                             3
  STAGE IV                            0                             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  8(5Q14.2) MUTATED     0   3  28   1
  DEL PEAK  8(5Q14.2) WILD-TYPE   8  18 111   3
D33V4, multiclass
    clus
vv   DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  T1                           0                             8
  T2                           3                            18
  T3                          28                           111
  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"
D33V5, binary
                               cls
clus                              0   1
  DEL PEAK  8(5Q14.2) MUTATED     8  24
  DEL PEAK  8(5Q14.2) WILD-TYPE  37 100
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q14.2) MUTATED      8   24
  DEL PEAK  8(5Q14.2) WILD-TYPE   37  100
   clus
vv  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  0                           8                            37
  1                          24                           100
[1] 2 2
[1] FALSE
D33V6, binary
                               cls
clus                             0  1
  DEL PEAK  8(5Q14.2) MUTATED   13  0
  DEL PEAK  8(5Q14.2) WILD-TYPE 67  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q14.2) MUTATED     13    0
  DEL PEAK  8(5Q14.2) WILD-TYPE   67    4
   clus
vv  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  0                          13                            67
  1                           0                             4
[1] 2 2
[1] FALSE
D33V7, binary
                               cls
clus                             0  1
  DEL PEAK  8(5Q14.2) MUTATED   16 16
  DEL PEAK  8(5Q14.2) WILD-TYPE 62 79
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q14.2) MUTATED     16   16
  DEL PEAK  8(5Q14.2) WILD-TYPE   62   79
        clus
vv       DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  FEMALE                          16                            62
  MALE                            16                            79
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  8(5Q14.2) MUTATED                                    30
  DEL PEAK  8(5Q14.2) WILD-TYPE                                 115
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  8(5Q14.2) MUTATED                                       1
  DEL PEAK  8(5Q14.2) WILD-TYPE                                    21
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  8(5Q14.2) MUTATED                                                  0
  DEL PEAK  8(5Q14.2) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  8(5Q14.2) MUTATED                                     1
  DEL PEAK  8(5Q14.2) WILD-TYPE                                   0
D33V8, multiclass
                                                  clus
vv                                                 DEL PEAK  8(5Q14.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       30
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK  8(5Q14.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        115
  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"
D33V9, continuous
D33V10, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  8(5Q14.2) MUTATED   18 11  1  1
  DEL PEAK  8(5Q14.2) WILD-TYPE 90 40  1  3
D33V11, multiclass
    clus
vv   DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  R0                          18                            90
  R1                          11                            40
  R2                           1                             1
  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"
D33V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  8(5Q14.2) MUTATED       2                         1    28
  DEL PEAK  8(5Q14.2) WILD-TYPE     1                         6   130
D33V13, multiclass
                           clus
vv                          DEL PEAK  8(5Q14.2) MUTATED
  ASIAN                                               2
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              28
                           clus
vv                          DEL PEAK  8(5Q14.2) WILD-TYPE
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             6
  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"
D33V14, binary
                               cls
clus                              0   1
  DEL PEAK  8(5Q14.2) MUTATED     2  24
  DEL PEAK  8(5Q14.2) WILD-TYPE   1 111
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q14.2) MUTATED      2   24
  DEL PEAK  8(5Q14.2) WILD-TYPE    1  111
                        clus
vv                       DEL PEAK  8(5Q14.2) MUTATED
  HISPANIC OR LATINO                               2
  NOT HISPANIC OR LATINO                          24
                        clus
vv                       DEL PEAK  8(5Q14.2) WILD-TYPE
  HISPANIC OR LATINO                                 1
  NOT HISPANIC OR LATINO                           111
[1] 2 2
[1] FALSE

Clustering(34) Variable = DEL PEAK  9(6P25.2) MUTATION ANALYSIS
D34V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  9(6P25.2) MUTATED   27 41
  DEL PEAK  9(6P25.2) WILD-TYPE 52 51
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                           68                           103 
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                           41                            51 
$`DEL PEAK  9(6P25.2) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABA TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO 
        2.17        23.97        19.96        22.26        31.86        14.47 
TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQM 
       11.84         9.11         4.70        22.49         3.39        45.47 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IL TCGA-3A-A9IS TCGA-3E-AAAZ 
        7.36        24.26        28.73        84.10        30.64        71.74 
TCGA-F2-6879 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPQ 
       10.98        19.27        17.00        24.07        15.95        37.15 
TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5919 TCGA-FZ-5920 
       34.82        15.55         4.04         5.03        24.36         2.01 
TCGA-FZ-5921 TCGA-FZ-5924 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 
        5.10        15.78        12.89        22.06        21.73         0.92 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-A4BK TCGA-HZ-A77O 
       19.50         0.13        23.21         9.83        21.60         5.26 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7654 TCGA-IB-7886 
       10.85         1.08         4.77        21.90        15.65         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-A5SS TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUU 
       15.12        21.90         1.35         4.73         7.86         8.05 
TCGA-LB-A7SX TCGA-PZ-A5RE TCGA-Q3-AA2A TCGA-S4-A8RM TCGA-US-A779 TCGA-US-A77G 
       12.92        15.45         3.12        21.24        16.80         0.39 
TCGA-YB-A89D TCGA-YY-A8LH 
       11.51        66.28 

$`DEL PEAK  9(6P25.2) WILD-TYPE`
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABK 
        9.63         2.63        20.61        22.22        22.72        15.91 
TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABV TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 
       14.40        10.49        21.44        12.95         9.60        53.00 
TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
       23.61        20.84        60.95        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        31.79        34.09        10.13        12.39        75.12 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A7TX TCGA-FB-A4P5 
        9.70        19.46         7.10         7.66         3.12         5.88 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPZ 
       14.76        12.43        11.61         7.50        12.53        23.54 
TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-A45N 
        1.02         8.02        36.20        20.35        17.79        13.84 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8002 
        7.76         0.26        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-8638 
        0.69         3.95        12.43        14.93        17.92         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A8P1 TCGA-IB-7644 
       21.70        16.14        10.13         6.38         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7888 
       49.38        15.35        19.82        23.80        41.33        43.79 
TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST 
       21.30        15.98         2.47        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-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A77E 
        0.30        17.26        23.08        22.85        27.75        14.14 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YH-A8SY 
       18.67        13.81        12.99        12.03        13.32        12.76 
TCGA-Z5-AAPL 
        0.69 

  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                        84.10                         75.12 
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                        15.60                         13.68 
[1] "0.1 - 84.1 (15.6)" "0.2 - 75.1 (13.7)"
[1] "hr=" "1.2"
D34V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  9(6P25.2) MUTATED         1        1        4        10        51
  DEL PEAK  9(6P25.2) WILD-TYPE       0        5        9        16        66
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK  9(6P25.2) MUTATED           1        0
  DEL PEAK  9(6P25.2) WILD-TYPE         4        4
D34V3, multiclass
           clus
vv          DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            1                             5
  STAGE IB                            4                             9
  STAGE IIA                          10                            16
  STAGE IIB                          51                            66
  STAGE III                           1                             4
  STAGE IV                            0                             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  9(6P25.2) MUTATED    2  7 58  1
  DEL PEAK  9(6P25.2) WILD-TYPE  6 14 81  3
D34V4, multiclass
    clus
vv   DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  T1                           2                             6
  T2                           7                            14
  T3                          58                            81
  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"
D34V5, binary
                               cls
clus                             0  1
  DEL PEAK  9(6P25.2) MUTATED   15 52
  DEL PEAK  9(6P25.2) WILD-TYPE 30 72
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6P25.2) MUTATED     15   52
  DEL PEAK  9(6P25.2) WILD-TYPE   30   72
   clus
vv  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  0                          15                            30
  1                          52                            72
[1] 2 2
[1] FALSE
D34V6, binary
                               cls
clus                             0  1
  DEL PEAK  9(6P25.2) MUTATED   35  0
  DEL PEAK  9(6P25.2) WILD-TYPE 45  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6P25.2) MUTATED     35    0
  DEL PEAK  9(6P25.2) WILD-TYPE   45    4
   clus
vv  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  0                          35                            45
  1                           0                             4
[1] 2 2
[1] FALSE
D34V7, binary
                               cls
clus                             0  1
  DEL PEAK  9(6P25.2) MUTATED   26 42
  DEL PEAK  9(6P25.2) WILD-TYPE 52 53
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6P25.2) MUTATED     26   42
  DEL PEAK  9(6P25.2) WILD-TYPE   52   53
        clus
vv       DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  FEMALE                          26                            52
  MALE                            42                            53
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  9(6P25.2) MUTATED                                    54
  DEL PEAK  9(6P25.2) WILD-TYPE                                  91
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  9(6P25.2) MUTATED                                      13
  DEL PEAK  9(6P25.2) WILD-TYPE                                     9
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK  9(6P25.2) MUTATED                                                  0
  DEL PEAK  9(6P25.2) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK  9(6P25.2) MUTATED                                     1
  DEL PEAK  9(6P25.2) WILD-TYPE                                   0
D34V8, multiclass
                                                  clus
vv                                                 DEL PEAK  9(6P25.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       54
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK  9(6P25.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         91
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        9
  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"
D34V9, continuous
D34V10, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  9(6P25.2) MUTATED   40 21  0  2
  DEL PEAK  9(6P25.2) WILD-TYPE 68 30  2  2
D34V11, multiclass
    clus
vv   DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  R0                          40                            68
  R1                          21                            30
  R2                           0                             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"
D34V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  9(6P25.2) MUTATED       0                         2    64
  DEL PEAK  9(6P25.2) WILD-TYPE     3                         5    94
D34V13, multiclass
                           clus
vv                          DEL PEAK  9(6P25.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              64
                           clus
vv                          DEL PEAK  9(6P25.2) WILD-TYPE
  ASIAN                                                 3
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                                94
[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"
D34V14, binary
                               cls
clus                             0  1
  DEL PEAK  9(6P25.2) MUTATED    1 51
  DEL PEAK  9(6P25.2) WILD-TYPE  2 84
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6P25.2) MUTATED      1   51
  DEL PEAK  9(6P25.2) WILD-TYPE    2   84
                        clus
vv                       DEL PEAK  9(6P25.2) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          51
                        clus
vv                       DEL PEAK  9(6P25.2) WILD-TYPE
  HISPANIC OR LATINO                                 2
  NOT HISPANIC OR LATINO                            84
[1] 2 2
[1] FALSE

Clustering(35) Variable = DEL PEAK 10(6P22.2) MUTATION ANALYSIS
D35V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 10(6P22.2) MUTATED   26 39
  DEL PEAK 10(6P22.2) WILD-TYPE 53 53
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                           65                           106 
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                           39                            53 
$`DEL PEAK 10(6P22.2) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABA TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO 
        2.17        23.97        19.96        22.26        31.86        14.47 
TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQM 
       11.84         9.11         4.70        22.49         3.39        45.47 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IL TCGA-3A-A9IS TCGA-3E-AAAZ 
        7.36        24.26        28.73        84.10        30.64        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-FZ-5924 TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 
       15.78        12.89        21.73         0.92        19.50         0.13 
TCGA-HZ-7925 TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P 
       20.19        23.21         9.83        21.60         5.26        10.85 
TCGA-HZ-A77Q TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-7890 
        1.08         4.77        21.90         4.04        15.81        19.66 
TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A6UG 
        3.85        17.16        15.85        15.12        21.90         1.35 
TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUU TCGA-LB-A7SX TCGA-PZ-A5RE TCGA-Q3-AA2A 
        4.73         7.86         8.05        12.92        15.45         3.12 
TCGA-US-A779 TCGA-US-A77G TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH 
       16.80         0.39        11.51        12.76        66.28 

$`DEL PEAK 10(6P22.2) WILD-TYPE`
TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABK 
        9.63         2.63        20.61        22.22        22.72        15.91 
TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABV TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 
       14.40        10.49        21.44        12.95         9.60        53.00 
TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
       23.61        20.84        60.95        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        31.79        34.09        10.13        12.39        75.12 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A7TX TCGA-FB-A4P5 
        9.70        19.46         7.10         7.66         3.12         5.88 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       14.76        12.43        11.61        37.15         7.50        12.53 
TCGA-FB-AAPZ TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 
       23.54         1.02         8.02        36.20        20.35        17.79 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 
       13.84        22.06         7.76         0.26        27.62        17.03 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
       12.03         0.69         3.95        12.43        14.93        17.92 
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-IB-7644 TCGA-IB-7645 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 
       12.95        49.38        15.35        19.82        23.80        15.65 
TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 
       41.33         3.62        43.79        21.30        15.98         2.47 
TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM 
       12.00         7.20        20.88         8.22        15.88         0.26 
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-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
        7.56         9.14        12.46        10.29        19.20         8.78 
TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RO 
       13.68        15.32         9.40         0.30        21.24        17.26 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A77E TCGA-US-A77J TCGA-XD-AAUG 
       23.08        22.85        27.75        14.14        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-Z5-AAPL 
       12.99        12.03        13.32         0.69 

  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                        84.10                         75.12 
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                       15.450                        13.825 
[1] "0.1 - 84.1 (15.4)" "0.2 - 75.1 (13.8)"
[1] "hr=" "1.2"
D35V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 10(6P22.2) MUTATED         1        1        4         9        48
  DEL PEAK 10(6P22.2) WILD-TYPE       0        5        9        17        69
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 10(6P22.2) MUTATED           2        0
  DEL PEAK 10(6P22.2) WILD-TYPE         3        4
D35V3, multiclass
           clus
vv          DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            1                             5
  STAGE IB                            4                             9
  STAGE IIA                           9                            17
  STAGE IIB                          48                            69
  STAGE III                           2                             3
  STAGE IV                            0                             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(6P22.2) MUTATED    2  6 56  1
  DEL PEAK 10(6P22.2) WILD-TYPE  6 15 83  3
D35V4, multiclass
    clus
vv   DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  T1                           2                             6
  T2                           6                            15
  T3                          56                            83
  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"
D35V5, binary
                               cls
clus                             0  1
  DEL PEAK 10(6P22.2) MUTATED   14 50
  DEL PEAK 10(6P22.2) WILD-TYPE 31 74
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(6P22.2) MUTATED     14   50
  DEL PEAK 10(6P22.2) WILD-TYPE   31   74
   clus
vv  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  0                          14                            31
  1                          50                            74
[1] 2 2
[1] FALSE
D35V6, binary
                               cls
clus                             0  1
  DEL PEAK 10(6P22.2) MUTATED   33  0
  DEL PEAK 10(6P22.2) WILD-TYPE 47  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(6P22.2) MUTATED     33    0
  DEL PEAK 10(6P22.2) WILD-TYPE   47    4
   clus
vv  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  0                          33                            47
  1                           0                             4
[1] 2 2
[1] FALSE
D35V7, binary
                               cls
clus                             0  1
  DEL PEAK 10(6P22.2) MUTATED   26 39
  DEL PEAK 10(6P22.2) WILD-TYPE 52 56
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(6P22.2) MUTATED     26   39
  DEL PEAK 10(6P22.2) WILD-TYPE   52   56
        clus
vv       DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  FEMALE                          26                            52
  MALE                            39                            56
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 10(6P22.2) MUTATED                                    51
  DEL PEAK 10(6P22.2) WILD-TYPE                                  94
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 10(6P22.2) MUTATED                                      12
  DEL PEAK 10(6P22.2) WILD-TYPE                                    10
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 10(6P22.2) MUTATED                                                  0
  DEL PEAK 10(6P22.2) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 10(6P22.2) MUTATED                                     1
  DEL PEAK 10(6P22.2) WILD-TYPE                                   0
D35V8, multiclass
                                                  clus
vv                                                 DEL PEAK 10(6P22.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       51
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     12
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK 10(6P22.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         94
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       10
  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"
D35V9, continuous
D35V10, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 10(6P22.2) MUTATED   37 20  0  2
  DEL PEAK 10(6P22.2) WILD-TYPE 71 31  2  2
D35V11, multiclass
    clus
vv   DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  R0                          37                            71
  R1                          20                            31
  R2                           0                             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"
D35V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 10(6P22.2) MUTATED       0                         2    61
  DEL PEAK 10(6P22.2) WILD-TYPE     3                         5    97
D35V13, multiclass
                           clus
vv                          DEL PEAK 10(6P22.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              61
                           clus
vv                          DEL PEAK 10(6P22.2) WILD-TYPE
  ASIAN                                                 3
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                                97
[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"
D35V14, binary
                               cls
clus                             0  1
  DEL PEAK 10(6P22.2) MUTATED    1 48
  DEL PEAK 10(6P22.2) WILD-TYPE  2 87
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(6P22.2) MUTATED      1   48
  DEL PEAK 10(6P22.2) WILD-TYPE    2   87
                        clus
vv                       DEL PEAK 10(6P22.2) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          48
                        clus
vv                       DEL PEAK 10(6P22.2) WILD-TYPE
  HISPANIC OR LATINO                                 2
  NOT HISPANIC OR LATINO                            87
[1] 2 2
[1] FALSE

Clustering(36) Variable = DEL PEAK 11(6Q25.3) MUTATION ANALYSIS
D36V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 11(6Q25.3) MUTATED   30 55
  DEL PEAK 11(6Q25.3) WILD-TYPE 49 37
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           85                            86 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           55                            37 
$`DEL PEAK 11(6Q25.3) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO 
        2.17        19.96        22.22        22.26        31.86        14.47 
TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQL TCGA-2L-AAQM 
        9.11         4.70        22.49         3.39         9.60        45.47 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IL TCGA-3A-A9IS 
       20.84         7.36        24.26        28.73        84.10        30.64 
TCGA-3A-A9IU TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-A44H 
       15.06        34.09        10.13        71.74        10.98        19.27 
TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 
       17.00        24.07        15.95        34.82        23.54        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 
        4.04         5.03         1.02         8.02        24.36         2.01 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5924 TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7289 
        5.10        36.20        15.78        12.89        13.84        21.73 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8001 TCGA-HZ-8005 
        0.92        19.50         0.13        20.19        23.21         3.95 
TCGA-HZ-8315 TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q 
        9.83        17.92         6.38         5.26        10.85         1.08 
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-A5SS TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUN TCGA-IB-AAUO 
       15.12        21.90         1.35         8.22         4.73         7.86 
TCGA-IB-AAUU TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-S4-A8RM 
        8.05        12.92        19.20         8.78        15.45        21.24 
TCGA-S4-A8RP TCGA-US-A776 TCGA-US-A779 TCGA-US-A77G TCGA-YB-A89D TCGA-YH-A8SY 
       23.08        27.75        16.80         0.39        11.51        12.76 
TCGA-YY-A8LH 
       66.28 

$`DEL PEAK 11(6Q25.3) WILD-TYPE`
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABF TCGA-2J-AABK 
       23.97         9.63         2.63        20.61        22.72        15.91 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABV TCGA-2L-AAQJ TCGA-3A-A9I5 
       11.84        14.40        10.49        21.44        12.95        53.00 
TCGA-3A-A9I7 TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IV 
       23.61        60.95        68.52        63.85        50.70        31.79 
TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G 
       12.39        75.12         9.70        19.46         7.10         7.66 
TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ 
        3.12         5.88        14.76        12.43        11.61        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H8-A6C1 TCGA-HZ-7920 
        7.50        12.53        20.35        17.79        22.06         7.76 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 
        0.26        27.62        17.03        12.03         0.69        12.43 
TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BK 
       14.93         4.96        21.70        16.14        10.13        21.60 
TCGA-HZ-A8P1 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7888 
        0.23        15.35        19.82        23.80        15.65        43.79 
TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST 
       21.30        15.98         2.47        12.00         7.20        20.88 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
       15.88         0.26        14.17         6.02        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 
        9.44        13.28         7.56         9.14        12.46        10.29 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RO 
       13.68         3.12        15.32         9.40         0.30        17.26 
TCGA-US-A774 TCGA-US-A77E TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI 
       22.85        14.14        18.67        13.81        12.99        12.03 
TCGA-XD-AAUL TCGA-Z5-AAPL 
       13.32         0.69 

  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                        84.10                         75.12 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                        15.45                         13.50 
[1] "0.1 - 84.1 (15.4)" "0.2 - 75.1 (13.5)"
[1] "hr=" "1.4"
D36V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 11(6Q25.3) MUTATED         1        3        3        15        60
  DEL PEAK 11(6Q25.3) WILD-TYPE       0        3       10        11        57
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 11(6Q25.3) MUTATED           2        2
  DEL PEAK 11(6Q25.3) WILD-TYPE         3        2
D36V3, multiclass
           clus
vv          DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            3                             3
  STAGE IB                            3                            10
  STAGE IIA                          15                            11
  STAGE IIB                          60                            57
  STAGE III                           2                             3
  STAGE IV                            2                             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 11(6Q25.3) MUTATED    4  6 75  1
  DEL PEAK 11(6Q25.3) WILD-TYPE  4 15 64  3
D36V4, multiclass
    clus
vv   DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  T1                           4                             4
  T2                           6                            15
  T3                          75                            64
  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"
D36V5, binary
                               cls
clus                             0  1
  DEL PEAK 11(6Q25.3) MUTATED   23 62
  DEL PEAK 11(6Q25.3) WILD-TYPE 22 62
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(6Q25.3) MUTATED     23   62
  DEL PEAK 11(6Q25.3) WILD-TYPE   22   62
   clus
vv  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  0                          23                            22
  1                          62                            62
[1] 2 2
[1] FALSE
D36V6, binary
                               cls
clus                             0  1
  DEL PEAK 11(6Q25.3) MUTATED   38  2
  DEL PEAK 11(6Q25.3) WILD-TYPE 42  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(6Q25.3) MUTATED     38    2
  DEL PEAK 11(6Q25.3) WILD-TYPE   42    2
   clus
vv  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  0                          38                            42
  1                           2                             2
[1] 2 2
[1] FALSE
D36V7, binary
                               cls
clus                             0  1
  DEL PEAK 11(6Q25.3) MUTATED   33 53
  DEL PEAK 11(6Q25.3) WILD-TYPE 45 42
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(6Q25.3) MUTATED     33   53
  DEL PEAK 11(6Q25.3) WILD-TYPE   45   42
        clus
vv       DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  FEMALE                          33                            45
  MALE                            53                            42
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 11(6Q25.3) MUTATED                                    73
  DEL PEAK 11(6Q25.3) WILD-TYPE                                  72
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 11(6Q25.3) MUTATED                                      11
  DEL PEAK 11(6Q25.3) WILD-TYPE                                    11
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 11(6Q25.3) MUTATED                                                  1
  DEL PEAK 11(6Q25.3) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 11(6Q25.3) MUTATED                                     0
  DEL PEAK 11(6Q25.3) WILD-TYPE                                   1
D36V8, multiclass
                                                  clus
vv                                                 DEL PEAK 11(6Q25.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       73
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     11
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 11(6Q25.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         72
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       11
  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"
D36V9, continuous
D36V10, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 11(6Q25.3) MUTATED   51 26  0  2
  DEL PEAK 11(6Q25.3) WILD-TYPE 57 25  2  2
D36V11, multiclass
    clus
vv   DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  R0                          51                            57
  R1                          26                            25
  R2                           0                             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"
D36V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 11(6Q25.3) MUTATED       0                         2    80
  DEL PEAK 11(6Q25.3) WILD-TYPE     3                         5    78
D36V13, multiclass
                           clus
vv                          DEL PEAK 11(6Q25.3) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              80
                           clus
vv                          DEL PEAK 11(6Q25.3) WILD-TYPE
  ASIAN                                                 3
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                                78
[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"
D36V14, binary
                               cls
clus                             0  1
  DEL PEAK 11(6Q25.3) MUTATED    2 64
  DEL PEAK 11(6Q25.3) WILD-TYPE  1 71
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(6Q25.3) MUTATED      2   64
  DEL PEAK 11(6Q25.3) WILD-TYPE    1   71
                        clus
vv                       DEL PEAK 11(6Q25.3) MUTATED
  HISPANIC OR LATINO                               2
  NOT HISPANIC OR LATINO                          64
                        clus
vv                       DEL PEAK 11(6Q25.3) WILD-TYPE
  HISPANIC OR LATINO                                 1
  NOT HISPANIC OR LATINO                            71
[1] 2 2
[1] FALSE

Clustering(37) Variable = DEL PEAK 12(7Q36.1) MUTATION ANALYSIS
D37V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 12(7Q36.1) MUTATED    5  7
  DEL PEAK 12(7Q36.1) WILD-TYPE 74 85
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                           12                           159 
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                            7                            85 
$`DEL PEAK 12(7Q36.1) MUTATED`
TCGA-FB-AAPQ TCGA-FB-AAPZ TCGA-FZ-5919 TCGA-H6-8124 TCGA-HZ-7922 TCGA-HZ-A4BH 
       37.15        23.54        24.36        12.89         0.13         6.38 
TCGA-HZ-A77O TCGA-IB-7646 TCGA-IB-7890 TCGA-IB-A7LX TCGA-PZ-A5RE TCGA-XD-AAUL 
        5.26         4.77        19.66         8.22        15.45        13.32 

$`DEL PEAK 12(7Q36.1) WILD-TYPE`
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        22.26        31.86        15.91        14.47 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       11.84        14.40        10.49         9.11        21.44         4.70 
TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 
       22.49         3.39        12.95         9.60        45.47        53.00 
TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ 
       23.61        20.84         7.36        24.26        28.73        60.95 
TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
       84.10        68.52        63.85        50.70        30.64        15.06 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       31.79        34.09        10.13        12.39        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H 
       10.98         9.70        19.46         7.10         7.66        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        14.76        12.43 
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-FB-AAQ6 TCGA-FZ-5920 TCGA-FZ-5921 
        4.04         5.03         1.02         8.02         2.01         5.10 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-A45N TCGA-H8-A6C1 
       36.20        20.35        15.78        17.79        13.84        22.06 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 
       21.73         0.92        19.50         7.76         0.26        27.62 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 
       20.19        17.03        23.21        12.03         0.69         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-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 
       16.14        10.13        21.60        10.85         1.08         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        23.80 
TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       15.65        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 
       21.30         3.85        15.98         2.47        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
       15.85         7.20        15.12        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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
        9.14        12.92        12.46        10.29        19.20         8.78 
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        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E 
       17.26        23.08        22.85        27.75        16.80        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-YB-A89D 
        0.39        18.67        13.81        12.99        12.03        11.51 
TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.76        66.28         0.69 

  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                         0.13                          0.23 
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                        37.15                         84.10 
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                       13.105                        14.400 
[1] "0.1 - 37.1 (13.1)" "0.2 - 84.1 (14.4)"
[1] "hr=" "1.2"
D37V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 12(7Q36.1) MUTATED         0        0        1         1        10
  DEL PEAK 12(7Q36.1) WILD-TYPE       1        6       12        25       107
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 12(7Q36.1) MUTATED           0        0
  DEL PEAK 12(7Q36.1) WILD-TYPE         5        4
D37V3, multiclass
           clus
vv          DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            0                             6
  STAGE IB                            1                            12
  STAGE IIA                           1                            25
  STAGE IIB                          10                           107
  STAGE III                           0                             5
  STAGE IV                            0                             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(7Q36.1) MUTATED     0   3   9   0
  DEL PEAK 12(7Q36.1) WILD-TYPE   8  18 130   4
D37V4, multiclass
    clus
vv   DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  T1                           0                             8
  T2                           3                            18
  T3                           9                           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"
D37V5, binary
                               cls
clus                              0   1
  DEL PEAK 12(7Q36.1) MUTATED     2  10
  DEL PEAK 12(7Q36.1) WILD-TYPE  43 114
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(7Q36.1) MUTATED      2   10
  DEL PEAK 12(7Q36.1) WILD-TYPE   43  114
   clus
vv  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  0                           2                            43
  1                          10                           114
[1] 2 2
[1] FALSE
D37V6, binary
                               cls
clus                             0  1
  DEL PEAK 12(7Q36.1) MUTATED    3  0
  DEL PEAK 12(7Q36.1) WILD-TYPE 77  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(7Q36.1) MUTATED      3    0
  DEL PEAK 12(7Q36.1) WILD-TYPE   77    4
   clus
vv  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  0                           3                            77
  1                           0                             4
[1] 2 2
[1] FALSE
D37V7, binary
                               cls
clus                             0  1
  DEL PEAK 12(7Q36.1) MUTATED    5  7
  DEL PEAK 12(7Q36.1) WILD-TYPE 73 88
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(7Q36.1) MUTATED      5    7
  DEL PEAK 12(7Q36.1) WILD-TYPE   73   88
        clus
vv       DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  FEMALE                           5                            73
  MALE                             7                            88
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 12(7Q36.1) MUTATED                                    12
  DEL PEAK 12(7Q36.1) WILD-TYPE                                 133
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 12(7Q36.1) MUTATED                                       0
  DEL PEAK 12(7Q36.1) WILD-TYPE                                    22
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 12(7Q36.1) MUTATED                                                  0
  DEL PEAK 12(7Q36.1) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 12(7Q36.1) MUTATED                                     0
  DEL PEAK 12(7Q36.1) WILD-TYPE                                   1
D37V8, multiclass
                                                  clus
vv                                                 DEL PEAK 12(7Q36.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       12
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      0
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 12(7Q36.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        133
  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"
D37V9, continuous
D37V10, continuous
                               vv
clus                             R0  R1  R2  RX
  DEL PEAK 12(7Q36.1) MUTATED     8   2   0   0
  DEL PEAK 12(7Q36.1) WILD-TYPE 100  49   2   4
D37V11, multiclass
    clus
vv   DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  R0                           8                           100
  R1                           2                            49
  R2                           0                             2
  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"
D37V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 12(7Q36.1) MUTATED       0                         0    11
  DEL PEAK 12(7Q36.1) WILD-TYPE     3                         7   147
D37V13, multiclass
                           clus
vv                          DEL PEAK 12(7Q36.1) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              11
                           clus
vv                          DEL PEAK 12(7Q36.1) WILD-TYPE
  ASIAN                                                 3
  BLACK OR AFRICAN AMERICAN                             7
  WHITE                                               147
[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"
D37V14, binary
                               cls
clus                              0   1
  DEL PEAK 12(7Q36.1) MUTATED     0  10
  DEL PEAK 12(7Q36.1) WILD-TYPE   3 125
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(7Q36.1) MUTATED      0   10
  DEL PEAK 12(7Q36.1) WILD-TYPE    3  125
                        clus
vv                       DEL PEAK 12(7Q36.1) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                          10
                        clus
vv                       DEL PEAK 12(7Q36.1) WILD-TYPE
  HISPANIC OR LATINO                                 3
  NOT HISPANIC OR LATINO                           125
[1] 2 2
[1] FALSE

Clustering(38) Variable = DEL PEAK 13(8P23.2) MUTATION ANALYSIS
D38V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 13(8P23.2) MUTATED   25 30
  DEL PEAK 13(8P23.2) WILD-TYPE 54 62
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                           55                           116 
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                           30                            62 
$`DEL PEAK 13(8P23.2) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABE TCGA-2J-AABH 
       23.97         9.63         2.63        20.61        22.22        22.26 
TCGA-2L-AAQE TCGA-2L-AAQI TCGA-3A-A9I5 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
       22.49         3.39        53.00        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IL TCGA-3A-A9IR TCGA-3A-A9IX TCGA-3A-A9J0 TCGA-F2-6879 
       28.73        84.10        50.70        34.09        12.39        10.98 
TCGA-F2-A44G TCGA-F2-A8YN TCGA-FB-A7DR TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ2 
        7.66        17.00        11.61        12.53        23.54         5.03 
TCGA-FB-AAQ3 TCGA-FZ-5926 TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 
        1.02        17.79        21.73        19.50         0.13        20.19 
TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A8P1 
        3.95        17.92         6.38        21.60        10.85         0.23 
TCGA-IB-7647 TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7890 TCGA-IB-8127 
       21.90        23.80         4.04         3.62        19.66        17.16 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUQ 
       21.90         1.35         8.22        15.88         4.73         6.02 
TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-OE-A75W TCGA-RB-AA9M TCGA-S4-A8RP 
        8.05         9.14        12.46         8.78         9.40        23.08 
TCGA-US-A776 
       27.75 

$`DEL PEAK 13(8P23.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AABA TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO 
        2.17        19.96        22.72        31.86        15.91        14.47 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       11.84        14.40        10.49         9.11        21.44         4.70 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IJ TCGA-3A-A9IN 
       12.95         9.60        45.47        23.61        60.95        68.52 
TCGA-3A-A9IO TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IZ TCGA-3E-AAAY 
       63.85        30.64        15.06        31.79        10.13        75.12 
TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44H TCGA-F2-A7TX 
       71.74         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        14.76        12.43        15.95        37.15 
TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ6 TCGA-FZ-5919 
        7.50        34.82        15.55         4.04         8.02        24.36 
TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-H6-8124 
        2.01         5.10        36.20        20.35        15.78        12.89 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 
       13.84        22.06         0.92         7.76         0.26        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         0.69         9.83        12.43 
TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77O 
       14.93         4.96        21.70        16.14        10.13         5.26 
TCGA-HZ-A77Q TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7649 TCGA-IB-7651 
        1.08        12.95        49.38         4.77        15.35        19.82 
TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7893 
       15.65        41.33        43.79        15.81        21.30         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS 
       15.98         2.47        12.00        15.85         7.20        15.12 
TCGA-IB-A5ST TCGA-IB-AAUM TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS 
       20.88         0.26         7.86        14.17        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A7SX TCGA-LB-A9Q5 TCGA-M8-A5N4 
        9.44        13.28         7.56        12.92        10.29        19.20 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RL-AAAS TCGA-S4-A8RM 
       15.45        13.68         3.12        15.32         0.30        21.24 
TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J 
       17.26        22.85        16.80        14.14         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY 
       13.81        12.99        12.03        13.32        11.51        12.76 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28         0.69 

  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                         0.13                          0.26 
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                        84.10                         75.12 
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                       15.880                        14.155 
[1] "0.1 - 84.1 (15.9)" "0.3 - 75.1 (14.2)"
[1] "hr=" "1"  
D38V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 13(8P23.2) MUTATED         1        3        4        10        35
  DEL PEAK 13(8P23.2) WILD-TYPE       0        3        9        16        82
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 13(8P23.2) MUTATED           1        1
  DEL PEAK 13(8P23.2) WILD-TYPE         4        3
D38V3, multiclass
           clus
vv          DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            3                             3
  STAGE IB                            4                             9
  STAGE IIA                          10                            16
  STAGE IIB                          35                            82
  STAGE III                           1                             4
  STAGE IV                            1                             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 13(8P23.2) MUTATED    5  6 44  0
  DEL PEAK 13(8P23.2) WILD-TYPE  3 15 95  4
D38V4, multiclass
    clus
vv   DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  T1                           5                             3
  T2                           6                            15
  T3                          44                            95
  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 13(8P23.2) MUTATED   17 36
  DEL PEAK 13(8P23.2) WILD-TYPE 28 88
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(8P23.2) MUTATED     17   36
  DEL PEAK 13(8P23.2) WILD-TYPE   28   88
   clus
vv  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  0                          17                            28
  1                          36                            88
[1] 2 2
[1] FALSE
D38V6, binary
                               cls
clus                             0  1
  DEL PEAK 13(8P23.2) MUTATED   26  1
  DEL PEAK 13(8P23.2) WILD-TYPE 54  3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(8P23.2) MUTATED     26    1
  DEL PEAK 13(8P23.2) WILD-TYPE   54    3
   clus
vv  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  0                          26                            54
  1                           1                             3
[1] 2 2
[1] FALSE
D38V7, binary
                               cls
clus                             0  1
  DEL PEAK 13(8P23.2) MUTATED   20 35
  DEL PEAK 13(8P23.2) WILD-TYPE 58 60
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(8P23.2) MUTATED     20   35
  DEL PEAK 13(8P23.2) WILD-TYPE   58   60
        clus
vv       DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  FEMALE                          20                            58
  MALE                            35                            60
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 13(8P23.2) MUTATED                                    45
  DEL PEAK 13(8P23.2) WILD-TYPE                                 100
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 13(8P23.2) MUTATED                                       8
  DEL PEAK 13(8P23.2) WILD-TYPE                                    14
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 13(8P23.2) MUTATED                                                  2
  DEL PEAK 13(8P23.2) WILD-TYPE                                                2
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 13(8P23.2) MUTATED                                     0
  DEL PEAK 13(8P23.2) WILD-TYPE                                   1
D38V8, multiclass
                                                  clus
vv                                                 DEL PEAK 13(8P23.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       45
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 13(8P23.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        100
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       14
  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"
D38V9, continuous
D38V10, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 13(8P23.2) MUTATED   33 20  1  1
  DEL PEAK 13(8P23.2) WILD-TYPE 75 31  1  3
D38V11, multiclass
    clus
vv   DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  R0                          33                            75
  R1                          20                            31
  R2                           1                             1
  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"
D38V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 13(8P23.2) MUTATED       3                         1    50
  DEL PEAK 13(8P23.2) WILD-TYPE     0                         6   108
D38V13, multiclass
                           clus
vv                          DEL PEAK 13(8P23.2) MUTATED
  ASIAN                                               3
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              50
                           clus
vv                          DEL PEAK 13(8P23.2) WILD-TYPE
  ASIAN                                                 0
  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"
D38V14, binary
                               cls
clus                             0  1
  DEL PEAK 13(8P23.2) MUTATED    0 43
  DEL PEAK 13(8P23.2) WILD-TYPE  3 92
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(8P23.2) MUTATED      0   43
  DEL PEAK 13(8P23.2) WILD-TYPE    3   92
                        clus
vv                       DEL PEAK 13(8P23.2) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                          43
                        clus
vv                       DEL PEAK 13(8P23.2) WILD-TYPE
  HISPANIC OR LATINO                                 3
  NOT HISPANIC OR LATINO                            92
[1] 2 2
[1] FALSE

Clustering(39) Variable = DEL PEAK 14(9P21.3) MUTATION ANALYSIS
D39V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 14(9P21.3) MUTATED   40 66
  DEL PEAK 14(9P21.3) WILD-TYPE 39 26
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                          106                            65 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                           66                            26 
$`DEL PEAK 14(9P21.3) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        2.17         9.63        19.96        22.22        22.72        22.26 
TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABT TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE 
       31.86        14.47        10.49         9.11         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 TCGA-3A-A9I9 TCGA-3A-A9IB 
        3.39        12.95         9.60        53.00        20.84         7.36 
TCGA-3A-A9IH TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 
       28.73        15.06        31.79        34.09        10.13        12.39 
TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A545 
       71.74        10.98         7.66        19.27        17.00        24.07 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS 
       14.76        12.43        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-AAQ2 
       12.53        34.82        23.54        15.55         4.04         5.03 
TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        1.02         8.02        24.36         2.01         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HZ-7289 
       20.35        15.78        17.79        12.89        22.06        21.73 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8005 TCGA-HZ-8315 
        0.92        19.50         0.13        20.19         3.95         9.83 
TCGA-HZ-8636 TCGA-HZ-A49G TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O 
       17.92        21.70        10.13         6.38        21.60         5.26 
TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 
        1.08         0.23        49.38         4.77        21.90        15.35 
TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7890 
       23.80        15.65        41.33         4.04         3.62        19.66 
TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A7LX 
        3.85        17.16        15.85        15.12        21.90         8.22 
TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A7SX 
       15.88         4.73         7.86         8.05         9.14        12.92 
TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-AA2A TCGA-RB-A7B8 
       12.46        19.20         8.78        15.45         3.12        15.32 
TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G 
        9.40        21.24        23.08        16.80        14.14         0.39 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YH-A8SY TCGA-YY-A8LH 
       12.03        13.32        12.76        66.28 

$`DEL PEAK 14(9P21.3) WILD-TYPE`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR 
       23.97         2.63        20.61        15.91        11.84        14.40 
TCGA-2J-AABV TCGA-2L-AAQM TCGA-3A-A9I7 TCGA-3A-A9IC TCGA-3A-A9IJ TCGA-3A-A9IL 
       21.44        45.47        23.61        24.26        60.95        84.10 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3E-AAAY TCGA-F2-6880 
       68.52        63.85        50.70        30.64        75.12         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-H6-A45N TCGA-HZ-7920 
       19.46         7.10         3.12         5.88        13.84         7.76 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
        0.26        27.62        17.03        23.21        12.03         0.69 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49H TCGA-HZ-A77P TCGA-IB-7644 
       12.43        14.93         4.96        16.14        10.85        12.95 
TCGA-IB-7651 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 
       19.82        43.79        15.81        21.30        15.98         2.47 
TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-AAUM TCGA-IB-AAUP 
       12.00         7.20        20.88         1.35         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-LB-A9Q5 TCGA-Q3-A5QY TCGA-RL-AAAS TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 
       10.29        13.68         0.30        17.26        22.85        27.75 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-Z5-AAPL 
       18.67        13.81        12.99        11.51         0.69 

  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                         0.13                          0.26 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                        71.74                         84.10 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                       14.615                        13.840 
[1] "0.1 - 71.7 (14.6)" "0.3 - 84.1 (13.8)"
[1] "hr=" "1.7"
D39V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 14(9P21.3) MUTATED         0        4        6        20        73
  DEL PEAK 14(9P21.3) WILD-TYPE       1        2        7         6        44
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 14(9P21.3) MUTATED           3        2
  DEL PEAK 14(9P21.3) WILD-TYPE         2        2
D39V3, multiclass
           clus
vv          DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  STAGE I                             0                             1
  STAGE IA                            4                             2
  STAGE IB                            6                             7
  STAGE IIA                          20                             6
  STAGE IIB                          73                            44
  STAGE III                           3                             2
  STAGE IV                            2                             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 14(9P21.3) MUTATED    5 11 90  2
  DEL PEAK 14(9P21.3) WILD-TYPE  3 10 49  2
D39V4, multiclass
    clus
vv   DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  T1                           5                             3
  T2                          11                            10
  T3                          90                            49
  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"
D39V5, binary
                               cls
clus                             0  1
  DEL PEAK 14(9P21.3) MUTATED   30 77
  DEL PEAK 14(9P21.3) WILD-TYPE 15 47
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(9P21.3) MUTATED     30   77
  DEL PEAK 14(9P21.3) WILD-TYPE   15   47
   clus
vv  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  0                          30                            15
  1                          77                            47
[1] 2 2
[1] FALSE
D39V6, binary
                               cls
clus                             0  1
  DEL PEAK 14(9P21.3) MUTATED   48  2
  DEL PEAK 14(9P21.3) WILD-TYPE 32  2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(9P21.3) MUTATED     48    2
  DEL PEAK 14(9P21.3) WILD-TYPE   32    2
   clus
vv  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  0                          48                            32
  1                           2                             2
[1] 2 2
[1] FALSE
D39V7, binary
                               cls
clus                             0  1
  DEL PEAK 14(9P21.3) MUTATED   45 63
  DEL PEAK 14(9P21.3) WILD-TYPE 33 32
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(9P21.3) MUTATED     45   63
  DEL PEAK 14(9P21.3) WILD-TYPE   33   32
        clus
vv       DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  FEMALE                          45                            33
  MALE                            63                            32
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 14(9P21.3) MUTATED                                    95
  DEL PEAK 14(9P21.3) WILD-TYPE                                  50
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 14(9P21.3) MUTATED                                      11
  DEL PEAK 14(9P21.3) WILD-TYPE                                    11
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 14(9P21.3) MUTATED                                                  1
  DEL PEAK 14(9P21.3) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 14(9P21.3) MUTATED                                     0
  DEL PEAK 14(9P21.3) WILD-TYPE                                   1
D39V8, multiclass
                                                  clus
vv                                                 DEL PEAK 14(9P21.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       95
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     11
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 14(9P21.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         50
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       11
  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"
D39V9, continuous
D39V10, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 14(9P21.3) MUTATED   64 34  1  3
  DEL PEAK 14(9P21.3) WILD-TYPE 44 17  1  1
D39V11, multiclass
    clus
vv   DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  R0                          64                            44
  R1                          34                            17
  R2                           1                             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"
D39V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 14(9P21.3) MUTATED       3                         3    97
  DEL PEAK 14(9P21.3) WILD-TYPE     0                         4    61
D39V13, multiclass
                           clus
vv                          DEL PEAK 14(9P21.3) MUTATED
  ASIAN                                               3
  BLACK OR AFRICAN AMERICAN                           3
  WHITE                                              97
                           clus
vv                          DEL PEAK 14(9P21.3) WILD-TYPE
  ASIAN                                                 0
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                61
[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"
D39V14, binary
                               cls
clus                             0  1
  DEL PEAK 14(9P21.3) MUTATED    3 81
  DEL PEAK 14(9P21.3) WILD-TYPE  0 54
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(9P21.3) MUTATED      3   81
  DEL PEAK 14(9P21.3) WILD-TYPE    0   54
                        clus
vv                       DEL PEAK 14(9P21.3) MUTATED
  HISPANIC OR LATINO                               3
  NOT HISPANIC OR LATINO                          81
                        clus
vv                       DEL PEAK 14(9P21.3) WILD-TYPE
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            54
[1] 2 2
[1] FALSE

Clustering(40) Variable = DEL PEAK 15(9Q22.33) MUTATION ANALYSIS
D40V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 15(9Q22.33) MUTATED   20 25
  DEL PEAK 15(9Q22.33) WILD-TYPE 59 67
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                            45                            126 
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                            25                             67 
$`DEL PEAK 15(9Q22.33) MUTATED`
TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABO TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ 
       22.22        22.72        14.47        22.49         3.39        12.95 
TCGA-3A-A9IB TCGA-3A-A9J0 TCGA-3E-AAAZ TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-AAPS 
        7.36        12.39        71.74         7.66        19.27         7.50 
TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 
       34.82        15.55         4.04         8.02        24.36         5.10 
TCGA-FZ-5922 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HZ-7918 
       36.20        15.78        17.79        12.89        22.06         0.92 
TCGA-HZ-7922 TCGA-HZ-8005 TCGA-HZ-A49G TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O 
        0.13         3.95        21.70         6.38        21.60         5.26 
TCGA-IB-7645 TCGA-IB-7649 TCGA-IB-7893 TCGA-IB-A7LX TCGA-IB-AAUU TCGA-LB-A7SX 
       49.38        15.35         3.85         8.22         8.05        12.92 
TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-US-A779 
       12.46        19.20         3.12        15.32         9.40        16.80 
TCGA-XD-AAUL TCGA-YH-A8SY TCGA-YY-A8LH 
       13.32        12.76        66.28 

$`DEL PEAK 15(9Q22.33) WILD-TYPE`
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-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT 
       22.26        31.86        15.91        11.84        14.40        10.49 
TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 
        9.11        21.44         4.70         9.60        45.47        53.00 
TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL 
       23.61        20.84        24.26        28.73        60.95        84.10 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV 
       68.52        63.85        50.70        30.64        15.06        31.79 
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-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
        7.10         3.12        17.00         5.88        24.07        14.76 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPU TCGA-FB-AAPZ 
       12.43        11.61        15.95        37.15        12.53        23.54 
TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FZ-5920 TCGA-FZ-5923 TCGA-H6-A45N TCGA-HZ-7289 
        5.03         1.02         2.01        20.35        13.84        21.73 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
       19.50         7.76         0.26        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         0.69         9.83        12.43        14.93 
TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77P TCGA-HZ-A77Q 
       17.92         4.96        16.14        10.13        10.85         1.08 
TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7651 TCGA-IB-7652 
        0.23        12.95         4.77        21.90        19.82        23.80 
TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       15.65        41.33         4.04         3.62        43.79        15.81 
TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO 
       19.66        21.30        15.98         2.47        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
       15.85         7.20        15.12        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-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
       11.11         7.40         9.44        13.28         7.56         9.14 
TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RL-AAAS TCGA-S4-A8RM 
       10.29         8.78        15.45        13.68         0.30        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A77E TCGA-US-A77G 
       17.26        23.08        22.85        27.75        14.14         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-YB-A89D TCGA-Z5-AAPL 
       18.67        13.81        12.99        12.03        11.51         0.69 

  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                          0.13                           0.23 
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                         71.74                          84.10 
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                         12.95                          14.58 
[1] "0.1 - 71.7 (12.9)" "0.2 - 84.1 (14.6)"
[1] "hr=" "1.1"
D40V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 15(9Q22.33) MUTATED         0        1        1        10        31
  DEL PEAK 15(9Q22.33) WILD-TYPE       1        5       12        16        86
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 15(9Q22.33) MUTATED           3        0
  DEL PEAK 15(9Q22.33) WILD-TYPE         2        4
D40V3, multiclass
           clus
vv          DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              5
  STAGE IB                             1                             12
  STAGE IIA                           10                             16
  STAGE IIB                           31                             86
  STAGE III                            3                              2
  STAGE IV                             0                              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 15(9Q22.33) MUTATED     2   4  39   1
  DEL PEAK 15(9Q22.33) WILD-TYPE   6  17 100   3
D40V4, multiclass
    clus
vv   DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  T1                            2                              6
  T2                            4                             17
  T3                           39                            100
  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 15(9Q22.33) MUTATED   12 34
  DEL PEAK 15(9Q22.33) WILD-TYPE 33 90
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(9Q22.33) MUTATED     12   34
  DEL PEAK 15(9Q22.33) WILD-TYPE   33   90
   clus
vv  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  0                           12                             33
  1                           34                             90
[1] 2 2
[1] FALSE
D40V6, binary
                                cls
clus                              0  1
  DEL PEAK 15(9Q22.33) MUTATED   17  0
  DEL PEAK 15(9Q22.33) WILD-TYPE 63  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(9Q22.33) MUTATED     17    0
  DEL PEAK 15(9Q22.33) WILD-TYPE   63    4
   clus
vv  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  0                           17                             63
  1                            0                              4
[1] 2 2
[1] FALSE
D40V7, binary
                                cls
clus                              0  1
  DEL PEAK 15(9Q22.33) MUTATED   22 24
  DEL PEAK 15(9Q22.33) WILD-TYPE 56 71
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(9Q22.33) MUTATED     22   24
  DEL PEAK 15(9Q22.33) WILD-TYPE   56   71
        clus
vv       DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  FEMALE                           22                             56
  MALE                             24                             71
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 15(9Q22.33) MUTATED                                    42
  DEL PEAK 15(9Q22.33) WILD-TYPE                                 103
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 15(9Q22.33) MUTATED                                       3
  DEL PEAK 15(9Q22.33) WILD-TYPE                                    19
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 15(9Q22.33) MUTATED                                                  0
  DEL PEAK 15(9Q22.33) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 15(9Q22.33) MUTATED                                     0
  DEL PEAK 15(9Q22.33) WILD-TYPE                                   1
D40V8, multiclass
                                                  clus
vv                                                 DEL PEAK 15(9Q22.33) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        42
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK 15(9Q22.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         103
  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"
D40V9, continuous
D40V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 15(9Q22.33) MUTATED   29 12  0  1
  DEL PEAK 15(9Q22.33) WILD-TYPE 79 39  2  3
D40V11, multiclass
    clus
vv   DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  R0                           29                             79
  R1                           12                             39
  R2                            0                              2
  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"
D40V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 15(9Q22.33) MUTATED       0                         2    40
  DEL PEAK 15(9Q22.33) WILD-TYPE     3                         5   118
D40V13, multiclass
                           clus
vv                          DEL PEAK 15(9Q22.33) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               40
                           clus
vv                          DEL PEAK 15(9Q22.33) WILD-TYPE
  ASIAN                                                  3
  BLACK OR AFRICAN AMERICAN                              5
  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"
D40V14, binary
                                cls
clus                               0   1
  DEL PEAK 15(9Q22.33) MUTATED     2  33
  DEL PEAK 15(9Q22.33) WILD-TYPE   1 102
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(9Q22.33) MUTATED      2   33
  DEL PEAK 15(9Q22.33) WILD-TYPE    1  102
                        clus
vv                       DEL PEAK 15(9Q22.33) MUTATED
  HISPANIC OR LATINO                                2
  NOT HISPANIC OR LATINO                           33
                        clus
vv                       DEL PEAK 15(9Q22.33) WILD-TYPE
  HISPANIC OR LATINO                                  1
  NOT HISPANIC OR LATINO                            102
[1] 2 2
[1] FALSE

Clustering(41) Variable = DEL PEAK 16(10P15.3) MUTATION ANALYSIS
D41V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 16(10P15.3) MUTATED   13 22
  DEL PEAK 16(10P15.3) WILD-TYPE 66 70
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                            35                            136 
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                            22                             70 
$`DEL PEAK 16(10P15.3) MUTATED`
TCGA-2J-AABA TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQI 
       19.96        31.86        14.47        11.84         9.11         3.39 
TCGA-2L-AAQM TCGA-3A-A9IC TCGA-3A-A9IL TCGA-3A-A9IS TCGA-3A-A9IU TCGA-FB-A545 
       45.47        24.26        84.10        30.64        15.06        24.07 
TCGA-FB-AAPP TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ2 TCGA-FZ-5923 TCGA-H6-8124 
       15.95        12.53        23.54         5.03        20.35        12.89 
TCGA-HZ-7289 TCGA-HZ-8005 TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-IB-7646 TCGA-IB-7885 
       21.73         3.95         5.26         1.08         4.77        41.33 
TCGA-IB-7886 TCGA-IB-7890 TCGA-IB-7893 TCGA-IB-A5SQ TCGA-IB-A6UG TCGA-IB-A7LX 
        4.04        19.66         3.85         7.20         1.35         8.22 
TCGA-IB-AAUN TCGA-IB-AAUQ TCGA-S4-A8RO TCGA-XD-AAUG TCGA-YH-A8SY 
        4.73         6.02        17.26        13.81        12.76 

$`DEL PEAK 16(10P15.3) WILD-TYPE`
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-AABK TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABV 
       22.72        22.26        15.91        14.40        10.49        21.44 
TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 TCGA-3A-A9I7 
        4.70        22.49        12.95         9.60        53.00        23.61 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO 
       20.84         7.36        28.73        60.95        68.52        63.85 
TCGA-3A-A9IR TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY 
       50.70        31.79        34.09        10.13        12.39        75.12 
TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G 
       71.74        10.98         9.70        19.46         7.10         7.66 
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        14.76        12.43 
TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAQ0 TCGA-FB-AAQ1 
       11.61        37.15         7.50        34.82        15.55         4.04 
TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        1.02         8.02        24.36         2.01         5.10        36.20 
TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 
       15.78        17.79        13.84        22.06         0.92        19.50 
TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
        7.76         0.13         0.26        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         0.69         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-A4BK TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 
       21.60        10.85         0.23        12.95        49.38        21.90 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7887 TCGA-IB-7888 
       15.35        19.82        23.80        15.65         3.62        43.79 
TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO 
       15.81        21.30        15.98         2.47        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM 
       15.85        15.12        20.88        21.90        15.88         0.26 
TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
        7.86        14.17        11.11         7.40         9.44         8.05 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
       13.28         7.56         9.14        12.92        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-S4-A8RP TCGA-US-A774 TCGA-US-A776 
        9.40         0.30        21.24        23.08        22.85        27.75 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUH TCGA-XD-AAUI 
       16.80        14.14         0.39        18.67        12.99        12.03 
TCGA-XD-AAUL TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       13.32        11.51        66.28         0.69 

  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                          1.08                           0.13 
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                         84.10                          75.12 
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                         12.89                          14.58 
[1] "1.1 - 84.1 (12.9)" "0.1 - 75.1 (14.6)"
[1] "hr=" "1.3"
D41V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 16(10P15.3) MUTATED         1        0        4         3        25
  DEL PEAK 16(10P15.3) WILD-TYPE       0        6        9        23        92
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 16(10P15.3) MUTATED           1        2
  DEL PEAK 16(10P15.3) WILD-TYPE         4        2
D41V3, multiclass
           clus
vv          DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             0                              6
  STAGE IB                             4                              9
  STAGE IIA                            3                             23
  STAGE IIB                           25                             92
  STAGE III                            1                              4
  STAGE IV                             2                              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 16(10P15.3) MUTATED     1   6  28   1
  DEL PEAK 16(10P15.3) WILD-TYPE   7  15 111   3
D41V4, multiclass
    clus
vv   DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  T1                            1                              7
  T2                            6                             15
  T3                           28                            111
  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"
D41V5, binary
                                cls
clus                              0  1
  DEL PEAK 16(10P15.3) MUTATED    7 28
  DEL PEAK 16(10P15.3) WILD-TYPE 38 96
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(10P15.3) MUTATED      7   28
  DEL PEAK 16(10P15.3) WILD-TYPE   38   96
   clus
vv  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  0                            7                             38
  1                           28                             96
[1] 2 2
[1] FALSE
D41V6, binary
                                cls
clus                              0  1
  DEL PEAK 16(10P15.3) MUTATED   16  2
  DEL PEAK 16(10P15.3) WILD-TYPE 64  2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(10P15.3) MUTATED     16    2
  DEL PEAK 16(10P15.3) WILD-TYPE   64    2
   clus
vv  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  0                           16                             64
  1                            2                              2
[1] 2 2
[1] FALSE
D41V7, binary
                                cls
clus                              0  1
  DEL PEAK 16(10P15.3) MUTATED   16 20
  DEL PEAK 16(10P15.3) WILD-TYPE 62 75
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(10P15.3) MUTATED     16   20
  DEL PEAK 16(10P15.3) WILD-TYPE   62   75
        clus
vv       DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  FEMALE                           16                             62
  MALE                             20                             75
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 16(10P15.3) MUTATED                                    28
  DEL PEAK 16(10P15.3) WILD-TYPE                                 117
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 16(10P15.3) MUTATED                                       6
  DEL PEAK 16(10P15.3) WILD-TYPE                                    16
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 16(10P15.3) MUTATED                                                  0
  DEL PEAK 16(10P15.3) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 16(10P15.3) MUTATED                                     1
  DEL PEAK 16(10P15.3) WILD-TYPE                                   0
D41V8, multiclass
                                                  clus
vv                                                 DEL PEAK 16(10P15.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        28
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 16(10P15.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         117
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        16
  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"
D41V9, continuous
D41V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 16(10P15.3) MUTATED   21 12  0  1
  DEL PEAK 16(10P15.3) WILD-TYPE 87 39  2  3
D41V11, multiclass
    clus
vv   DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  R0                           21                             87
  R1                           12                             39
  R2                            0                              2
  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"
D41V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 16(10P15.3) MUTATED       1                         0    34
  DEL PEAK 16(10P15.3) WILD-TYPE     2                         7   124
D41V13, multiclass
                           clus
vv                          DEL PEAK 16(10P15.3) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               34
                           clus
vv                          DEL PEAK 16(10P15.3) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              7
  WHITE                                                124
[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"
D41V14, binary
                                cls
clus                               0   1
  DEL PEAK 16(10P15.3) MUTATED     0  28
  DEL PEAK 16(10P15.3) WILD-TYPE   3 107
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(10P15.3) MUTATED      0   28
  DEL PEAK 16(10P15.3) WILD-TYPE    3  107
                        clus
vv                       DEL PEAK 16(10P15.3) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           28
                        clus
vv                       DEL PEAK 16(10P15.3) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            107
[1] 2 2
[1] FALSE

Clustering(42) Variable = DEL PEAK 17(10Q23.33) MUTATION ANALYSIS
D42V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 17(10Q23.33) MUTATED   13 18
  DEL PEAK 17(10Q23.33) WILD-TYPE 66 74
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                             31                             140 
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                             18                              74 
$`DEL PEAK 17(10Q23.33) MUTATED`
TCGA-2J-AABA TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQI TCGA-2L-AAQM 
       19.96        14.47        11.84         9.11         3.39        45.47 
TCGA-3A-A9IL TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IZ TCGA-FB-A545 TCGA-FB-AAQ2 
       84.10        30.64        15.06        10.13        24.07         5.03 
TCGA-FZ-5921 TCGA-FZ-5924 TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-8005 
        5.10        15.78        12.89        21.73         0.92         3.95 
TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-IB-7646 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 
        5.26         1.08         4.77        23.80        15.65        41.33 
TCGA-IB-7887 TCGA-IB-7890 TCGA-IB-7893 TCGA-IB-AAUQ TCGA-S4-A8RO TCGA-US-A776 
        3.62        19.66         3.85         6.02        17.26        27.75 
TCGA-XD-AAUG 
       13.81 

$`DEL PEAK 17(10Q23.33) WILD-TYPE`
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-AABR TCGA-2J-AABT 
       22.72        22.26        31.86        15.91        14.40        10.49 
TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 
       21.44         4.70        22.49        12.95         9.60        53.00 
TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ 
       23.61        20.84         7.36        24.26        28.73        60.95 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9J0 
       68.52        63.85        50.70        31.79        34.09        12.39 
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-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM 
        7.66        19.27         3.12        17.00         5.88        14.76 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       12.43        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-FB-AAQ6 
       34.82        23.54        15.55         4.04         1.02         8.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-A45N 
       24.36         2.01        36.20        20.35        17.79        13.84 
TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
       22.06        19.50         7.76         0.13         0.26        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         0.69         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       12.43        14.93        17.92         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7644 
       10.13         6.38        21.60        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        21.30        15.98         2.47        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
       15.85         7.20        15.12        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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
        9.14        12.92        12.46        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-A77E TCGA-US-A77G 
       21.24        23.08        22.85        16.80        14.14         0.39 
TCGA-US-A77J TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY 
       18.67        12.99        12.03        13.32        11.51        12.76 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28         0.69 

  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                           0.92                            0.13 
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                          84.10                           75.12 
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                         13.810                          14.285 
[1] "0.9 - 84.1 (13.8)" "0.1 - 75.1 (14.3)"
[1] "hr=" "1.2"
D42V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 17(10Q23.33) MUTATED         1        0        2         2        26
  DEL PEAK 17(10Q23.33) WILD-TYPE       0        6       11        24        91
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 17(10Q23.33) MUTATED           0        1
  DEL PEAK 17(10Q23.33) WILD-TYPE         5        3
D42V3, multiclass
           clus
vv          DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  STAGE I                               1                               0
  STAGE IA                              0                               6
  STAGE IB                              2                              11
  STAGE IIA                             2                              24
  STAGE IIB                            26                              91
  STAGE III                             0                               5
  STAGE IV                              1                               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 17(10Q23.33) MUTATED     1   4  27   0
  DEL PEAK 17(10Q23.33) WILD-TYPE   7  17 112   4
D42V4, multiclass
    clus
vv   DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  T1                             1                               7
  T2                             4                              17
  T3                            27                             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"
D42V5, binary
                                 cls
clus                               0  1
  DEL PEAK 17(10Q23.33) MUTATED    4 27
  DEL PEAK 17(10Q23.33) WILD-TYPE 41 97
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(10Q23.33) MUTATED      4   27
  DEL PEAK 17(10Q23.33) WILD-TYPE   41   97
   clus
vv  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  0                             4                              41
  1                            27                              97
[1] 2 2
[1] FALSE
D42V6, binary
                                 cls
clus                               0  1
  DEL PEAK 17(10Q23.33) MUTATED   17  1
  DEL PEAK 17(10Q23.33) WILD-TYPE 63  3
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(10Q23.33) MUTATED     17    1
  DEL PEAK 17(10Q23.33) WILD-TYPE   63    3
   clus
vv  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  0                            17                              63
  1                             1                               3
[1] 2 2
[1] FALSE
D42V7, binary
                                 cls
clus                               0  1
  DEL PEAK 17(10Q23.33) MUTATED   13 19
  DEL PEAK 17(10Q23.33) WILD-TYPE 65 76
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(10Q23.33) MUTATED     13   19
  DEL PEAK 17(10Q23.33) WILD-TYPE   65   76
        clus
vv       DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  FEMALE                            13                              65
  MALE                              19                              76
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 17(10Q23.33) MUTATED                                    25
  DEL PEAK 17(10Q23.33) WILD-TYPE                                 120
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 17(10Q23.33) MUTATED                                       5
  DEL PEAK 17(10Q23.33) WILD-TYPE                                    17
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 17(10Q23.33) MUTATED                                                  1
  DEL PEAK 17(10Q23.33) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 17(10Q23.33) MUTATED                                     1
  DEL PEAK 17(10Q23.33) WILD-TYPE                                   0
D42V8, multiclass
                                                  clus
vv                                                 DEL PEAK 17(10Q23.33) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         25
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
                                                  clus
vv                                                 DEL PEAK 17(10Q23.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          120
  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"
D42V9, continuous
D42V10, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 17(10Q23.33) MUTATED   18 11  0  1
  DEL PEAK 17(10Q23.33) WILD-TYPE 90 40  2  3
D42V11, multiclass
    clus
vv   DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  R0                            18                              90
  R1                            11                              40
  R2                             0                               2
  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"
D42V12, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 17(10Q23.33) MUTATED       1                         0    29
  DEL PEAK 17(10Q23.33) WILD-TYPE     2                         7   129
D42V13, multiclass
                           clus
vv                          DEL PEAK 17(10Q23.33) MUTATED
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             0
  WHITE                                                29
                           clus
vv                          DEL PEAK 17(10Q23.33) WILD-TYPE
  ASIAN                                                   2
  BLACK OR AFRICAN AMERICAN                               7
  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"
D42V14, binary
                                 cls
clus                                0   1
  DEL PEAK 17(10Q23.33) MUTATED     1  23
  DEL PEAK 17(10Q23.33) WILD-TYPE   2 112
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(10Q23.33) MUTATED      1   23
  DEL PEAK 17(10Q23.33) WILD-TYPE    2  112
                        clus
vv                       DEL PEAK 17(10Q23.33) MUTATED
  HISPANIC OR LATINO                                 1
  NOT HISPANIC OR LATINO                            23
                        clus
vv                       DEL PEAK 17(10Q23.33) WILD-TYPE
  HISPANIC OR LATINO                                   2
  NOT HISPANIC OR LATINO                             112
[1] 2 2
[1] FALSE

Clustering(43) Variable = DEL PEAK 18(11P15.4) MUTATION ANALYSIS
D43V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 18(11P15.4) MUTATED   11 16
  DEL PEAK 18(11P15.4) WILD-TYPE 68 76
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                            27                            144 
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                            16                             76 
$`DEL PEAK 18(11P15.4) MUTATED`
TCGA-2J-AABU TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9IL TCGA-3A-A9IS TCGA-3A-A9IZ 
        9.11         9.60        45.47        84.10        30.64        10.13 
TCGA-F2-A44H TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ2 
       19.27        24.07        15.95        34.82        23.54         5.03 
TCGA-FZ-5920 TCGA-FZ-5924 TCGA-HZ-7918 TCGA-HZ-A4BH TCGA-IB-7645 TCGA-IB-7652 
        2.01        15.78         0.92         6.38        49.38        23.80 
TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7889 TCGA-IB-8127 TCGA-IB-A7LX 
       41.33         4.04         3.62        15.81        17.16         8.22 
TCGA-LB-A7SX TCGA-S4-A8RO TCGA-S4-A8RP 
       12.92        17.26        23.08 

$`DEL PEAK 18(11P15.4) WILD-TYPE`
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        22.26        31.86        15.91        14.47 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE 
       11.84        14.40        10.49        21.44         4.70        22.49 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB 
        3.39        12.95        53.00        23.61        20.84         7.36 
TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
       24.26        28.73        60.95        68.52        63.85        50.70 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       15.06        31.79        34.09        12.39        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A7TX 
       10.98         9.70        19.46         7.10         7.66         3.12 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ 
       17.00         5.88        14.76        12.43        11.61        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FB-AAQ6 
        7.50        12.53        15.55         4.04         1.02         8.02 
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-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       13.84        22.06        21.73        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.26        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 
        0.69         3.95         9.83        12.43        14.93        17.92 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BK TCGA-HZ-A77O 
        4.96        21.70        16.14        10.13        21.60         5.26 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7646 TCGA-IB-7647 
       10.85         1.08         0.23        12.95         4.77        21.90 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7654 TCGA-IB-7888 TCGA-IB-7890 TCGA-IB-7891 
       15.35        19.82        15.65        43.79        19.66        21.30 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
        3.85        15.98         2.47        12.00        15.85         7.20 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM 
       15.12        20.88        21.90         1.35        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-US-A774 TCGA-US-A776 
       15.32         9.40         0.30        21.24        22.85        27.75 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        13.32        11.51        12.76        66.28         0.69 

  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                          0.92                           0.13 
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                         84.10                          75.12 
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                        15.950                         13.825 
[1] "0.9 - 84.1 (15.9)" "0.1 - 75.1 (13.8)"
[1] "hr=" "1.1"
D43V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 18(11P15.4) MUTATED         1        0        1         1        24
  DEL PEAK 18(11P15.4) WILD-TYPE       0        6       12        25        93
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 18(11P15.4) MUTATED           0        0
  DEL PEAK 18(11P15.4) WILD-TYPE         5        4
D43V3, multiclass
           clus
vv          DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             0                              6
  STAGE IB                             1                             12
  STAGE IIA                            1                             25
  STAGE IIB                           24                             93
  STAGE III                            0                              5
  STAGE IV                             0                              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(11P15.4) MUTATED     1   3  23   0
  DEL PEAK 18(11P15.4) WILD-TYPE   7  18 116   4
D43V4, multiclass
    clus
vv   DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  T1                            1                              7
  T2                            3                             18
  T3                           23                            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 18(11P15.4) MUTATED     2  24
  DEL PEAK 18(11P15.4) WILD-TYPE  43 100
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(11P15.4) MUTATED      2   24
  DEL PEAK 18(11P15.4) WILD-TYPE   43  100
   clus
vv  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  0                            2                             43
  1                           24                            100
[1] 2 2
[1] FALSE
D43V6, binary
                                cls
clus                              0  1
  DEL PEAK 18(11P15.4) MUTATED   13  0
  DEL PEAK 18(11P15.4) WILD-TYPE 67  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(11P15.4) MUTATED     13    0
  DEL PEAK 18(11P15.4) WILD-TYPE   67    4
   clus
vv  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  0                           13                             67
  1                            0                              4
[1] 2 2
[1] FALSE
D43V7, binary
                                cls
clus                              0  1
  DEL PEAK 18(11P15.4) MUTATED   11 16
  DEL PEAK 18(11P15.4) WILD-TYPE 67 79
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(11P15.4) MUTATED     11   16
  DEL PEAK 18(11P15.4) WILD-TYPE   67   79
        clus
vv       DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  FEMALE                           11                             67
  MALE                             16                             79
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 18(11P15.4) MUTATED                                    24
  DEL PEAK 18(11P15.4) WILD-TYPE                                 121
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 18(11P15.4) MUTATED                                       3
  DEL PEAK 18(11P15.4) WILD-TYPE                                    19
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 18(11P15.4) MUTATED                                                  0
  DEL PEAK 18(11P15.4) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 18(11P15.4) MUTATED                                     0
  DEL PEAK 18(11P15.4) WILD-TYPE                                   1
D43V8, multiclass
                                                  clus
vv                                                 DEL PEAK 18(11P15.4) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        24
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK 18(11P15.4) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         121
  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"
D43V9, continuous
D43V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 18(11P15.4) MUTATED   15 10  0  1
  DEL PEAK 18(11P15.4) WILD-TYPE 93 41  2  3
D43V11, multiclass
    clus
vv   DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  R0                           15                             93
  R1                           10                             41
  R2                            0                              2
  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"
D43V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 18(11P15.4) MUTATED       1                         2    23
  DEL PEAK 18(11P15.4) WILD-TYPE     2                         5   135
D43V13, multiclass
                           clus
vv                          DEL PEAK 18(11P15.4) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               23
                           clus
vv                          DEL PEAK 18(11P15.4) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              5
  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"
D43V14, binary
                                cls
clus                               0   1
  DEL PEAK 18(11P15.4) MUTATED     1  20
  DEL PEAK 18(11P15.4) WILD-TYPE   2 115
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(11P15.4) MUTATED      1   20
  DEL PEAK 18(11P15.4) WILD-TYPE    2  115
                        clus
vv                       DEL PEAK 18(11P15.4) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           20
                        clus
vv                       DEL PEAK 18(11P15.4) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                            115
[1] 2 2
[1] FALSE

Clustering(44) Variable = DEL PEAK 19(12P13.1) MUTATION ANALYSIS
D44V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 19(12P13.1) MUTATED   10 15
  DEL PEAK 19(12P13.1) WILD-TYPE 69 77
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                            25                            146 
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                            15                             77 
$`DEL PEAK 19(12P13.1) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABP TCGA-2J-AABU TCGA-2L-AAQE TCGA-2L-AAQJ TCGA-3A-A9IC 
       23.97        11.84         9.11        22.49        12.95        24.26 
TCGA-3A-A9IH TCGA-3A-A9J0 TCGA-F2-6879 TCGA-F2-A8YN TCGA-FB-AAPQ TCGA-FZ-5919 
       28.73        12.39        10.98        17.00        37.15        24.36 
TCGA-FZ-5920 TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-8636 TCGA-HZ-A49I TCGA-HZ-A4BH 
        2.01        21.73        19.50        17.92        10.13         6.38 
TCGA-IB-7886 TCGA-IB-7893 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-AAUU TCGA-LB-A7SX 
        4.04         3.85        15.85        21.90         8.05        12.92 
TCGA-Q3-AA2A 
        3.12 

$`DEL PEAK 19(12P13.1) WILD-TYPE`
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-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR 
       22.72        22.26        31.86        15.91        14.47        14.40 
TCGA-2J-AABT TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQL TCGA-2L-AAQM 
       10.49        21.44         4.70         3.39         9.60        45.47 
TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IJ TCGA-3A-A9IL 
       53.00        23.61        20.84         7.36        60.95        84.10 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV 
       68.52        63.85        50.70        30.64        15.06        31.79 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 
       34.09        10.13        75.12        71.74         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A545 
        7.10         7.66        19.27         3.12         5.88        24.07 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAPU 
       14.76        12.43        11.61        15.95         7.50        12.53 
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-FB-AAQ6 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 
        8.02         5.10        36.20        20.35        15.78        17.79 
TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7922 
       12.89        13.84        22.06         0.92         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.26        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-8638 
        0.69         3.95         9.83        12.43        14.93         4.96 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q 
       21.70        16.14        21.60         5.26        10.85         1.08 
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-7654 TCGA-IB-7885 TCGA-IB-7887 TCGA-IB-7888 
       19.82        23.80        15.65        41.33         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        21.30        15.98         2.47        17.16 
TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-A7LX 
       12.00         7.20        15.12        20.88         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-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP 
       15.32         9.40         0.30        21.24        17.26        23.08 
TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J 
       22.85        27.75        16.80        14.14         0.39        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY 
       13.81        12.99        12.03        13.32        11.51        12.76 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28         0.69 

  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                          2.01                           0.13 
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                         37.15                          84.10 
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                        12.950                         14.285 
[1] "2.0 - 37.1 (12.9)" "0.1 - 84.1 (14.3)"
[1] "hr=" "1.2"
D44V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 19(12P13.1) MUTATED         0        1        1         3        18
  DEL PEAK 19(12P13.1) WILD-TYPE       1        5       12        23        99
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 19(12P13.1) MUTATED           1        1
  DEL PEAK 19(12P13.1) WILD-TYPE         4        3
D44V3, multiclass
           clus
vv          DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              5
  STAGE IB                             1                             12
  STAGE IIA                            3                             23
  STAGE IIB                           18                             99
  STAGE III                            1                              4
  STAGE IV                             1                              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 19(12P13.1) MUTATED     1   1  22   1
  DEL PEAK 19(12P13.1) WILD-TYPE   7  20 117   3
D44V4, multiclass
    clus
vv   DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  T1                            1                              7
  T2                            1                             20
  T3                           22                            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"
D44V5, binary
                                cls
clus                               0   1
  DEL PEAK 19(12P13.1) MUTATED     6  19
  DEL PEAK 19(12P13.1) WILD-TYPE  39 105
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(12P13.1) MUTATED      6   19
  DEL PEAK 19(12P13.1) WILD-TYPE   39  105
   clus
vv  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  0                            6                             39
  1                           19                            105
[1] 2 2
[1] FALSE
D44V6, binary
                                cls
clus                              0  1
  DEL PEAK 19(12P13.1) MUTATED   13  1
  DEL PEAK 19(12P13.1) WILD-TYPE 67  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(12P13.1) MUTATED     13    1
  DEL PEAK 19(12P13.1) WILD-TYPE   67    3
   clus
vv  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  0                           13                             67
  1                            1                              3
[1] 2 2
[1] FALSE
D44V7, binary
                                cls
clus                              0  1
  DEL PEAK 19(12P13.1) MUTATED    9 16
  DEL PEAK 19(12P13.1) WILD-TYPE 69 79
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(12P13.1) MUTATED      9   16
  DEL PEAK 19(12P13.1) WILD-TYPE   69   79
        clus
vv       DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  FEMALE                            9                             69
  MALE                             16                             79
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 19(12P13.1) MUTATED                                    21
  DEL PEAK 19(12P13.1) WILD-TYPE                                 124
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 19(12P13.1) MUTATED                                       3
  DEL PEAK 19(12P13.1) WILD-TYPE                                    19
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 19(12P13.1) MUTATED                                                  0
  DEL PEAK 19(12P13.1) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 19(12P13.1) MUTATED                                     1
  DEL PEAK 19(12P13.1) WILD-TYPE                                   0
D44V8, multiclass
                                                  clus
vv                                                 DEL PEAK 19(12P13.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        21
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 19(12P13.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         124
  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"
D44V9, continuous
D44V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 19(12P13.1) MUTATED   12 10  0  2
  DEL PEAK 19(12P13.1) WILD-TYPE 96 41  2  2
D44V11, multiclass
    clus
vv   DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  R0                           12                             96
  R1                           10                             41
  R2                            0                              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"
D44V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 19(12P13.1) MUTATED       0                         2    23
  DEL PEAK 19(12P13.1) WILD-TYPE     3                         5   135
D44V13, multiclass
                           clus
vv                          DEL PEAK 19(12P13.1) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               23
                           clus
vv                          DEL PEAK 19(12P13.1) WILD-TYPE
  ASIAN                                                  3
  BLACK OR AFRICAN AMERICAN                              5
  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"
D44V14, binary
                                cls
clus                               0   1
  DEL PEAK 19(12P13.1) MUTATED     0  17
  DEL PEAK 19(12P13.1) WILD-TYPE   3 118
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(12P13.1) MUTATED      0   17
  DEL PEAK 19(12P13.1) WILD-TYPE    3  118
                        clus
vv                       DEL PEAK 19(12P13.1) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           17
                        clus
vv                       DEL PEAK 19(12P13.1) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            118
[1] 2 2
[1] FALSE

Clustering(45) Variable = DEL PEAK 20(12Q12) MUTATION ANALYSIS
D45V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 20(12Q12) MUTATED    7 15
  DEL PEAK 20(12Q12) WILD-TYPE 72 77
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                          22                          149 
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                          15                           77 
$`DEL PEAK 20(12Q12) MUTATED`
TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABU TCGA-2L-AAQE TCGA-3A-A9IC TCGA-3A-A9J0 
       22.26        31.86         9.11        22.49        24.26        12.39 
TCGA-F2-6879 TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-AAQ2 TCGA-FZ-5924 TCGA-H6-8124 
       10.98        17.00        24.07         5.03        15.78        12.89 
TCGA-HZ-8636 TCGA-HZ-A77O TCGA-IB-7654 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7893 
       17.92         5.26        15.65         4.04         3.62         3.85 
TCGA-IB-AAUN TCGA-IB-AAUU TCGA-LB-A7SX TCGA-YH-A8SY 
        4.73         8.05        12.92        12.76 

$`DEL PEAK 20(12Q12) WILD-TYPE`
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-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR 
       22.22        22.72        15.91        14.47        11.84        14.40 
TCGA-2J-AABT TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL 
       10.49        21.44         4.70         3.39        12.95         9.60 
TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH 
       45.47        53.00        23.61        20.84         7.36        28.73 
TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       60.95        84.10        68.52        63.85        50.70        30.64 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ 
       15.06        31.79        34.09        10.13        75.12        71.74 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX 
        9.70        19.46         7.10         7.66        19.27         3.12 
TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ 
        5.88        14.76        12.43        11.61        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-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        1.02         8.02        24.36         2.01         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 
       20.35        17.79        13.84        22.06        21.73         0.92 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
       19.50         7.76         0.13         0.26        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         0.69         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-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 
        6.38        21.60        10.85         1.08         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
       49.38         4.77        21.90        15.35        19.82        23.80 
TCGA-IB-7885 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7897 
       41.33        43.79        15.81        19.66        21.30        15.98 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS 
        2.47        17.16        12.00        15.85         7.20        15.12 
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-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-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-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 
        0.30        21.24        17.26        23.08        22.85        27.75 
TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       16.80        14.14         0.39        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        13.32        11.51        66.28         0.69 

  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                        3.62                         0.13 
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                       31.86                        84.10 
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                      12.825                       14.470 
[1] "3.6 - 31.9 (12.8)" "0.1 - 84.1 (14.5)"
[1] "hr=" "1.6"
D45V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 20(12Q12) MUTATED         0        0        1         4        15
  DEL PEAK 20(12Q12) WILD-TYPE       1        6       12        22       102
                              vv
clus                           STAGE III STAGE IV
  DEL PEAK 20(12Q12) MUTATED           1        1
  DEL PEAK 20(12Q12) WILD-TYPE         4        3
D45V3, multiclass
           clus
vv          DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  STAGE I                            0                            1
  STAGE IA                           0                            6
  STAGE IB                           1                           12
  STAGE IIA                          4                           22
  STAGE IIB                         15                          102
  STAGE III                          1                            4
  STAGE IV                           1                            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 20(12Q12) MUTATED     0   3  19   0
  DEL PEAK 20(12Q12) WILD-TYPE   8  18 120   4
D45V4, multiclass
    clus
vv   DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  T1                          0                            8
  T2                          3                           18
  T3                         19                          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"
D45V5, binary
                              cls
clus                             0   1
  DEL PEAK 20(12Q12) MUTATED     6  16
  DEL PEAK 20(12Q12) WILD-TYPE  39 108
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 20(12Q12) MUTATED      6   16
  DEL PEAK 20(12Q12) WILD-TYPE   39  108
   clus
vv  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  0                          6                           39
  1                         16                          108
[1] 2 2
[1] FALSE
D45V6, binary
                              cls
clus                            0  1
  DEL PEAK 20(12Q12) MUTATED   15  1
  DEL PEAK 20(12Q12) WILD-TYPE 65  3
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 20(12Q12) MUTATED     15    1
  DEL PEAK 20(12Q12) WILD-TYPE   65    3
   clus
vv  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  0                         15                           65
  1                          1                            3
[1] 2 2
[1] FALSE
D45V7, binary
                              cls
clus                            0  1
  DEL PEAK 20(12Q12) MUTATED   11 11
  DEL PEAK 20(12Q12) WILD-TYPE 67 84
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 20(12Q12) MUTATED     11   11
  DEL PEAK 20(12Q12) WILD-TYPE   67   84
        clus
vv       DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  FEMALE                         11                           67
  MALE                           11                           84
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 20(12Q12) MUTATED                                    18
  DEL PEAK 20(12Q12) WILD-TYPE                                 127
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 20(12Q12) MUTATED                                       3
  DEL PEAK 20(12Q12) WILD-TYPE                                    19
                              vv
clus                           PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 20(12Q12) MUTATED                                                  0
  DEL PEAK 20(12Q12) WILD-TYPE                                                4
                              vv
clus                           PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 20(12Q12) MUTATED                                     0
  DEL PEAK 20(12Q12) WILD-TYPE                                   1
D45V8, multiclass
                                                  clus
vv                                                 DEL PEAK 20(12Q12) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      18
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                          0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                       0
                                                  clus
vv                                                 DEL PEAK 20(12Q12) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       127
  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"
D45V9, continuous
D45V10, continuous
                              vv
clus                           R0 R1 R2 RX
  DEL PEAK 20(12Q12) MUTATED   13  7  0  0
  DEL PEAK 20(12Q12) WILD-TYPE 95 44  2  4
D45V11, multiclass
    clus
vv   DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  R0                         13                           95
  R1                          7                           44
  R2                          0                            2
  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"
D45V12, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 20(12Q12) MUTATED       0                         1    21
  DEL PEAK 20(12Q12) WILD-TYPE     3                         6   137
D45V13, multiclass
                           clus
vv                          DEL PEAK 20(12Q12) MUTATED
  ASIAN                                              0
  BLACK OR AFRICAN AMERICAN                          1
  WHITE                                             21
                           clus
vv                          DEL PEAK 20(12Q12) WILD-TYPE
  ASIAN                                                3
  BLACK OR AFRICAN AMERICAN                            6
  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"
D45V14, binary
                              cls
clus                             0   1
  DEL PEAK 20(12Q12) MUTATED     0  17
  DEL PEAK 20(12Q12) WILD-TYPE   3 118
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 20(12Q12) MUTATED      0   17
  DEL PEAK 20(12Q12) WILD-TYPE    3  118
                        clus
vv                       DEL PEAK 20(12Q12) MUTATED
  HISPANIC OR LATINO                              0
  NOT HISPANIC OR LATINO                         17
                        clus
vv                       DEL PEAK 20(12Q12) WILD-TYPE
  HISPANIC OR LATINO                                3
  NOT HISPANIC OR LATINO                          118
[1] 2 2
[1] FALSE

Clustering(46) Variable = DEL PEAK 21(12Q21.33) MUTATION ANALYSIS
D46V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 21(12Q21.33) MUTATED   16 24
  DEL PEAK 21(12Q21.33) WILD-TYPE 63 68
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                             40                             131 
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                             24                              68 
$`DEL PEAK 21(12Q21.33) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABU TCGA-2L-AAQE 
       23.97         2.63        22.26        31.86         9.11        22.49 
TCGA-2L-AAQI TCGA-3A-A9I5 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IZ TCGA-3A-A9J0 
        3.39        53.00        24.26        28.73        10.13        12.39 
TCGA-F2-A8YN TCGA-FB-A7DR TCGA-FB-AAPY TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5920 
       17.00        11.61        34.82         4.04         5.03         2.01 
TCGA-FZ-5924 TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7922 TCGA-HZ-8636 TCGA-HZ-A49I 
       15.78        12.89        21.73         0.13        17.92        10.13 
TCGA-HZ-A77O TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7890 
        5.26        23.80        41.33         4.04         3.62        19.66 
TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SS TCGA-IB-A7LX TCGA-IB-AAUN TCGA-IB-AAUU 
        3.85        17.16        15.12         8.22         4.73         8.05 
TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-US-A77G TCGA-YH-A8SY 
       12.92        12.46         0.39        12.76 

$`DEL PEAK 21(12Q21.33) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
        2.17         9.63        20.61        19.96        22.22        22.72 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABV 
       15.91        14.47        11.84        14.40        10.49        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        23.61        20.84 
TCGA-3A-A9IB TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
        7.36        60.95        84.10        68.52        63.85        50.70 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ 
       30.64        15.06        31.79        34.09        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H 
       10.98         9.70        19.46         7.10         7.66        19.27 
TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPP 
        3.12         5.88        24.07        14.76        12.43        15.95 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ3 
       37.15         7.50        12.53        23.54        15.55         1.02 
TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 
        8.02        24.36         5.10        36.20        20.35        17.79 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 
       13.84        22.06         0.92        19.50         7.76         0.26 
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         0.69 
TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G 
        3.95         9.83        12.43        14.93         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 
       16.14         6.38        21.60        10.85         1.08         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-7654 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7897 TCGA-IB-8126 
       15.65        43.79        15.81        21.30        15.98         2.47 
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-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
       15.88         0.26         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-A9Q5 
        7.40         9.44        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-A8RO TCGA-S4-A8RP TCGA-US-A774 
        9.40         0.30        21.24        17.26        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       27.75        16.80        14.14        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        13.32        11.51        66.28         0.69 

  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                           0.13                            0.23 
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                           53.0                            84.1 
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                          12.61                           14.76 
[1] "0.1 - 53.0 (12.6)" "0.2 - 84.1 (14.8)"
[1] "hr=" "1.3"
D46V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 21(12Q21.33) MUTATED         0        2        2         6        28
  DEL PEAK 21(12Q21.33) WILD-TYPE       1        4       11        20        89
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 21(12Q21.33) MUTATED           1        1
  DEL PEAK 21(12Q21.33) WILD-TYPE         4        3
D46V3, multiclass
           clus
vv          DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  STAGE I                               0                               1
  STAGE IA                              2                               4
  STAGE IB                              2                              11
  STAGE IIA                             6                              20
  STAGE IIB                            28                              89
  STAGE III                             1                               4
  STAGE IV                              1                               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 21(12Q21.33) MUTATED     2   5  33   0
  DEL PEAK 21(12Q21.33) WILD-TYPE   6  16 106   4
D46V4, multiclass
    clus
vv   DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  T1                             2                               6
  T2                             5                              16
  T3                            33                             106
  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"
D46V5, binary
                                 cls
clus                               0  1
  DEL PEAK 21(12Q21.33) MUTATED   10 29
  DEL PEAK 21(12Q21.33) WILD-TYPE 35 95
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 21(12Q21.33) MUTATED     10   29
  DEL PEAK 21(12Q21.33) WILD-TYPE   35   95
   clus
vv  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  0                            10                              35
  1                            29                              95
[1] 2 2
[1] FALSE
D46V6, binary
                                 cls
clus                               0  1
  DEL PEAK 21(12Q21.33) MUTATED   21  1
  DEL PEAK 21(12Q21.33) WILD-TYPE 59  3
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 21(12Q21.33) MUTATED     21    1
  DEL PEAK 21(12Q21.33) WILD-TYPE   59    3
   clus
vv  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  0                            21                              59
  1                             1                               3
[1] 2 2
[1] FALSE
D46V7, binary
                                 cls
clus                               0  1
  DEL PEAK 21(12Q21.33) MUTATED   16 24
  DEL PEAK 21(12Q21.33) WILD-TYPE 62 71
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 21(12Q21.33) MUTATED     16   24
  DEL PEAK 21(12Q21.33) WILD-TYPE   62   71
        clus
vv       DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  FEMALE                            16                              62
  MALE                              24                              71
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 21(12Q21.33) MUTATED                                    34
  DEL PEAK 21(12Q21.33) WILD-TYPE                                 111
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 21(12Q21.33) MUTATED                                       4
  DEL PEAK 21(12Q21.33) WILD-TYPE                                    18
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 21(12Q21.33) MUTATED                                                  1
  DEL PEAK 21(12Q21.33) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 21(12Q21.33) MUTATED                                     0
  DEL PEAK 21(12Q21.33) WILD-TYPE                                   1
D46V8, multiclass
                                                  clus
vv                                                 DEL PEAK 21(12Q21.33) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         34
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 DEL PEAK 21(12Q21.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          111
  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"
D46V9, continuous
D46V10, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 21(12Q21.33) MUTATED   24 14  0  1
  DEL PEAK 21(12Q21.33) WILD-TYPE 84 37  2  3
D46V11, multiclass
    clus
vv   DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  R0                            24                              84
  R1                            14                              37
  R2                             0                               2
  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"
D46V12, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 21(12Q21.33) MUTATED       2                         3    34
  DEL PEAK 21(12Q21.33) WILD-TYPE     1                         4   124
D46V13, multiclass
                           clus
vv                          DEL PEAK 21(12Q21.33) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             3
  WHITE                                                34
                           clus
vv                          DEL PEAK 21(12Q21.33) WILD-TYPE
  ASIAN                                                   1
  BLACK OR AFRICAN AMERICAN                               4
  WHITE                                                 124
[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"
D46V14, binary
                                 cls
clus                                0   1
  DEL PEAK 21(12Q21.33) MUTATED     1  31
  DEL PEAK 21(12Q21.33) WILD-TYPE   2 104
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 21(12Q21.33) MUTATED      1   31
  DEL PEAK 21(12Q21.33) WILD-TYPE    2  104
                        clus
vv                       DEL PEAK 21(12Q21.33) MUTATED
  HISPANIC OR LATINO                                 1
  NOT HISPANIC OR LATINO                            31
                        clus
vv                       DEL PEAK 21(12Q21.33) WILD-TYPE
  HISPANIC OR LATINO                                   2
  NOT HISPANIC OR LATINO                             104
[1] 2 2
[1] FALSE

Clustering(47) Variable = DEL PEAK 22(12Q24.33) MUTATION ANALYSIS
D47V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 22(12Q24.33) MUTATED   17 22
  DEL PEAK 22(12Q24.33) WILD-TYPE 62 70
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                             39                             132 
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                             22                              70 
$`DEL PEAK 22(12Q24.33) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABI TCGA-2L-AAQE TCGA-2L-AAQI 
       23.97         2.63        22.26        31.86        22.49         3.39 
TCGA-3A-A9I5 TCGA-3A-A9IC TCGA-3A-A9J0 TCGA-F2-A8YN TCGA-FB-A7DR TCGA-FB-AAPU 
       53.00        24.26        12.39        17.00        11.61        12.53 
TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FZ-5920 TCGA-FZ-5924 
       34.82        23.54         4.04         5.03         2.01        15.78 
TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7922 TCGA-HZ-7926 TCGA-HZ-A49I TCGA-HZ-A77O 
       12.89        21.73         0.13        17.03        10.13         5.26 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7890 TCGA-IB-7893 
       23.80        41.33         4.04         3.62        19.66         3.85 
TCGA-IB-8127 TCGA-IB-A5SS TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUU 
       17.16        15.12         8.22        15.88         4.73         8.05 
TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-YH-A8SY 
       12.92        12.46        12.76 

$`DEL PEAK 22(12Q24.33) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB6 TCGA-2J-AAB9 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
        2.17         9.63        20.61        19.96        22.22        22.72 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU 
       15.91        14.47        11.84        14.40        10.49         9.11 
TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I7 
       21.44         4.70        12.95         9.60        45.47        23.61 
TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN 
       20.84         7.36        28.73        60.95        84.10        68.52 
TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX 
       63.85        50.70        30.64        15.06        31.79        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-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A545 
        7.10         7.66        19.27         3.12         5.88        24.07 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAQ0 
       14.76        12.43        15.95        37.15         7.50        15.55 
TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 
        1.02         8.02        24.36         5.10        36.20        20.35 
TCGA-FZ-5926 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 
       17.79        13.84        22.06         0.92        19.50         7.76 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
        0.26        27.62        20.19        23.21        12.03         0.69 
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-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q 
       21.70        16.14         6.38        21.60        10.85         1.08 
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-7654 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7891 TCGA-IB-7897 
       19.82        15.65        43.79        15.81        21.30        15.98 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A6UF 
        2.47        12.00        15.85         7.20        20.88        21.90 
TCGA-IB-A6UG TCGA-IB-AAUM TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
        1.35         0.26         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-A9Q5 
        7.40         9.44        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-A8RO TCGA-S4-A8RP TCGA-US-A774 
        9.40         0.30        21.24        17.26        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG 
       27.75        16.80        14.14         0.39        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.99        12.03        13.32        11.51        66.28         0.69 

  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                           0.13                            0.23 
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                           53.0                            84.1 
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                         12.890                          14.435 
[1] "0.1 - 53.0 (12.9)" "0.2 - 84.1 (14.4)"
[1] "hr=" "1.2"
D47V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 22(12Q24.33) MUTATED         0        1        2         7        28
  DEL PEAK 22(12Q24.33) WILD-TYPE       1        5       11        19        89
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 22(12Q24.33) MUTATED           1        0
  DEL PEAK 22(12Q24.33) WILD-TYPE         4        4
D47V3, multiclass
           clus
vv          DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  STAGE I                               0                               1
  STAGE IA                              1                               5
  STAGE IB                              2                              11
  STAGE IIA                             7                              19
  STAGE IIB                            28                              89
  STAGE III                             1                               4
  STAGE IV                              0                               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 22(12Q24.33) MUTATED     1   6  32   0
  DEL PEAK 22(12Q24.33) WILD-TYPE   7  15 107   4
D47V4, multiclass
    clus
vv   DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  T1                             1                               7
  T2                             6                              15
  T3                            32                             107
  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"
D47V5, binary
                                 cls
clus                               0  1
  DEL PEAK 22(12Q24.33) MUTATED    9 29
  DEL PEAK 22(12Q24.33) WILD-TYPE 36 95
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 22(12Q24.33) MUTATED      9   29
  DEL PEAK 22(12Q24.33) WILD-TYPE   36   95
   clus
vv  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  0                             9                              36
  1                            29                              95
[1] 2 2
[1] FALSE
D47V6, binary
                                 cls
clus                               0  1
  DEL PEAK 22(12Q24.33) MUTATED   20  0
  DEL PEAK 22(12Q24.33) WILD-TYPE 60  4
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 22(12Q24.33) MUTATED     20    0
  DEL PEAK 22(12Q24.33) WILD-TYPE   60    4
   clus
vv  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  0                            20                              60
  1                             0                               4
[1] 2 2
[1] FALSE
D47V7, binary
                                 cls
clus                               0  1
  DEL PEAK 22(12Q24.33) MUTATED   15 24
  DEL PEAK 22(12Q24.33) WILD-TYPE 63 71
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 22(12Q24.33) MUTATED     15   24
  DEL PEAK 22(12Q24.33) WILD-TYPE   63   71
        clus
vv       DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  FEMALE                            15                              63
  MALE                              24                              71
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 22(12Q24.33) MUTATED                                    33
  DEL PEAK 22(12Q24.33) WILD-TYPE                                 112
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 22(12Q24.33) MUTATED                                       4
  DEL PEAK 22(12Q24.33) WILD-TYPE                                    18
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 22(12Q24.33) MUTATED                                                  1
  DEL PEAK 22(12Q24.33) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 22(12Q24.33) MUTATED                                     0
  DEL PEAK 22(12Q24.33) WILD-TYPE                                   1
D47V8, multiclass
                                                  clus
vv                                                 DEL PEAK 22(12Q24.33) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         33
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 DEL PEAK 22(12Q24.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          112
  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"
D47V9, continuous
D47V10, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 22(12Q24.33) MUTATED   23 13  0  2
  DEL PEAK 22(12Q24.33) WILD-TYPE 85 38  2  2
D47V11, multiclass
    clus
vv   DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  R0                            23                              85
  R1                            13                              38
  R2                             0                               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"
D47V12, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 22(12Q24.33) MUTATED       3                         4    31
  DEL PEAK 22(12Q24.33) WILD-TYPE     0                         3   127
D47V13, multiclass
                           clus
vv                          DEL PEAK 22(12Q24.33) MUTATED
  ASIAN                                                 3
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                31
                           clus
vv                          DEL PEAK 22(12Q24.33) WILD-TYPE
  ASIAN                                                   0
  BLACK OR AFRICAN AMERICAN                               3
  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"
D47V14, binary
                                 cls
clus                                0   1
  DEL PEAK 22(12Q24.33) MUTATED     0  32
  DEL PEAK 22(12Q24.33) WILD-TYPE   3 103
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 22(12Q24.33) MUTATED      0   32
  DEL PEAK 22(12Q24.33) WILD-TYPE    3  103
                        clus
vv                       DEL PEAK 22(12Q24.33) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            32
                        clus
vv                       DEL PEAK 22(12Q24.33) WILD-TYPE
  HISPANIC OR LATINO                                   3
  NOT HISPANIC OR LATINO                             103
[1] 2 2
[1] FALSE

Clustering(48) Variable = DEL PEAK 23(13Q14.2) MUTATION ANALYSIS
D48V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 23(13Q14.2) MUTATED    7 13
  DEL PEAK 23(13Q14.2) WILD-TYPE 72 79
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                            20                            151 
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                            13                             79 
$`DEL PEAK 23(13Q14.2) MUTATED`
TCGA-2J-AABP TCGA-2J-AABU TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IR 
       11.84         9.11        20.84         7.36        24.26        50.70 
TCGA-3A-A9IZ TCGA-FB-AAPP TCGA-FZ-5920 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-8636 
       10.13        15.95         2.01        21.73         0.92        17.92 
TCGA-HZ-A4BK TCGA-IB-7646 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SS 
       21.60         4.77        41.33         4.04        17.16        15.12 
TCGA-IB-A7M4 TCGA-L1-A7W4 
       15.88         9.14 

$`DEL PEAK 23(13Q14.2) WILD-TYPE`
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        22.26        31.86        15.91        14.47 
TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       14.40        10.49        21.44         4.70        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9IH 
       12.95         9.60        45.47        53.00        23.61        28.73 
TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IS TCGA-3A-A9IU 
       60.95        84.10        68.52        63.85        30.64        15.06 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 
       31.79        34.09        12.39        75.12        71.74        10.98 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX 
        9.70        19.46         7.10         7.66        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        14.76        12.43        11.61 
TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 
       37.15         7.50        12.53        34.82        23.54        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 
        4.04         5.03         1.02         8.02        24.36         5.10 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N 
       36.20        20.35        15.78        17.79        12.89        13.84 
TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
       22.06        19.50         7.76         0.13         0.26        27.62 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 
       20.19        17.03        23.21        12.03         0.69         3.95 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
        9.83        12.43        14.93         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 
       10.13         6.38         5.26        10.85         1.08         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        23.80 
TCGA-IB-7654 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 
       15.65         3.62        43.79        15.81        19.66        21.30 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
        3.85        15.98         2.47        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-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
        8.05        13.28         7.56        12.92        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-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 
        9.40         0.30        21.24        17.26        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG 
       27.75        16.80        14.14         0.39        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH 
       12.99        12.03        13.32        11.51        12.76        66.28 
TCGA-Z5-AAPL 
        0.69 

  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                          0.92                           0.13 
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                          50.7                           84.1 
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                         15.50                          14.14 
[1] "0.9 - 50.7 (15.5)" "0.1 - 84.1 (14.1)"
[1] "hr=" "1.3"
D48V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 23(13Q14.2) MUTATED         0        0        1         1        17
  DEL PEAK 23(13Q14.2) WILD-TYPE       1        6       12        25       100
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 23(13Q14.2) MUTATED           0        1
  DEL PEAK 23(13Q14.2) WILD-TYPE         5        3
D48V3, multiclass
           clus
vv          DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              6
  STAGE IB                             1                             12
  STAGE IIA                            1                             25
  STAGE IIB                           17                            100
  STAGE III                            0                              5
  STAGE IV                             1                              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(13Q14.2) MUTATED     0   1  19   0
  DEL PEAK 23(13Q14.2) WILD-TYPE   8  20 120   4
D48V4, multiclass
    clus
vv   DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  T1                            0                              8
  T2                            1                             20
  T3                           19                            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"
D48V5, binary
                                cls
clus                               0   1
  DEL PEAK 23(13Q14.2) MUTATED     3  17
  DEL PEAK 23(13Q14.2) WILD-TYPE  42 107
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(13Q14.2) MUTATED      3   17
  DEL PEAK 23(13Q14.2) WILD-TYPE   42  107
   clus
vv  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  0                            3                             42
  1                           17                            107
[1] 2 2
[1] FALSE
D48V6, binary
                                cls
clus                              0  1
  DEL PEAK 23(13Q14.2) MUTATED   10  1
  DEL PEAK 23(13Q14.2) WILD-TYPE 70  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(13Q14.2) MUTATED     10    1
  DEL PEAK 23(13Q14.2) WILD-TYPE   70    3
   clus
vv  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  0                           10                             70
  1                            1                              3
[1] 2 2
[1] FALSE
D48V7, binary
                                cls
clus                              0  1
  DEL PEAK 23(13Q14.2) MUTATED    8 12
  DEL PEAK 23(13Q14.2) WILD-TYPE 70 83
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(13Q14.2) MUTATED      8   12
  DEL PEAK 23(13Q14.2) WILD-TYPE   70   83
        clus
vv       DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  FEMALE                            8                             70
  MALE                             12                             83
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 23(13Q14.2) MUTATED                                    16
  DEL PEAK 23(13Q14.2) WILD-TYPE                                 129
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 23(13Q14.2) MUTATED                                       3
  DEL PEAK 23(13Q14.2) WILD-TYPE                                    19
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 23(13Q14.2) MUTATED                                                  0
  DEL PEAK 23(13Q14.2) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 23(13Q14.2) MUTATED                                     1
  DEL PEAK 23(13Q14.2) WILD-TYPE                                   0
D48V8, multiclass
                                                  clus
vv                                                 DEL PEAK 23(13Q14.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        16
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 23(13Q14.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         129
  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"
D48V9, continuous
D48V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 23(13Q14.2) MUTATED   12  6  1  1
  DEL PEAK 23(13Q14.2) WILD-TYPE 96 45  1  3
D48V11, multiclass
    clus
vv   DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  R0                           12                             96
  R1                            6                             45
  R2                            1                              1
  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"
D48V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 23(13Q14.2) MUTATED       0                         1    19
  DEL PEAK 23(13Q14.2) WILD-TYPE     3                         6   139
D48V13, multiclass
                           clus
vv                          DEL PEAK 23(13Q14.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               19
                           clus
vv                          DEL PEAK 23(13Q14.2) WILD-TYPE
  ASIAN                                                  3
  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"
D48V14, binary
                                cls
clus                               0   1
  DEL PEAK 23(13Q14.2) MUTATED     1  17
  DEL PEAK 23(13Q14.2) WILD-TYPE   2 118
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(13Q14.2) MUTATED      1   17
  DEL PEAK 23(13Q14.2) WILD-TYPE    2  118
                        clus
vv                       DEL PEAK 23(13Q14.2) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           17
                        clus
vv                       DEL PEAK 23(13Q14.2) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                            118
[1] 2 2
[1] FALSE

Clustering(49) Variable = DEL PEAK 24(14Q11.2) MUTATION ANALYSIS
D49V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 24(14Q11.2) MUTATED    7 10
  DEL PEAK 24(14Q11.2) WILD-TYPE 72 82
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                            17                            154 
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                            10                             82 
$`DEL PEAK 24(14Q11.2) MUTATED`
TCGA-2J-AABA TCGA-2J-AABI TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IU TCGA-3A-A9J0 
       19.96        31.86        24.26        28.73        15.06        12.39 
TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAQ0 TCGA-IB-7647 TCGA-IB-AAUN 
       14.76        11.61        37.15        15.55        21.90         4.73 
TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-US-A77G TCGA-XD-AAUL TCGA-YH-A8SY 
       12.92        12.46         0.39        13.32        12.76 

$`DEL PEAK 24(14Q11.2) WILD-TYPE`
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-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR 
       22.72        22.26        15.91        14.47        11.84        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI 
       10.49         9.11        21.44         4.70        22.49         3.39 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 
       12.95         9.60        45.47        53.00        23.61        20.84 
TCGA-3A-A9IB TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
        7.36        60.95        84.10        68.52        63.85        50.70 
TCGA-3A-A9IS TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3E-AAAY TCGA-3E-AAAZ 
       30.64        31.79        34.09        10.13        75.12        71.74 
TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H 
       10.98         9.70        19.46         7.10         7.66        19.27 
TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-AAPP 
        3.12        17.00         5.88        24.07        12.43        15.95 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FB-AAQ2 
        7.50        12.53        34.82        23.54         4.04         5.03 
TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 
        1.02         8.02        24.36         2.01         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
       20.35        15.78        17.79        12.89        13.84        22.06 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       21.73         0.92        19.50         7.76         0.13         0.26 
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         0.69 
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-A4BK TCGA-HZ-A77O 
       21.70        16.14        10.13         6.38        21.60         5.26 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 
       10.85         1.08         0.23        12.95        49.38         4.77 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 
       15.35        19.82        23.80        15.65        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        21.30         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98         2.47        17.16        12.00        15.85         7.20 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 
       15.12        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-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-A8RO TCGA-S4-A8RP TCGA-US-A774 
        9.40         0.30        21.24        17.26        23.08        22.85 
TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH 
       27.75        16.80        14.14        18.67        13.81        12.99 
TCGA-XD-AAUI TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.03        11.51        66.28         0.69 

  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                          0.39                           0.13 
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                         37.15                          84.10 
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                        14.760                         14.155 
[1] "0.4 - 37.1 (14.8)" "0.1 - 84.1 (14.2)"
[1] "hr=" "1"  
D49V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 24(14Q11.2) MUTATED         0        1        2         5         8
  DEL PEAK 24(14Q11.2) WILD-TYPE       1        5       11        21       109
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 24(14Q11.2) MUTATED           1        0
  DEL PEAK 24(14Q11.2) WILD-TYPE         4        4
D49V3, multiclass
           clus
vv          DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              5
  STAGE IB                             2                             11
  STAGE IIA                            5                             21
  STAGE IIB                            8                            109
  STAGE III                            1                              4
  STAGE IV                             0                              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 24(14Q11.2) MUTATED     1   2  14   0
  DEL PEAK 24(14Q11.2) WILD-TYPE   7  19 125   4
D49V4, multiclass
    clus
vv   DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  T1                            1                              7
  T2                            2                             19
  T3                           14                            125
  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 24(14Q11.2) MUTATED     7   9
  DEL PEAK 24(14Q11.2) WILD-TYPE  38 115
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(14Q11.2) MUTATED      7    9
  DEL PEAK 24(14Q11.2) WILD-TYPE   38  115
   clus
vv  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  0                            7                             38
  1                            9                            115
[1] 2 2
[1] FALSE
D49V6, binary
                                cls
clus                              0  1
  DEL PEAK 24(14Q11.2) MUTATED    6  0
  DEL PEAK 24(14Q11.2) WILD-TYPE 74  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(14Q11.2) MUTATED      6    0
  DEL PEAK 24(14Q11.2) WILD-TYPE   74    4
   clus
vv  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  0                            6                             74
  1                            0                              4
[1] 2 2
[1] FALSE
D49V7, binary
                                cls
clus                              0  1
  DEL PEAK 24(14Q11.2) MUTATED    7 10
  DEL PEAK 24(14Q11.2) WILD-TYPE 71 85
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(14Q11.2) MUTATED      7   10
  DEL PEAK 24(14Q11.2) WILD-TYPE   71   85
        clus
vv       DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  FEMALE                            7                             71
  MALE                             10                             85
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 24(14Q11.2) MUTATED                                    14
  DEL PEAK 24(14Q11.2) WILD-TYPE                                 131
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 24(14Q11.2) MUTATED                                       1
  DEL PEAK 24(14Q11.2) WILD-TYPE                                    21
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 24(14Q11.2) MUTATED                                                  1
  DEL PEAK 24(14Q11.2) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 24(14Q11.2) MUTATED                                     0
  DEL PEAK 24(14Q11.2) WILD-TYPE                                   1
D49V8, multiclass
                                                  clus
vv                                                 DEL PEAK 24(14Q11.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        14
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK 24(14Q11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         131
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        21
  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"
D49V9, continuous
D49V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 24(14Q11.2) MUTATED   12  4  0  0
  DEL PEAK 24(14Q11.2) WILD-TYPE 96 47  2  4
D49V11, multiclass
    clus
vv   DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  R0                           12                             96
  R1                            4                             47
  R2                            0                              2
  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"
D49V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 24(14Q11.2) MUTATED       1                         2    14
  DEL PEAK 24(14Q11.2) WILD-TYPE     2                         5   144
D49V13, multiclass
                           clus
vv                          DEL PEAK 24(14Q11.2) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               14
                           clus
vv                          DEL PEAK 24(14Q11.2) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              5
  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"
D49V14, binary
                                cls
clus                               0   1
  DEL PEAK 24(14Q11.2) MUTATED     0  15
  DEL PEAK 24(14Q11.2) WILD-TYPE   3 120
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(14Q11.2) MUTATED      0   15
  DEL PEAK 24(14Q11.2) WILD-TYPE    3  120
                        clus
vv                       DEL PEAK 24(14Q11.2) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           15
                        clus
vv                       DEL PEAK 24(14Q11.2) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            120
[1] 2 2
[1] FALSE

Clustering(50) Variable = DEL PEAK 25(15Q15.1) MUTATION ANALYSIS
D50V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 25(15Q15.1) MUTATED   14 18
  DEL PEAK 25(15Q15.1) WILD-TYPE 65 74
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                            32                            139 
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                            18                             74 
$`DEL PEAK 25(15Q15.1) MUTATED`
TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABP TCGA-2J-AABT TCGA-2L-AAQI TCGA-3A-A9IB 
       22.22        22.26        11.84        10.49         3.39         7.36 
TCGA-3A-A9IS TCGA-3E-AAAZ TCGA-FB-A545 TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPZ 
       30.64        71.74        24.07        11.61        15.95        23.54 
TCGA-FB-AAQ0 TCGA-FB-AAQ2 TCGA-FZ-5921 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-8005 
       15.55         5.03         5.10        21.73         0.92         3.95 
TCGA-HZ-A4BK TCGA-IB-7644 TCGA-IB-7654 TCGA-IB-7890 TCGA-IB-7893 TCGA-IB-8127 
       21.60        12.95        15.65        19.66         3.85        17.16 
TCGA-IB-A5SP TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-US-A776 
       15.85         8.22        15.88        12.92        19.20        27.75 
TCGA-XD-AAUI TCGA-YH-A8SY 
       12.03        12.76 

$`DEL PEAK 25(15Q15.1) WILD-TYPE`
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-AABF TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABU 
       22.72        31.86        15.91        14.47        14.40         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-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ 
       53.00        23.61        20.84        24.26        28.73        60.95 
TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV 
       84.10        68.52        63.85        50.70        15.06        31.79 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-F2-6879 TCGA-F2-6880 
       34.09        10.13        12.39        75.12        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
       19.46         7.10         7.66        19.27         3.12        17.00 
TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
        5.88        14.76        12.43        37.15         7.50        12.53 
TCGA-FB-AAPY TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 
       34.82         4.04         1.02         8.02        24.36         2.01 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N 
       36.20        20.35        15.78        17.79        12.89        13.84 
TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
       22.06        19.50         7.76         0.13         0.26        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         0.69         9.83 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
       12.43        14.93        17.92         4.96        21.70        16.14 
TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 
       10.13         6.38         5.26        10.85         1.08         0.23 
TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
       49.38         4.77        21.90        15.35        19.82        23.80 
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        21.30 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST 
       15.98         2.47        12.00         7.20        15.12        20.88 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP 
       21.90         1.35         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-OE-A75W TCGA-PZ-A5RE 
        7.56         9.14        12.46        10.29         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        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G 
       17.26        23.08        22.85        16.80        14.14         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUL TCGA-YB-A89D TCGA-YY-A8LH 
       18.67        13.81        12.99        13.32        11.51        66.28 
TCGA-Z5-AAPL 
        0.69 

  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                          0.92                           0.13 
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                         71.74                          84.10 
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                         15.60                          14.14 
[1] "0.9 - 71.7 (15.6)" "0.1 - 84.1 (14.1)"
[1] "hr=" "1.1"
D50V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 25(15Q15.1) MUTATED         0        0        2         9        19
  DEL PEAK 25(15Q15.1) WILD-TYPE       1        6       11        17        98
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 25(15Q15.1) MUTATED           1        1
  DEL PEAK 25(15Q15.1) WILD-TYPE         4        3
D50V3, multiclass
           clus
vv          DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              6
  STAGE IB                             2                             11
  STAGE IIA                            9                             17
  STAGE IIB                           19                             98
  STAGE III                            1                              4
  STAGE IV                             1                              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 25(15Q15.1) MUTATED     0   4  28   0
  DEL PEAK 25(15Q15.1) WILD-TYPE   8  17 111   4
D50V4, multiclass
    clus
vv   DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  T1                            0                              8
  T2                            4                             17
  T3                           28                            111
  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 25(15Q15.1) MUTATED    10  21
  DEL PEAK 25(15Q15.1) WILD-TYPE  35 103
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(15Q15.1) MUTATED     10   21
  DEL PEAK 25(15Q15.1) WILD-TYPE   35  103
   clus
vv  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  0                           10                             35
  1                           21                            103
[1] 2 2
[1] FALSE
D50V6, binary
                                cls
clus                              0  1
  DEL PEAK 25(15Q15.1) MUTATED   14  1
  DEL PEAK 25(15Q15.1) WILD-TYPE 66  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(15Q15.1) MUTATED     14    1
  DEL PEAK 25(15Q15.1) WILD-TYPE   66    3
   clus
vv  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  0                           14                             66
  1                            1                              3
[1] 2 2
[1] FALSE
D50V7, binary
                                cls
clus                              0  1
  DEL PEAK 25(15Q15.1) MUTATED   11 21
  DEL PEAK 25(15Q15.1) WILD-TYPE 67 74
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(15Q15.1) MUTATED     11   21
  DEL PEAK 25(15Q15.1) WILD-TYPE   67   74
        clus
vv       DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  FEMALE                           11                             67
  MALE                             21                             74
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 25(15Q15.1) MUTATED                                    24
  DEL PEAK 25(15Q15.1) WILD-TYPE                                 121
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 25(15Q15.1) MUTATED                                       4
  DEL PEAK 25(15Q15.1) WILD-TYPE                                    18
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 25(15Q15.1) MUTATED                                                  2
  DEL PEAK 25(15Q15.1) WILD-TYPE                                                2
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 25(15Q15.1) MUTATED                                     1
  DEL PEAK 25(15Q15.1) WILD-TYPE                                   0
D50V8, multiclass
                                                  clus
vv                                                 DEL PEAK 25(15Q15.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        24
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 25(15Q15.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         121
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        18
  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"
D50V9, continuous
D50V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 25(15Q15.1) MUTATED   17 10  0  1
  DEL PEAK 25(15Q15.1) WILD-TYPE 91 41  2  3
D50V11, multiclass
    clus
vv   DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  R0                           17                             91
  R1                           10                             41
  R2                            0                              2
  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"
D50V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 25(15Q15.1) MUTATED       1                         1    27
  DEL PEAK 25(15Q15.1) WILD-TYPE     2                         6   131
D50V13, multiclass
                           clus
vv                          DEL PEAK 25(15Q15.1) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               27
                           clus
vv                          DEL PEAK 25(15Q15.1) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              6
  WHITE                                                131
[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"
D50V14, binary
                                cls
clus                               0   1
  DEL PEAK 25(15Q15.1) MUTATED     1  22
  DEL PEAK 25(15Q15.1) WILD-TYPE   2 113
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(15Q15.1) MUTATED      1   22
  DEL PEAK 25(15Q15.1) WILD-TYPE    2  113
                        clus
vv                       DEL PEAK 25(15Q15.1) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           22
                        clus
vv                       DEL PEAK 25(15Q15.1) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                            113
[1] 2 2
[1] FALSE

Clustering(51) Variable = DEL PEAK 26(16Q23.1) MUTATION ANALYSIS
D51V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 26(16Q23.1) MUTATED    6 10
  DEL PEAK 26(16Q23.1) WILD-TYPE 73 82
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                            16                            155 
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                            10                             82 
$`DEL PEAK 26(16Q23.1) MUTATED`
TCGA-2J-AABA TCGA-2J-AABP TCGA-2L-AAQE TCGA-2L-AAQL TCGA-2L-AAQM TCGA-3A-A9IC 
       19.96        11.84        22.49         9.60        45.47        24.26 
TCGA-3A-A9IL TCGA-3A-A9IS TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAQ2 TCGA-FZ-5923 
       84.10        30.64        11.61        15.95         5.03        20.35 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-A8P1 TCGA-IB-AAUQ 
       21.73         0.92         0.23         6.02 

$`DEL PEAK 26(16Q23.1) WILD-TYPE`
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-AABO TCGA-2J-AABR 
       22.72        22.26        31.86        15.91        14.47        14.40 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ 
       10.49         9.11        21.44         4.70         3.39        12.95 
TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH TCGA-3A-A9IJ 
       53.00        23.61        20.84         7.36        28.73        60.95 
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        31.79        34.09 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       10.13        12.39        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN 
       19.46         7.10         7.66        19.27         3.12        17.00 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPQ TCGA-FB-AAPS 
        5.88        24.07        14.76        12.43        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-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5924 
        8.02        24.36         2.01         5.10        36.20        15.78 
TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7920 
       17.79        12.89        13.84        22.06        19.50         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        0.13         0.26        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         0.69         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-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-IB-7644 TCGA-IB-7645 
       21.60         5.26        10.85         1.08        12.95        49.38 
TCGA-IB-7646 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 
        4.77        21.90        15.35        19.82        23.80        15.65 
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 
       21.30         3.85        15.98         2.47        17.16        12.00 
TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
       15.85         7.20        15.12        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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
        9.14        12.92        12.46        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-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 
       21.24        17.26        23.08        22.85        27.75        16.80 
TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI 
       14.14         0.39        18.67        13.81        12.99        12.03 
TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       13.32        11.51        12.76        66.28         0.69 

  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                          0.23                           0.13 
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                         84.10                          75.12 
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                        17.955                         14.140 
[1] "0.2 - 84.1 (18.0)" "0.1 - 75.1 (14.1)"
[1] "hr=" "1"  
D51V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 26(16Q23.1) MUTATED         1        0        2         1        11
  DEL PEAK 26(16Q23.1) WILD-TYPE       0        6       11        25       106
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 26(16Q23.1) MUTATED           0        1
  DEL PEAK 26(16Q23.1) WILD-TYPE         5        3
D51V3, multiclass
           clus
vv          DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  STAGE I                              1                              0
  STAGE IA                             0                              6
  STAGE IB                             2                             11
  STAGE IIA                            1                             25
  STAGE IIB                           11                            106
  STAGE III                            0                              5
  STAGE IV                             1                              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(16Q23.1) MUTATED     1   2  12   1
  DEL PEAK 26(16Q23.1) WILD-TYPE   7  19 127   3
D51V4, multiclass
    clus
vv   DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  T1                            1                              7
  T2                            2                             19
  T3                           12                            127
  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"
D51V5, binary
                                cls
clus                               0   1
  DEL PEAK 26(16Q23.1) MUTATED     2  12
  DEL PEAK 26(16Q23.1) WILD-TYPE  43 112
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(16Q23.1) MUTATED      2   12
  DEL PEAK 26(16Q23.1) WILD-TYPE   43  112
   clus
vv  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  0                            2                             43
  1                           12                            112
[1] 2 2
[1] FALSE
D51V6, binary
                                cls
clus                              0  1
  DEL PEAK 26(16Q23.1) MUTATED    6  1
  DEL PEAK 26(16Q23.1) WILD-TYPE 74  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(16Q23.1) MUTATED      6    1
  DEL PEAK 26(16Q23.1) WILD-TYPE   74    3
   clus
vv  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  0                            6                             74
  1                            1                              3
[1] 2 2
[1] FALSE
D51V7, binary
                                cls
clus                              0  1
  DEL PEAK 26(16Q23.1) MUTATED    4 12
  DEL PEAK 26(16Q23.1) WILD-TYPE 74 83
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(16Q23.1) MUTATED      4   12
  DEL PEAK 26(16Q23.1) WILD-TYPE   74   83
        clus
vv       DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  FEMALE                            4                             74
  MALE                             12                             83
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 26(16Q23.1) MUTATED                                    10
  DEL PEAK 26(16Q23.1) WILD-TYPE                                 135
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 26(16Q23.1) MUTATED                                       4
  DEL PEAK 26(16Q23.1) WILD-TYPE                                    18
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 26(16Q23.1) MUTATED                                                  1
  DEL PEAK 26(16Q23.1) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 26(16Q23.1) MUTATED                                     1
  DEL PEAK 26(16Q23.1) WILD-TYPE                                   0
D51V8, multiclass
                                                  clus
vv                                                 DEL PEAK 26(16Q23.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        10
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 26(16Q23.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         135
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        18
  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"
D51V9, continuous
D51V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 26(16Q23.1) MUTATED   10  4  0  2
  DEL PEAK 26(16Q23.1) WILD-TYPE 98 47  2  2
D51V11, multiclass
    clus
vv   DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  R0                           10                             98
  R1                            4                             47
  R2                            0                              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"
D51V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 26(16Q23.1) MUTATED       1                         0    15
  DEL PEAK 26(16Q23.1) WILD-TYPE     2                         7   143
D51V13, multiclass
                           clus
vv                          DEL PEAK 26(16Q23.1) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               15
                           clus
vv                          DEL PEAK 26(16Q23.1) WILD-TYPE
  ASIAN                                                  2
  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"
D51V14, binary
                                cls
clus                               0   1
  DEL PEAK 26(16Q23.1) MUTATED     0  11
  DEL PEAK 26(16Q23.1) WILD-TYPE   3 124
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(16Q23.1) MUTATED      0   11
  DEL PEAK 26(16Q23.1) WILD-TYPE    3  124
                        clus
vv                       DEL PEAK 26(16Q23.1) MUTATED
  HISPANIC OR LATINO                                0
  NOT HISPANIC OR LATINO                           11
                        clus
vv                       DEL PEAK 26(16Q23.1) WILD-TYPE
  HISPANIC OR LATINO                                  3
  NOT HISPANIC OR LATINO                            124
[1] 2 2
[1] FALSE

Clustering(52) Variable = DEL PEAK 27(17P12) MUTATION ANALYSIS
D52V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 27(17P12) MUTATED   33 50
  DEL PEAK 27(17P12) WILD-TYPE 46 42
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                          83                           88 
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                          50                           42 
$`DEL PEAK 27(17P12) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO 
       23.97        22.22        22.26        31.86        15.91        14.47 
TCGA-2J-AABT TCGA-2J-AABU TCGA-2L-AAQA TCGA-2L-AAQE TCGA-2L-AAQI TCGA-2L-AAQJ 
       10.49         9.11         4.70        22.49         3.39        12.95 
TCGA-2L-AAQL TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IU 
        9.60        20.84         7.36        24.26        28.73        15.06 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-6879 TCGA-F2-A44G TCGA-F2-A7TX TCGA-F2-A8YN 
       10.13        12.39        10.98         7.66         3.12        17.00 
TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY 
       24.07        12.43        15.95        37.15         7.50        34.82 
TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 
       23.54        15.55         4.04         5.03         1.02         8.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5924 TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7919 
       24.36         2.01        15.78        22.06        21.73        19.50 
TCGA-HZ-7922 TCGA-HZ-8001 TCGA-HZ-8005 TCGA-HZ-8315 TCGA-HZ-8636 TCGA-HZ-A49I 
        0.13        23.21         3.95         9.83        17.92        10.13 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-IB-7644 TCGA-IB-7646 
        6.38        21.60         5.26         1.08        12.95         4.77 
TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7886 TCGA-IB-7888 TCGA-IB-7889 
       15.35        23.80        15.65         4.04        43.79        15.81 
TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A6UF 
       21.30         3.85        17.16        15.85        15.12        21.90 
TCGA-IB-A7M4 TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUU TCGA-LB-A7SX TCGA-M8-A5N4 
       15.88         4.73         7.86         8.05        12.92        19.20 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-AA2A TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A779 
        8.78        15.45         3.12        21.24        17.26        16.80 
TCGA-US-A77G TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YH-A8SY TCGA-YY-A8LH 
        0.39        12.03        13.32        12.76        66.28 

$`DEL PEAK 27(17P12) WILD-TYPE`
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-AABR TCGA-2J-AABV TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 
       11.84        14.40        21.44        45.47        53.00        23.61 
TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       60.95        84.10        68.52        63.85        50.70        30.64 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 
       31.79        34.09        75.12        71.74         9.70        19.46 
TCGA-F2-7276 TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPU 
        7.10        19.27         5.88        14.76        11.61        12.53 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N 
        5.10        36.20        20.35        17.79        12.89        13.84 
TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
        0.92         7.76         0.26        27.62        20.19        17.03 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G 
       12.03         0.69        12.43        14.93         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         2.47        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-A77E TCGA-US-A77J 
        0.30        23.08        22.85        27.75        14.14        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-Z5-AAPL 
       13.81        12.99        11.51         0.69 

  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                        0.13                         0.23 
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                       66.28                        84.10 
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                       15.06                        13.99 
[1] "0.1 - 66.3 (15.1)" "0.2 - 84.1 (14.0)"
[1] "hr=" "1.5"
D52V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 27(17P12) MUTATED         0        2        2        14        60
  DEL PEAK 27(17P12) WILD-TYPE       1        4       11        12        57
                              vv
clus                           STAGE III STAGE IV
  DEL PEAK 27(17P12) MUTATED           3        2
  DEL PEAK 27(17P12) WILD-TYPE         2        2
D52V3, multiclass
           clus
vv          DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  STAGE I                            0                            1
  STAGE IA                           2                            4
  STAGE IB                           2                           11
  STAGE IIA                         14                           12
  STAGE IIB                         60                           57
  STAGE III                          3                            2
  STAGE IV                           2                            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 27(17P12) MUTATED    2  7 72  2
  DEL PEAK 27(17P12) WILD-TYPE  6 14 67  2
D52V4, multiclass
    clus
vv   DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  T1                          2                            6
  T2                          7                           14
  T3                         72                           67
  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"
D52V5, binary
                              cls
clus                            0  1
  DEL PEAK 27(17P12) MUTATED   20 63
  DEL PEAK 27(17P12) WILD-TYPE 25 61
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 27(17P12) MUTATED     20   63
  DEL PEAK 27(17P12) WILD-TYPE   25   61
   clus
vv  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  0                         20                           25
  1                         63                           61
[1] 2 2
[1] FALSE
D52V6, binary
                              cls
clus                            0  1
  DEL PEAK 27(17P12) MUTATED   36  2
  DEL PEAK 27(17P12) WILD-TYPE 44  2
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 27(17P12) MUTATED     36    2
  DEL PEAK 27(17P12) WILD-TYPE   44    2
   clus
vv  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  0                         36                           44
  1                          2                            2
[1] 2 2
[1] FALSE
D52V7, binary
                              cls
clus                            0  1
  DEL PEAK 27(17P12) MUTATED   37 46
  DEL PEAK 27(17P12) WILD-TYPE 41 49
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 27(17P12) MUTATED     37   46
  DEL PEAK 27(17P12) WILD-TYPE   41   49
        clus
vv       DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  FEMALE                         37                           41
  MALE                           46                           49
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 27(17P12) MUTATED                                    74
  DEL PEAK 27(17P12) WILD-TYPE                                  71
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 27(17P12) MUTATED                                       8
  DEL PEAK 27(17P12) WILD-TYPE                                    14
                              vv
clus                           PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 27(17P12) MUTATED                                                  0
  DEL PEAK 27(17P12) WILD-TYPE                                                4
                              vv
clus                           PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 27(17P12) MUTATED                                     0
  DEL PEAK 27(17P12) WILD-TYPE                                   1
D52V8, multiclass
                                                  clus
vv                                                 DEL PEAK 27(17P12) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      74
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                          0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                       0
                                                  clus
vv                                                 DEL PEAK 27(17P12) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        71
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      14
  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"
D52V9, continuous
D52V10, continuous
                              vv
clus                           R0 R1 R2 RX
  DEL PEAK 27(17P12) MUTATED   45 31  0  3
  DEL PEAK 27(17P12) WILD-TYPE 63 20  2  1
D52V11, multiclass
    clus
vv   DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  R0                         45                           63
  R1                         31                           20
  R2                          0                            2
  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"
D52V12, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 27(17P12) MUTATED       1                         3    77
  DEL PEAK 27(17P12) WILD-TYPE     2                         4    81
D52V13, multiclass
                           clus
vv                          DEL PEAK 27(17P12) MUTATED
  ASIAN                                              1
  BLACK OR AFRICAN AMERICAN                          3
  WHITE                                             77
                           clus
vv                          DEL PEAK 27(17P12) WILD-TYPE
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            4
  WHITE                                               81
[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"
D52V14, binary
                              cls
clus                            0  1
  DEL PEAK 27(17P12) MUTATED    1 63
  DEL PEAK 27(17P12) WILD-TYPE  2 72
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 27(17P12) MUTATED      1   63
  DEL PEAK 27(17P12) WILD-TYPE    2   72
                        clus
vv                       DEL PEAK 27(17P12) MUTATED
  HISPANIC OR LATINO                              1
  NOT HISPANIC OR LATINO                         63
                        clus
vv                       DEL PEAK 27(17P12) WILD-TYPE
  HISPANIC OR LATINO                                2
  NOT HISPANIC OR LATINO                           72
[1] 2 2
[1] FALSE

Clustering(53) Variable = DEL PEAK 28(17Q22) MUTATION ANALYSIS
D53V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 28(17Q22) MUTATED   15 31
  DEL PEAK 28(17Q22) WILD-TYPE 64 61
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                          46                          125 
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                          31                           61 
$`DEL PEAK 28(17Q22) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABK TCGA-2J-AABP TCGA-2L-AAQA TCGA-2L-AAQE 
       23.97        22.22        15.91        11.84         4.70        22.49 
TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-F2-6879 
       12.95         9.60        20.84        24.26        28.73        10.98 
TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-AAPP TCGA-FB-AAQ0 TCGA-FB-AAQ3 TCGA-FB-AAQ6 
       17.00        24.07        15.95        15.55         1.02         8.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-8005 
       24.36         2.01        21.73        19.50         0.13         3.95 
TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-IB-7644 TCGA-IB-7646 TCGA-IB-7652 
       17.92         6.38         5.26        12.95         4.77        23.80 
TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF 
        4.04         3.62        43.79        17.16        15.85        21.90 
TCGA-IB-AAUN TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-OE-A75W TCGA-US-A779 
        4.73         8.05         9.14        12.92         8.78        16.80 
TCGA-US-A77G TCGA-XD-AAUI TCGA-YH-A8SY TCGA-YY-A8LH 
        0.39        12.03        12.76        66.28 

$`DEL PEAK 28(17Q22) WILD-TYPE`
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-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU 
       22.26        31.86        14.47        14.40        10.49         9.11 
TCGA-2J-AABV TCGA-2L-AAQI TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9IB 
       21.44         3.39        45.47        53.00        23.61         7.36 
TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       60.95        84.10        68.52        63.85        50.70        30.64 
TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY 
       15.06        31.79        34.09        10.13        12.39        75.12 
TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H 
       71.74         9.70        19.46         7.10         7.66        19.27 
TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ 
        3.12         5.88        14.76        12.43        11.61        37.15 
TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FB-AAQ2 
        7.50        12.53        34.82        23.54         4.04         5.03 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 
        5.10        36.20        20.35        15.78        17.79        12.89 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 
       13.84        22.06         0.92         7.76         0.26        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         0.69         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-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7645 TCGA-IB-7647 
       21.60        10.85         1.08         0.23        49.38        21.90 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7889 TCGA-IB-7890 
       15.35        19.82        15.65        41.33        15.81        19.66 
TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ 
       21.30         3.85        15.98         2.47        12.00         7.20 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUM 
       15.12        20.88         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-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        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A77E TCGA-US-A77J 
       17.26        23.08        22.85        27.75        14.14        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUL TCGA-YB-A89D TCGA-Z5-AAPL 
       13.81        12.99        13.32        11.51         0.69 

  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                        0.13                         0.23 
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                       66.28                        84.10 
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                       12.95                        14.40 
[1] "0.1 - 66.3 (12.9)" "0.2 - 84.1 (14.4)"
[1] "hr=" "1.5"
D53V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 28(17Q22) MUTATED         0        2        1         7        32
  DEL PEAK 28(17Q22) WILD-TYPE       1        4       12        19        85
                              vv
clus                           STAGE III STAGE IV
  DEL PEAK 28(17Q22) MUTATED           2        2
  DEL PEAK 28(17Q22) WILD-TYPE         3        2
D53V3, multiclass
           clus
vv          DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  STAGE I                            0                            1
  STAGE IA                           2                            4
  STAGE IB                           1                           12
  STAGE IIA                          7                           19
  STAGE IIB                         32                           85
  STAGE III                          2                            3
  STAGE IV                           2                            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 28(17Q22) MUTATED    2  3 40  1
  DEL PEAK 28(17Q22) WILD-TYPE  6 18 99  3
D53V4, multiclass
    clus
vv   DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  T1                          2                            6
  T2                          3                           18
  T3                         40                           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"
D53V5, binary
                              cls
clus                            0  1
  DEL PEAK 28(17Q22) MUTATED   12 34
  DEL PEAK 28(17Q22) WILD-TYPE 33 90
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 28(17Q22) MUTATED     12   34
  DEL PEAK 28(17Q22) WILD-TYPE   33   90
   clus
vv  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  0                         12                           33
  1                         34                           90
[1] 2 2
[1] FALSE
D53V6, binary
                              cls
clus                            0  1
  DEL PEAK 28(17Q22) MUTATED   22  2
  DEL PEAK 28(17Q22) WILD-TYPE 58  2
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 28(17Q22) MUTATED     22    2
  DEL PEAK 28(17Q22) WILD-TYPE   58    2
   clus
vv  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  0                         22                           58
  1                          2                            2
[1] 2 2
[1] FALSE
D53V7, binary
                              cls
clus                            0  1
  DEL PEAK 28(17Q22) MUTATED   22 24
  DEL PEAK 28(17Q22) WILD-TYPE 56 71
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 28(17Q22) MUTATED     22   24
  DEL PEAK 28(17Q22) WILD-TYPE   56   71
        clus
vv       DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  FEMALE                         22                           56
  MALE                           24                           71
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 28(17Q22) MUTATED                                    41
  DEL PEAK 28(17Q22) WILD-TYPE                                 104
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 28(17Q22) MUTATED                                       3
  DEL PEAK 28(17Q22) WILD-TYPE                                    19
                              vv
clus                           PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 28(17Q22) MUTATED                                                  0
  DEL PEAK 28(17Q22) WILD-TYPE                                                4
                              vv
clus                           PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 28(17Q22) MUTATED                                     1
  DEL PEAK 28(17Q22) WILD-TYPE                                   0
D53V8, multiclass
                                                  clus
vv                                                 DEL PEAK 28(17Q22) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                      41
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                          0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                       1
                                                  clus
vv                                                 DEL PEAK 28(17Q22) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       104
  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"
D53V9, continuous
D53V10, continuous
                              vv
clus                           R0 R1 R2 RX
  DEL PEAK 28(17Q22) MUTATED   21 19  1  2
  DEL PEAK 28(17Q22) WILD-TYPE 87 32  1  2
D53V11, multiclass
    clus
vv   DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  R0                         21                           87
  R1                         19                           32
  R2                          1                            1
  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"
D53V12, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 28(17Q22) MUTATED       1                         3    42
  DEL PEAK 28(17Q22) WILD-TYPE     2                         4   116
D53V13, multiclass
                           clus
vv                          DEL PEAK 28(17Q22) MUTATED
  ASIAN                                              1
  BLACK OR AFRICAN AMERICAN                          3
  WHITE                                             42
                           clus
vv                          DEL PEAK 28(17Q22) WILD-TYPE
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            4
  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"
D53V14, binary
                              cls
clus                             0   1
  DEL PEAK 28(17Q22) MUTATED     0  35
  DEL PEAK 28(17Q22) WILD-TYPE   3 100
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 28(17Q22) MUTATED      0   35
  DEL PEAK 28(17Q22) WILD-TYPE    3  100
                        clus
vv                       DEL PEAK 28(17Q22) MUTATED
  HISPANIC OR LATINO                              0
  NOT HISPANIC OR LATINO                         35
                        clus
vv                       DEL PEAK 28(17Q22) WILD-TYPE
  HISPANIC OR LATINO                                3
  NOT HISPANIC OR LATINO                          100
[1] 2 2
[1] FALSE

Clustering(54) Variable = DEL PEAK 29(18P11.31) MUTATION ANALYSIS
D54V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 29(18P11.31) MUTATED   24 23
  DEL PEAK 29(18P11.31) WILD-TYPE 55 69
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                             47                             124 
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                             23                              69 
$`DEL PEAK 29(18P11.31) MUTATED`
TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR TCGA-2L-AAQE TCGA-2L-AAQI TCGA-3A-A9I7 
       15.91        11.84        14.40        22.49         3.39        23.61 
TCGA-3A-A9IB TCGA-3A-A9J0 TCGA-3E-AAAZ TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX 
        7.36        12.39        71.74         7.66        19.27         3.12 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAQ6 TCGA-FZ-5924 TCGA-H6-A45N 
       14.76        12.43        11.61         8.02        15.78        13.84 
TCGA-HZ-7918 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-A49G TCGA-HZ-A4BH 
        0.92        17.03        23.21         9.83        21.70         6.38 
TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7885 
       21.60        10.85         1.08        12.95        15.35        41.33 
TCGA-IB-7886 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5SS 
        4.04        15.81        19.66        12.00         7.20        15.12 
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-YH-A8SY 
        9.40         0.39        13.81        12.03        12.76 

$`DEL PEAK 29(18P11.31) WILD-TYPE`
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-AABO TCGA-2J-AABT 
       22.22        22.72        22.26        31.86        14.47        10.49 
TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-2L-AAQM 
        9.11        21.44         4.70        12.95         9.60        45.47 
TCGA-3A-A9I5 TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL 
       53.00        20.84        24.26        28.73        60.95        84.10 
TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV 
       68.52        63.85        50.70        30.64        15.06        31.79 
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-HZ-7289 TCGA-HZ-7919 
       20.35        17.79        12.89        22.06        21.73        19.50 
TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-8002 
        7.76         0.13         0.26        27.62        20.19        12.03 
TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
        0.69         3.95        12.43        14.93        17.92         4.96 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-IB-7645 TCGA-IB-7646 
       16.14        10.13         5.26         0.23        49.38         4.77 
TCGA-IB-7647 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7887 TCGA-IB-7888 
       21.90        19.82        23.80        15.65         3.62        43.79 
TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SP 
       21.30         3.85        15.98         2.47        17.16        15.85 
TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUQ 
       20.88         1.35         8.22         4.73         7.86         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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-PZ-A5RE TCGA-Q3-A5QY 
        9.14        12.92        12.46        10.29        15.45        13.68 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP 
        3.12        15.32         0.30        21.24        17.26        23.08 
TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77J TCGA-XD-AAUH 
       22.85        27.75        16.80        14.14        18.67        12.99 
TCGA-XD-AAUL TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       13.32        11.51        66.28         0.69 

  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                           0.26                            0.13 
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                          71.74                           84.10 
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                          12.95                           15.19 
[1] "0.3 - 71.7 (12.9)" "0.1 - 84.1 (15.2)"
[1] "hr=" "1.1"
D54V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 29(18P11.31) MUTATED         0        1        3         7        33
  DEL PEAK 29(18P11.31) WILD-TYPE       1        5       10        19        84
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 29(18P11.31) MUTATED           2        2
  DEL PEAK 29(18P11.31) WILD-TYPE         3        2
D54V3, multiclass
           clus
vv          DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  STAGE I                               0                               1
  STAGE IA                              1                               5
  STAGE IB                              3                              10
  STAGE IIA                             7                              19
  STAGE IIB                            33                              84
  STAGE III                             2                               3
  STAGE IV                              2                               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(18P11.31) MUTATED    2  5 40  1
  DEL PEAK 29(18P11.31) WILD-TYPE  6 16 99  3
D54V4, multiclass
    clus
vv   DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  T1                             2                               6
  T2                             5                              16
  T3                            40                              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"
D54V5, binary
                                 cls
clus                               0  1
  DEL PEAK 29(18P11.31) MUTATED   11 36
  DEL PEAK 29(18P11.31) WILD-TYPE 34 88
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 29(18P11.31) MUTATED     11   36
  DEL PEAK 29(18P11.31) WILD-TYPE   34   88
   clus
vv  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  0                            11                              34
  1                            36                              88
[1] 2 2
[1] FALSE
D54V6, binary
                                 cls
clus                               0  1
  DEL PEAK 29(18P11.31) MUTATED   25  2
  DEL PEAK 29(18P11.31) WILD-TYPE 55  2
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 29(18P11.31) MUTATED     25    2
  DEL PEAK 29(18P11.31) WILD-TYPE   55    2
   clus
vv  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  0                            25                              55
  1                             2                               2
[1] 2 2
[1] FALSE
D54V7, binary
                                 cls
clus                               0  1
  DEL PEAK 29(18P11.31) MUTATED   20 28
  DEL PEAK 29(18P11.31) WILD-TYPE 58 67
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 29(18P11.31) MUTATED     20   28
  DEL PEAK 29(18P11.31) WILD-TYPE   58   67
        clus
vv       DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  FEMALE                            20                              58
  MALE                              28                              67
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 29(18P11.31) MUTATED                                    41
  DEL PEAK 29(18P11.31) WILD-TYPE                                 104
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 29(18P11.31) MUTATED                                       4
  DEL PEAK 29(18P11.31) WILD-TYPE                                    18
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 29(18P11.31) MUTATED                                                  1
  DEL PEAK 29(18P11.31) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 29(18P11.31) MUTATED                                     1
  DEL PEAK 29(18P11.31) WILD-TYPE                                   0
D54V8, multiclass
                                                  clus
vv                                                 DEL PEAK 29(18P11.31) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         41
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
                                                  clus
vv                                                 DEL PEAK 29(18P11.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          104
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         18
  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"
D54V9, continuous
D54V10, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 29(18P11.31) MUTATED   29 15  0  1
  DEL PEAK 29(18P11.31) WILD-TYPE 79 36  2  3
D54V11, multiclass
    clus
vv   DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  R0                            29                              79
  R1                            15                              36
  R2                             0                               2
  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"
D54V12, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 29(18P11.31) MUTATED       1                         2    42
  DEL PEAK 29(18P11.31) WILD-TYPE     2                         5   116
D54V13, multiclass
                           clus
vv                          DEL PEAK 29(18P11.31) MUTATED
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             2
  WHITE                                                42
                           clus
vv                          DEL PEAK 29(18P11.31) WILD-TYPE
  ASIAN                                                   2
  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"
D54V14, binary
                                 cls
clus                                0   1
  DEL PEAK 29(18P11.31) MUTATED     2  35
  DEL PEAK 29(18P11.31) WILD-TYPE   1 100
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 29(18P11.31) MUTATED      2   35
  DEL PEAK 29(18P11.31) WILD-TYPE    1  100
                        clus
vv                       DEL PEAK 29(18P11.31) MUTATED
  HISPANIC OR LATINO                                 2
  NOT HISPANIC OR LATINO                            35
                        clus
vv                       DEL PEAK 29(18P11.31) WILD-TYPE
  HISPANIC OR LATINO                                   1
  NOT HISPANIC OR LATINO                             100
[1] 2 2
[1] FALSE

Clustering(55) Variable = DEL PEAK 30(18Q21.2) MUTATION ANALYSIS
D55V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 30(18Q21.2) MUTATED   48 67
  DEL PEAK 30(18Q21.2) WILD-TYPE 31 25
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                           115                             56 
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                            67                             25 
$`DEL PEAK 30(18Q21.2) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AABA TCGA-2J-AABE TCGA-2J-AABF 
       23.97         9.63         2.63        19.96        22.22        22.72 
TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT 
       22.26        31.86        15.91        14.47        14.40        10.49 
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        23.61        20.84         7.36        28.73        15.06 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-A44G TCGA-F2-A44H 
       10.13        12.39        71.74        10.98         7.66        19.27 
TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR 
        3.12        17.00        24.07        14.76        12.43        11.61 
TCGA-FB-AAPQ TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ2 
       37.15        12.53        34.82        23.54        15.55         5.03 
TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5923 
        1.02         8.02        24.36         2.01         5.10        20.35 
TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 
       15.78        17.79        12.89        13.84        22.06        21.73 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8005 
        0.92        19.50        20.19        17.03        23.21         3.95 
TCGA-HZ-8315 TCGA-HZ-8636 TCGA-HZ-A49G TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK 
        9.83        17.92        21.70        10.13         6.38        21.60 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7647 
        5.26        10.85         1.08         0.23        12.95        21.90 
TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 
       15.35        23.80        15.65        41.33         4.04         3.62 
TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-8126 TCGA-IB-8127 
       15.81        19.66        21.30         3.85         2.47        17.16 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A6UG 
       12.00        15.85         7.20        15.12        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-LB-A7SX TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
        8.05         9.14        12.92        19.20         8.78        15.45 
TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 
        3.12         9.40        21.24        17.26        23.08        22.85 
TCGA-US-A776 TCGA-US-A77G TCGA-XD-AAUG TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D 
       27.75         0.39        13.81        12.03        13.32        11.51 
TCGA-YH-A8SY 
       12.76 

$`DEL PEAK 30(18Q21.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB9 TCGA-2J-AABP TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9IC 
        2.17        20.61        11.84        45.47        53.00        24.26 
TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       60.95        84.10        68.52        63.85        50.70        30.64 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 
       31.79        34.09        75.12         9.70        19.46         7.10 
TCGA-FB-A4P5 TCGA-FB-AAPP TCGA-FB-AAPS TCGA-FB-AAQ1 TCGA-FZ-5922 TCGA-HZ-7920 
        5.88        15.95         7.50         4.04        36.20         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 
        0.13         0.26        27.62        12.03         0.69        12.43 
TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49H TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7651 
       14.93         4.96        16.14        49.38         4.77        19.82 
TCGA-IB-7888 TCGA-IB-7897 TCGA-IB-A5ST TCGA-IB-AAUO TCGA-IB-AAUR TCGA-IB-AAUS 
       43.79        15.98        20.88         7.86        11.11         7.40 
TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-Q3-A5QY 
        9.44        13.28         7.56        12.46        10.29        13.68 
TCGA-RB-A7B8 TCGA-RL-AAAS TCGA-US-A779 TCGA-US-A77E TCGA-US-A77J TCGA-XD-AAUH 
       15.32         0.30        16.80        14.14        18.67        12.99 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28         0.69 

  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                          0.23                           0.13 
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                         71.74                          84.10 
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                        14.170                         14.535 
[1] "0.2 - 71.7 (14.2)" "0.1 - 84.1 (14.5)"
[1] "hr=" "1.8"
D55V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 30(18Q21.2) MUTATED         0        2        6        20        80
  DEL PEAK 30(18Q21.2) WILD-TYPE       1        4        7         6        37
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 30(18Q21.2) MUTATED           5        4
  DEL PEAK 30(18Q21.2) WILD-TYPE         0        0
D55V3, multiclass
           clus
vv          DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             2                              4
  STAGE IB                             6                              7
  STAGE IIA                           20                              6
  STAGE IIB                           80                             37
  STAGE III                            5                              0
  STAGE IV                             4                              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 30(18Q21.2) MUTATED    3 12 98  4
  DEL PEAK 30(18Q21.2) WILD-TYPE  5  9 41  0
D55V4, multiclass
    clus
vv   DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  T1                            3                              5
  T2                           12                              9
  T3                           98                             41
  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"
D55V5, binary
                                cls
clus                              0  1
  DEL PEAK 30(18Q21.2) MUTATED   29 87
  DEL PEAK 30(18Q21.2) WILD-TYPE 16 37
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(18Q21.2) MUTATED     29   87
  DEL PEAK 30(18Q21.2) WILD-TYPE   16   37
   clus
vv  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  0                           29                             16
  1                           87                             37
[1] 2 2
[1] FALSE
D55V6, binary
                                cls
clus                              0  1
  DEL PEAK 30(18Q21.2) MUTATED   58  4
  DEL PEAK 30(18Q21.2) WILD-TYPE 22  0
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(18Q21.2) MUTATED     58    4
  DEL PEAK 30(18Q21.2) WILD-TYPE   22    0
   clus
vv  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  0                           58                             22
  1                            4                              0
[1] 2 2
[1] FALSE
D55V7, binary
                                cls
clus                              0  1
  DEL PEAK 30(18Q21.2) MUTATED   46 71
  DEL PEAK 30(18Q21.2) WILD-TYPE 32 24
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(18Q21.2) MUTATED     46   71
  DEL PEAK 30(18Q21.2) WILD-TYPE   32   24
        clus
vv       DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  FEMALE                           46                             32
  MALE                             71                             24
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 30(18Q21.2) MUTATED                                   104
  DEL PEAK 30(18Q21.2) WILD-TYPE                                  41
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 30(18Q21.2) MUTATED                                      10
  DEL PEAK 30(18Q21.2) WILD-TYPE                                    12
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 30(18Q21.2) MUTATED                                                  2
  DEL PEAK 30(18Q21.2) WILD-TYPE                                                2
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 30(18Q21.2) MUTATED                                     0
  DEL PEAK 30(18Q21.2) WILD-TYPE                                   1
D55V8, multiclass
                                                  clus
vv                                                 DEL PEAK 30(18Q21.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       104
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      10
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK 30(18Q21.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          41
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        12
  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"
D55V9, continuous
D55V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 30(18Q21.2) MUTATED   65 40  1  4
  DEL PEAK 30(18Q21.2) WILD-TYPE 43 11  1  0
D55V11, multiclass
    clus
vv   DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  R0                           65                             43
  R1                           40                             11
  R2                            1                              1
  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"
D55V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 30(18Q21.2) MUTATED       3                         4   106
  DEL PEAK 30(18Q21.2) WILD-TYPE     0                         3    52
D55V13, multiclass
                           clus
vv                          DEL PEAK 30(18Q21.2) MUTATED
  ASIAN                                                3
  BLACK OR AFRICAN AMERICAN                            4
  WHITE                                              106
                           clus
vv                          DEL PEAK 30(18Q21.2) WILD-TYPE
  ASIAN                                                  0
  BLACK OR AFRICAN AMERICAN                              3
  WHITE                                                 52
[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"
D55V14, binary
                                cls
clus                              0  1
  DEL PEAK 30(18Q21.2) MUTATED    3 85
  DEL PEAK 30(18Q21.2) WILD-TYPE  0 50
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(18Q21.2) MUTATED      3   85
  DEL PEAK 30(18Q21.2) WILD-TYPE    0   50
                        clus
vv                       DEL PEAK 30(18Q21.2) MUTATED
  HISPANIC OR LATINO                                3
  NOT HISPANIC OR LATINO                           85
                        clus
vv                       DEL PEAK 30(18Q21.2) WILD-TYPE
  HISPANIC OR LATINO                                  0
  NOT HISPANIC OR LATINO                             50
[1] 2 2
[1] FALSE

Clustering(56) Variable = DEL PEAK 31(19P13.3) MUTATION ANALYSIS
D56V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 31(19P13.3) MUTATED   14 19
  DEL PEAK 31(19P13.3) WILD-TYPE 65 73
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                            33                            138 
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                            19                             73 
$`DEL PEAK 31(19P13.3) MUTATED`
TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-3A-A9IC TCGA-3A-A9IH 
       31.86        14.47        11.84         9.11        24.26        28.73 
TCGA-3A-A9IU TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-6879 TCGA-F2-A7TX TCGA-F2-A8YN 
       15.06        10.13        12.39        10.98         3.12        17.00 
TCGA-FB-AAPP TCGA-FB-AAPY TCGA-FB-AAQ2 TCGA-H6-8124 TCGA-HZ-7922 TCGA-HZ-8005 
       15.95        34.82         5.03        12.89         0.13         3.95 
TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-IB-7646 TCGA-IB-7885 TCGA-IB-A5SS TCGA-IB-A6UF 
       17.92         6.38         4.77        41.33        15.12        21.90 
TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUQ TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A7SX 
        1.35         8.22         6.02         8.05         9.14        12.92 
TCGA-US-A776 TCGA-US-A77G TCGA-YH-A8SY 
       27.75         0.39        12.76 

$`DEL PEAK 31(19P13.3) WILD-TYPE`
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-AABK TCGA-2J-AABR TCGA-2J-AABT 
       22.22        22.72        22.26        15.91        14.40        10.49 
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-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IJ 
       45.47        53.00        23.61        20.84         7.36        60.95 
TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IV 
       84.10        68.52        63.85        50.70        30.64        31.79 
TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 
       34.09        75.12        71.74         9.70        19.46         7.10 
TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
        7.66        19.27         5.88        24.07        14.76        12.43 
TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ0 
       11.61        37.15         7.50        12.53        23.54        15.55 
TCGA-FB-AAQ1 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 
        4.04         1.02         8.02        24.36         2.01         5.10 
TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-A45N TCGA-H8-A6C1 
       36.20        20.35        15.78        17.79        13.84        22.06 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 
       21.73         0.92        19.50         7.76         0.26        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         0.69         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-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 
       21.60         5.26        10.85         1.08         0.23        12.95 
TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 
       49.38        21.90        15.35        19.82        23.80        15.65 
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        21.30 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
        3.85        15.98         2.47        17.16        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO 
        7.20        20.88        15.88         0.26         4.73         7.86 
TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
       14.17        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-A8RO 
        3.12        15.32         9.40         0.30        21.24        17.26 
TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77J TCGA-XD-AAUG 
       23.08        22.85        16.80        14.14        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YY-A8LH TCGA-Z5-AAPL 
       12.99        12.03        13.32        11.51        66.28         0.69 

  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                          0.13                           0.23 
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                         41.33                          84.10 
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                        12.390                         15.125 
[1] "0.1 - 41.3 (12.4)" "0.2 - 84.1 (15.1)"
[1] "hr=" "1.4"
D56V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 31(19P13.3) MUTATED         0        1        0         3        27
  DEL PEAK 31(19P13.3) WILD-TYPE       1        5       13        23        90
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 31(19P13.3) MUTATED           1        1
  DEL PEAK 31(19P13.3) WILD-TYPE         4        3
D56V3, multiclass
           clus
vv          DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             1                              5
  STAGE IB                             0                             13
  STAGE IIA                            3                             23
  STAGE IIB                           27                             90
  STAGE III                            1                              4
  STAGE IV                             1                              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 31(19P13.3) MUTATED     1   1  31   0
  DEL PEAK 31(19P13.3) WILD-TYPE   7  20 108   4
D56V4, multiclass
    clus
vv   DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  T1                            1                              7
  T2                            1                             20
  T3                           31                            108
  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 31(19P13.3) MUTATED    5 28
  DEL PEAK 31(19P13.3) WILD-TYPE 40 96
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(19P13.3) MUTATED      5   28
  DEL PEAK 31(19P13.3) WILD-TYPE   40   96
   clus
vv  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  0                            5                             40
  1                           28                             96
[1] 2 2
[1] FALSE
D56V6, binary
                                cls
clus                              0  1
  DEL PEAK 31(19P13.3) MUTATED   16  1
  DEL PEAK 31(19P13.3) WILD-TYPE 64  3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(19P13.3) MUTATED     16    1
  DEL PEAK 31(19P13.3) WILD-TYPE   64    3
   clus
vv  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  0                           16                             64
  1                            1                              3
[1] 2 2
[1] FALSE
D56V7, binary
                                cls
clus                              0  1
  DEL PEAK 31(19P13.3) MUTATED   13 20
  DEL PEAK 31(19P13.3) WILD-TYPE 65 75
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(19P13.3) MUTATED     13   20
  DEL PEAK 31(19P13.3) WILD-TYPE   65   75
        clus
vv       DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  FEMALE                           13                             65
  MALE                             20                             75
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 31(19P13.3) MUTATED                                    28
  DEL PEAK 31(19P13.3) WILD-TYPE                                 117
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 31(19P13.3) MUTATED                                       2
  DEL PEAK 31(19P13.3) WILD-TYPE                                    20
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 31(19P13.3) MUTATED                                                  1
  DEL PEAK 31(19P13.3) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 31(19P13.3) MUTATED                                     1
  DEL PEAK 31(19P13.3) WILD-TYPE                                   0
D56V8, multiclass
                                                  clus
vv                                                 DEL PEAK 31(19P13.3) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        28
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 31(19P13.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         117
  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"
D56V9, continuous
D56V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 31(19P13.3) MUTATED   19 12  1  0
  DEL PEAK 31(19P13.3) WILD-TYPE 89 39  1  4
D56V11, multiclass
    clus
vv   DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  R0                           19                             89
  R1                           12                             39
  R2                            1                              1
  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"
D56V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 31(19P13.3) MUTATED       0                         1    32
  DEL PEAK 31(19P13.3) WILD-TYPE     3                         6   126
D56V13, multiclass
                           clus
vv                          DEL PEAK 31(19P13.3) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               32
                           clus
vv                          DEL PEAK 31(19P13.3) WILD-TYPE
  ASIAN                                                  3
  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"
D56V14, binary
                                cls
clus                               0   1
  DEL PEAK 31(19P13.3) MUTATED     1  25
  DEL PEAK 31(19P13.3) WILD-TYPE   2 110
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(19P13.3) MUTATED      1   25
  DEL PEAK 31(19P13.3) WILD-TYPE    2  110
                        clus
vv                       DEL PEAK 31(19P13.3) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           25
                        clus
vv                       DEL PEAK 31(19P13.3) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                            110
[1] 2 2
[1] FALSE

Clustering(57) Variable = DEL PEAK 32(19P13.2) MUTATION ANALYSIS
D57V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 32(19P13.2) MUTATED   12 13
  DEL PEAK 32(19P13.2) WILD-TYPE 67 79
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                            25                            146 
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                            13                             79 
$`DEL PEAK 32(19P13.2) MUTATED`
TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABU TCGA-3A-A9IC TCGA-3A-A9IU 
       31.86        14.47        11.84         9.11        24.26        15.06 
TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-AAPP TCGA-FZ-5924 
       10.13        12.39         3.12        17.00        15.95        15.78 
TCGA-H6-8124 TCGA-HZ-7922 TCGA-HZ-8005 TCGA-IB-7646 TCGA-IB-7885 TCGA-IB-A6UF 
       12.89         0.13         3.95         4.77        41.33        21.90 
TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-US-A776 
        1.35         8.22         8.05         9.14        12.92        27.75 
TCGA-YH-A8SY 
       12.76 

$`DEL PEAK 32(19P13.2) WILD-TYPE`
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-AABK TCGA-2J-AABR TCGA-2J-AABT 
       22.22        22.72        22.26        15.91        14.40        10.49 
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-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IH 
       45.47        53.00        23.61        20.84         7.36        28.73 
TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       60.95        84.10        68.52        63.85        50.70        30.64 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 
       31.79        34.09        75.12        71.74        10.98         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 
       19.46         7.10         7.66        19.27         5.88        24.07 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPU 
       14.76        12.43        11.61        37.15         7.50        12.53 
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-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 
        8.02        24.36         2.01         5.10        36.20        20.35 
TCGA-FZ-5926 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 
       17.79        13.84        22.06        21.73         0.92        19.50 
TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        7.76         0.26        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         0.69         9.83        12.43        14.93        17.92 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK 
        4.96        21.70        16.14        10.13         6.38        21.60 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 
        5.26        10.85         1.08         0.23        12.95        49.38 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7886 
       21.90        15.35        19.82        23.80        15.65         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        21.30         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98         2.47        17.16        12.00        15.85         7.20 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO 
       15.12        20.88        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-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-OE-A75W TCGA-PZ-A5RE 
        7.56        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        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G 
       17.26        23.08        22.85        16.80        14.14         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D 
       18.67        13.81        12.99        12.03        13.32        11.51 
TCGA-YY-A8LH TCGA-Z5-AAPL 
       66.28         0.69 

  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                          0.13                           0.23 
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                         41.33                          84.10 
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                        12.760                         14.845 
[1] "0.1 - 41.3 (12.8)" "0.2 - 84.1 (14.8)"
[1] "hr=" "1.2"
D57V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 32(19P13.2) MUTATED         0        0        0         3        21
  DEL PEAK 32(19P13.2) WILD-TYPE       1        6       13        23        96
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 32(19P13.2) MUTATED           1        0
  DEL PEAK 32(19P13.2) WILD-TYPE         4        4
D57V3, multiclass
           clus
vv          DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              6
  STAGE IB                             0                             13
  STAGE IIA                            3                             23
  STAGE IIB                           21                             96
  STAGE III                            1                              4
  STAGE IV                             0                              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(19P13.2) MUTATED     0   0  25   0
  DEL PEAK 32(19P13.2) WILD-TYPE   8  21 114   4
D57V4, multiclass
    clus
vv   DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  T1                            0                              8
  T2                            0                             21
  T3                           25                            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"
D57V5, binary
                                cls
clus                               0   1
  DEL PEAK 32(19P13.2) MUTATED     3  22
  DEL PEAK 32(19P13.2) WILD-TYPE  42 102
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(19P13.2) MUTATED      3   22
  DEL PEAK 32(19P13.2) WILD-TYPE   42  102
   clus
vv  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  0                            3                             42
  1                           22                            102
[1] 2 2
[1] FALSE
D57V6, binary
                                cls
clus                              0  1
  DEL PEAK 32(19P13.2) MUTATED   14  0
  DEL PEAK 32(19P13.2) WILD-TYPE 66  4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(19P13.2) MUTATED     14    0
  DEL PEAK 32(19P13.2) WILD-TYPE   66    4
   clus
vv  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  0                           14                             66
  1                            0                              4
[1] 2 2
[1] FALSE
D57V7, binary
                                cls
clus                              0  1
  DEL PEAK 32(19P13.2) MUTATED    9 16
  DEL PEAK 32(19P13.2) WILD-TYPE 69 79
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(19P13.2) MUTATED      9   16
  DEL PEAK 32(19P13.2) WILD-TYPE   69   79
        clus
vv       DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  FEMALE                            9                             69
  MALE                             16                             79
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 32(19P13.2) MUTATED                                    21
  DEL PEAK 32(19P13.2) WILD-TYPE                                 124
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 32(19P13.2) MUTATED                                       1
  DEL PEAK 32(19P13.2) WILD-TYPE                                    21
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 32(19P13.2) MUTATED                                                  1
  DEL PEAK 32(19P13.2) WILD-TYPE                                                3
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 32(19P13.2) MUTATED                                     1
  DEL PEAK 32(19P13.2) WILD-TYPE                                   0
D57V8, multiclass
                                                  clus
vv                                                 DEL PEAK 32(19P13.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        21
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 32(19P13.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         124
  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"
D57V9, continuous
D57V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 32(19P13.2) MUTATED   15  8  1  0
  DEL PEAK 32(19P13.2) WILD-TYPE 93 43  1  4
D57V11, multiclass
    clus
vv   DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  R0                           15                             93
  R1                            8                             43
  R2                            1                              1
  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"
D57V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 32(19P13.2) MUTATED       0                         1    24
  DEL PEAK 32(19P13.2) WILD-TYPE     3                         6   134
D57V13, multiclass
                           clus
vv                          DEL PEAK 32(19P13.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               24
                           clus
vv                          DEL PEAK 32(19P13.2) WILD-TYPE
  ASIAN                                                  3
  BLACK OR AFRICAN AMERICAN                              6
  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"
D57V14, binary
                                cls
clus                               0   1
  DEL PEAK 32(19P13.2) MUTATED     1  19
  DEL PEAK 32(19P13.2) WILD-TYPE   2 116
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(19P13.2) MUTATED      1   19
  DEL PEAK 32(19P13.2) WILD-TYPE    2  116
                        clus
vv                       DEL PEAK 32(19P13.2) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           19
                        clus
vv                       DEL PEAK 32(19P13.2) WILD-TYPE
  HISPANIC OR LATINO                                  2
  NOT HISPANIC OR LATINO                            116
[1] 2 2
[1] FALSE

Clustering(58) Variable = DEL PEAK 33(19Q13.33) MUTATION ANALYSIS
D58V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 33(19Q13.33) MUTATED    9 12
  DEL PEAK 33(19Q13.33) WILD-TYPE 70 80
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                             21                             150 
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                             12                              80 
$`DEL PEAK 33(19Q13.33) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABU TCGA-FB-A7DR TCGA-FB-AAPP 
       23.97        31.86        14.47         9.11        11.61        15.95 
TCGA-FB-AAPQ TCGA-FZ-5920 TCGA-HZ-8005 TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-IB-7646 
       37.15         2.01         3.95        10.13         6.38         4.77 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-A5SS TCGA-IB-A7LX TCGA-IB-AAUU TCGA-US-A776 
       23.80        41.33        15.12         8.22         8.05        27.75 
TCGA-US-A77G TCGA-XD-AAUI TCGA-XD-AAUL 
        0.39        12.03        13.32 

$`DEL PEAK 33(19Q13.33) WILD-TYPE`
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-AABF TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT 
       22.72        22.26        15.91        11.84        14.40        10.49 
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-A9I5 TCGA-3A-A9I7 TCGA-3A-A9I9 TCGA-3A-A9IB TCGA-3A-A9IC 
       45.47        53.00        23.61        20.84         7.36        24.26 
TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR 
       28.73        60.95        84.10        68.52        63.85        50.70 
TCGA-3A-A9IS TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 
       30.64        15.06        31.79        34.09        10.13        12.39 
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-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
        7.66        19.27         3.12        17.00         5.88        24.07 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-AAPS TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAPZ 
       14.76        12.43         7.50        12.53        34.82        23.54 
TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 TCGA-FZ-5919 
       15.55         4.04         5.03         1.02         8.02        24.36 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5924 TCGA-FZ-5926 TCGA-H6-8124 
        5.10        36.20        20.35        15.78        17.79        12.89 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7920 
       13.84        22.06        21.73         0.92        19.50         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        0.13         0.26        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         0.69         9.83        12.43        14.93        17.92 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P 
        4.96        21.70        16.14        21.60         5.26        10.85 
TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 
        1.08         0.23        12.95        49.38        21.90        15.35 
TCGA-IB-7651 TCGA-IB-7654 TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 
       19.82        15.65         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        21.30         3.85        15.98         2.47        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-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
       11.11         7.40         9.44        13.28         7.56         9.14 
TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
       12.92        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        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77J 
       17.26        23.08        22.85        16.80        14.14        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YH-A8SY TCGA-YY-A8LH TCGA-Z5-AAPL 
       13.81        12.99        11.51        12.76        66.28         0.69 

  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                           0.39                            0.13 
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                          41.33                           84.10 
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                          12.03                           14.58 
[1] "0.4 - 41.3 (12.0)" "0.1 - 84.1 (14.6)"
[1] "hr=" "1.2"
D58V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 33(19Q13.33) MUTATED         0        0        0         4        18
  DEL PEAK 33(19Q13.33) WILD-TYPE       1        6       13        22        99
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 33(19Q13.33) MUTATED           0        0
  DEL PEAK 33(19Q13.33) WILD-TYPE         5        4
D58V3, multiclass
           clus
vv          DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  STAGE I                               0                               1
  STAGE IA                              0                               6
  STAGE IB                              0                              13
  STAGE IIA                             4                              22
  STAGE IIB                            18                              99
  STAGE III                             0                               5
  STAGE IV                              0                               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(19Q13.33) MUTATED     0   1  21   0
  DEL PEAK 33(19Q13.33) WILD-TYPE   8  20 118   4
D58V4, multiclass
    clus
vv   DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  T1                             0                               8
  T2                             1                              20
  T3                            21                             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"
D58V5, binary
                                 cls
clus                                0   1
  DEL PEAK 33(19Q13.33) MUTATED     3  18
  DEL PEAK 33(19Q13.33) WILD-TYPE  42 106
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 33(19Q13.33) MUTATED      3   18
  DEL PEAK 33(19Q13.33) WILD-TYPE   42  106
   clus
vv  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  0                             3                              42
  1                            18                             106
[1] 2 2
[1] FALSE
D58V6, binary
                                 cls
clus                               0  1
  DEL PEAK 33(19Q13.33) MUTATED   11  0
  DEL PEAK 33(19Q13.33) WILD-TYPE 69  4
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 33(19Q13.33) MUTATED     11    0
  DEL PEAK 33(19Q13.33) WILD-TYPE   69    4
   clus
vv  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  0                            11                              69
  1                             0                               4
[1] 2 2
[1] FALSE
D58V7, binary
                                 cls
clus                               0  1
  DEL PEAK 33(19Q13.33) MUTATED    5 17
  DEL PEAK 33(19Q13.33) WILD-TYPE 73 78
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 33(19Q13.33) MUTATED      5   17
  DEL PEAK 33(19Q13.33) WILD-TYPE   73   78
        clus
vv       DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  FEMALE                             5                              73
  MALE                              17                              78
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 33(19Q13.33) MUTATED                                    18
  DEL PEAK 33(19Q13.33) WILD-TYPE                                 127
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 33(19Q13.33) MUTATED                                       2
  DEL PEAK 33(19Q13.33) WILD-TYPE                                    20
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 33(19Q13.33) MUTATED                                                  2
  DEL PEAK 33(19Q13.33) WILD-TYPE                                                2
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 33(19Q13.33) MUTATED                                     0
  DEL PEAK 33(19Q13.33) WILD-TYPE                                   1
D58V8, multiclass
                                                  clus
vv                                                 DEL PEAK 33(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 33(19Q13.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          127
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         20
  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"
D58V9, continuous
D58V10, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 33(19Q13.33) MUTATED   16  6  0  0
  DEL PEAK 33(19Q13.33) WILD-TYPE 92 45  2  4
D58V11, multiclass
    clus
vv   DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  R0                            16                              92
  R1                             6                              45
  R2                             0                               2
  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"
D58V12, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 33(19Q13.33) MUTATED       2                         1    19
  DEL PEAK 33(19Q13.33) WILD-TYPE     1                         6   139
D58V13, multiclass
                           clus
vv                          DEL PEAK 33(19Q13.33) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                19
                           clus
vv                          DEL PEAK 33(19Q13.33) WILD-TYPE
  ASIAN                                                   1
  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"
D58V14, binary
                                 cls
clus                                0   1
  DEL PEAK 33(19Q13.33) MUTATED     0  17
  DEL PEAK 33(19Q13.33) WILD-TYPE   3 118
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 33(19Q13.33) MUTATED      0   17
  DEL PEAK 33(19Q13.33) WILD-TYPE    3  118
                        clus
vv                       DEL PEAK 33(19Q13.33) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            17
                        clus
vv                       DEL PEAK 33(19Q13.33) WILD-TYPE
  HISPANIC OR LATINO                                   3
  NOT HISPANIC OR LATINO                             118
[1] 2 2
[1] FALSE

Clustering(59) Variable = DEL PEAK 34(21Q11.2) MUTATION ANALYSIS
D59V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 34(21Q11.2) MUTATED   24 32
  DEL PEAK 34(21Q11.2) WILD-TYPE 55 60
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                            56                            115 
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                            32                             60 
$`DEL PEAK 34(21Q11.2) MUTATED`
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABT TCGA-2L-AAQE TCGA-2L-AAQL 
       15.91        14.47        11.84        10.49        22.49         9.60 
TCGA-2L-AAQM TCGA-3A-A9I9 TCGA-3A-A9IS TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-F2-A7TX 
       45.47        20.84        30.64        10.13        12.39         3.12 
TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPY 
       17.00        24.07        12.43        15.95        37.15        34.82 
TCGA-FB-AAQ0 TCGA-FB-AAQ3 TCGA-FZ-5920 TCGA-FZ-5921 TCGA-FZ-5924 TCGA-FZ-5926 
       15.55         1.02         2.01         5.10        15.78        17.79 
TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-8005 
       12.89        22.06         0.92        19.50         0.13         3.95 
TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-IB-7644 
       17.92         6.38        21.60         5.26         1.08        12.95 
TCGA-IB-7646 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7887 
        4.77        15.35        19.82        41.33         4.04         3.62 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-AAUO 
       15.85        15.12        21.90         1.35         8.22         7.86 
TCGA-IB-AAUP TCGA-IB-AAUU TCGA-LB-A7SX TCGA-OE-A75W TCGA-Q3-AA2A TCGA-US-A77G 
       14.17         8.05        12.92         8.78         3.12         0.39 
TCGA-YB-A89D TCGA-YY-A8LH 
       11.51        66.28 

$`DEL PEAK 34(21Q11.2) WILD-TYPE`
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-AABR TCGA-2J-AABU 
       22.22        22.72        22.26        31.86        14.40         9.11 
TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-3A-A9I5 TCGA-3A-A9I7 
       21.44         4.70         3.39        12.95        53.00        23.61 
TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IL TCGA-3A-A9IN 
        7.36        24.26        28.73        60.95        84.10        68.52 
TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3E-AAAY 
       63.85        50.70        15.06        31.79        34.09        75.12 
TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G 
       71.74        10.98         9.70        19.46         7.10         7.66 
TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPS TCGA-FB-AAPU 
       19.27         5.88        14.76        11.61         7.50        12.53 
TCGA-FB-AAPZ TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5922 
       23.54         4.04         5.03         8.02        24.36        36.20 
TCGA-FZ-5923 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7920 TCGA-HZ-7923 TCGA-HZ-7924 
       20.35        13.84        21.73         7.76         0.26        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         0.69         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-A77P TCGA-HZ-A8P1 TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7652 TCGA-IB-7654 
       10.85         0.23        49.38        21.90        23.80        15.65 
TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 TCGA-IB-7893 TCGA-IB-7897 
       43.79        15.81        19.66        21.30         3.85        15.98 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SQ TCGA-IB-A5ST TCGA-IB-A7M4 
        2.47        17.16        12.00         7.20        20.88        15.88 
TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
        0.26         4.73         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-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        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E 
       17.26        23.08        22.85        27.75        16.80        14.14 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YH-A8SY 
       18.67        13.81        12.99        12.03        13.32        12.76 
TCGA-Z5-AAPL 
        0.69 

  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                          0.13                           0.23 
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                         66.28                          84.10 
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                        12.905                         14.930 
[1] "0.1 - 66.3 (12.9)" "0.2 - 84.1 (14.9)"
[1] "hr=" "1.4"
D59V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 34(21Q11.2) MUTATED         0        0        2         6        46
  DEL PEAK 34(21Q11.2) WILD-TYPE       1        6       11        20        71
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 34(21Q11.2) MUTATED           1        2
  DEL PEAK 34(21Q11.2) WILD-TYPE         4        2
D59V3, multiclass
           clus
vv          DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  STAGE I                              0                              1
  STAGE IA                             0                              6
  STAGE IB                             2                             11
  STAGE IIA                            6                             20
  STAGE IIB                           46                             71
  STAGE III                            1                              4
  STAGE IV                             2                              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 34(21Q11.2) MUTATED    0  3 54  0
  DEL PEAK 34(21Q11.2) WILD-TYPE  8 18 85  4
D59V4, multiclass
    clus
vv   DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  T1                            0                              8
  T2                            3                             18
  T3                           54                             85
  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"
D59V5, binary
                                cls
clus                              0  1
  DEL PEAK 34(21Q11.2) MUTATED    8 49
  DEL PEAK 34(21Q11.2) WILD-TYPE 37 75
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(21Q11.2) MUTATED      8   49
  DEL PEAK 34(21Q11.2) WILD-TYPE   37   75
   clus
vv  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  0                            8                             37
  1                           49                             75
[1] 2 2
[1] FALSE
D59V6, binary
                                cls
clus                              0  1
  DEL PEAK 34(21Q11.2) MUTATED   30  2
  DEL PEAK 34(21Q11.2) WILD-TYPE 50  2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(21Q11.2) MUTATED     30    2
  DEL PEAK 34(21Q11.2) WILD-TYPE   50    2
   clus
vv  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  0                           30                             50
  1                            2                              2
[1] 2 2
[1] FALSE
D59V7, binary
                                cls
clus                              0  1
  DEL PEAK 34(21Q11.2) MUTATED   24 33
  DEL PEAK 34(21Q11.2) WILD-TYPE 54 62
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(21Q11.2) MUTATED     24   33
  DEL PEAK 34(21Q11.2) WILD-TYPE   54   62
        clus
vv       DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  FEMALE                           24                             54
  MALE                             33                             62
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 34(21Q11.2) MUTATED                                    51
  DEL PEAK 34(21Q11.2) WILD-TYPE                                  94
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 34(21Q11.2) MUTATED                                       5
  DEL PEAK 34(21Q11.2) WILD-TYPE                                    17
                                vv
clus                             PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 34(21Q11.2) MUTATED                                                  0
  DEL PEAK 34(21Q11.2) WILD-TYPE                                                4
                                vv
clus                             PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 34(21Q11.2) MUTATED                                     1
  DEL PEAK 34(21Q11.2) WILD-TYPE                                   0
D59V8, multiclass
                                                  clus
vv                                                 DEL PEAK 34(21Q11.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        51
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 34(21Q11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          94
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        17
  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"
D59V9, continuous
D59V10, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 34(21Q11.2) MUTATED   32 21  0  2
  DEL PEAK 34(21Q11.2) WILD-TYPE 76 30  2  2
D59V11, multiclass
    clus
vv   DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  R0                           32                             76
  R1                           21                             30
  R2                            0                              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"
D59V12, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 34(21Q11.2) MUTATED       0                         2    53
  DEL PEAK 34(21Q11.2) WILD-TYPE     3                         5   105
D59V13, multiclass
                           clus
vv                          DEL PEAK 34(21Q11.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               53
                           clus
vv                          DEL PEAK 34(21Q11.2) WILD-TYPE
  ASIAN                                                  3
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                105
[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"
D59V14, binary
                                cls
clus                              0  1
  DEL PEAK 34(21Q11.2) MUTATED    2 43
  DEL PEAK 34(21Q11.2) WILD-TYPE  1 92
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(21Q11.2) MUTATED      2   43
  DEL PEAK 34(21Q11.2) WILD-TYPE    1   92
                        clus
vv                       DEL PEAK 34(21Q11.2) MUTATED
  HISPANIC OR LATINO                                2
  NOT HISPANIC OR LATINO                           43
                        clus
vv                       DEL PEAK 34(21Q11.2) WILD-TYPE
  HISPANIC OR LATINO                                  1
  NOT HISPANIC OR LATINO                             92
[1] 2 2
[1] FALSE

Clustering(60) Variable = DEL PEAK 35(22Q13.31) MUTATION ANALYSIS
D60V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 35(22Q13.31) MUTATED   25 31
  DEL PEAK 35(22Q13.31) WILD-TYPE 54 61
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                             56                             115 
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                             31                              61 
$`DEL PEAK 35(22Q13.31) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABT 
        2.63        22.72        22.26        31.86        14.47        10.49 
TCGA-2L-AAQE TCGA-2L-AAQM TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IL TCGA-3A-A9IU 
       22.49        45.47        20.84        24.26        84.10        15.06 
TCGA-F2-6879 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPU 
       10.98        19.27        17.00        12.43        11.61        12.53 
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-5924 TCGA-HZ-7919 TCGA-HZ-8005 TCGA-HZ-8636 TCGA-HZ-A4BH 
        2.01        15.78        19.50         3.95        17.92         6.38 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7646 
       21.60         5.26         1.08         0.23        12.95         4.77 
TCGA-IB-7654 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF 
       15.65         4.04        21.30        17.16        15.85        21.90 
TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUO TCGA-IB-AAUU TCGA-L1-A7W4 
        1.35         8.22        15.88         7.86         8.05         9.14 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-RB-AA9M TCGA-S4-A8RP TCGA-US-A779 TCGA-XD-AAUL 
        8.78        15.45         9.40        23.08        16.80        13.32 
TCGA-YB-A89D TCGA-YY-A8LH 
       11.51        66.28 

$`DEL PEAK 35(22Q13.31) WILD-TYPE`
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-AABR TCGA-2J-AABU TCGA-2J-AABV TCGA-2L-AAQA 
       15.91        11.84        14.40         9.11        21.44         4.70 
TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9IB 
        3.39        12.95         9.60        53.00        23.61         7.36 
TCGA-3A-A9IH TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS 
       28.73        60.95        68.52        63.85        50.70        30.64 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       31.79        34.09        10.13        12.39        75.12        71.74 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A7TX TCGA-FB-A4P5 
        9.70        19.46         7.10         7.66         3.12         5.88 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY 
       24.07        14.76        15.95        37.15         7.50        34.82 
TCGA-FB-AAQ6 TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 
        8.02         5.10        36.20        20.35        17.79        12.89 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7922 
       13.84        22.06        21.73         0.92         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
        0.26        27.62        20.19        17.03        23.21        12.03 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G 
        0.69         9.83        12.43        14.93         4.96        21.70 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A77P TCGA-IB-7645 TCGA-IB-7647 TCGA-IB-7649 
       16.14        10.13        10.85        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        23.80        41.33         3.62        43.79        15.81 
TCGA-IB-7890 TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SQ 
       19.66         3.85        15.98         2.47        12.00         7.20 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUP TCGA-IB-AAUQ 
       15.12        20.88         0.26         4.73        14.17         6.02 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A7SX 
       11.11         7.40         9.44        13.28         7.56        12.92 
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-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-US-A77E 
        0.30        21.24        17.26        22.85        27.75        14.14 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-YH-A8SY 
        0.39        18.67        13.81        12.99        12.03        12.76 
TCGA-Z5-AAPL 
        0.69 

  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                           0.23                            0.13 
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                          84.10                           75.12 
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                         14.765                          14.140 
[1] "0.2 - 84.1 (14.8)" "0.1 - 75.1 (14.1)"
[1] "hr=" "1.1"
D60V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 35(22Q13.31) MUTATED         1        0        1        11        41
  DEL PEAK 35(22Q13.31) WILD-TYPE       0        6       12        15        76
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 35(22Q13.31) MUTATED           0        2
  DEL PEAK 35(22Q13.31) WILD-TYPE         5        2
D60V3, multiclass
           clus
vv          DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  STAGE I                               1                               0
  STAGE IA                              0                               6
  STAGE IB                              1                              12
  STAGE IIA                            11                              15
  STAGE IIB                            41                              76
  STAGE III                             0                               5
  STAGE IV                              2                               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 35(22Q13.31) MUTATED    2  4 50  0
  DEL PEAK 35(22Q13.31) WILD-TYPE  6 17 89  4
D60V4, multiclass
    clus
vv   DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  T1                             2                               6
  T2                             4                              17
  T3                            50                              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"
D60V5, binary
                                 cls
clus                               0  1
  DEL PEAK 35(22Q13.31) MUTATED   12 42
  DEL PEAK 35(22Q13.31) WILD-TYPE 33 82
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 35(22Q13.31) MUTATED     12   42
  DEL PEAK 35(22Q13.31) WILD-TYPE   33   82
   clus
vv  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  0                            12                              33
  1                            42                              82
[1] 2 2
[1] FALSE
D60V6, binary
                                 cls
clus                               0  1
  DEL PEAK 35(22Q13.31) MUTATED   27  2
  DEL PEAK 35(22Q13.31) WILD-TYPE 53  2
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 35(22Q13.31) MUTATED     27    2
  DEL PEAK 35(22Q13.31) WILD-TYPE   53    2
   clus
vv  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  0                            27                              53
  1                             2                               2
[1] 2 2
[1] FALSE
D60V7, binary
                                 cls
clus                               0  1
  DEL PEAK 35(22Q13.31) MUTATED   21 35
  DEL PEAK 35(22Q13.31) WILD-TYPE 57 60
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 35(22Q13.31) MUTATED     21   35
  DEL PEAK 35(22Q13.31) WILD-TYPE   57   60
        clus
vv       DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  FEMALE                            21                              57
  MALE                              35                              60
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 35(22Q13.31) MUTATED                                    48
  DEL PEAK 35(22Q13.31) WILD-TYPE                                  97
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 35(22Q13.31) MUTATED                                       7
  DEL PEAK 35(22Q13.31) WILD-TYPE                                    15
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 35(22Q13.31) MUTATED                                                  1
  DEL PEAK 35(22Q13.31) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 35(22Q13.31) MUTATED                                     0
  DEL PEAK 35(22Q13.31) WILD-TYPE                                   1
D60V8, multiclass
                                                  clus
vv                                                 DEL PEAK 35(22Q13.31) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         48
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        7
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 DEL PEAK 35(22Q13.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                           97
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         15
  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"
D60V9, continuous
D60V10, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 35(22Q13.31) MUTATED   33 20  1  0
  DEL PEAK 35(22Q13.31) WILD-TYPE 75 31  1  4
D60V11, multiclass
    clus
vv   DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  R0                            33                              75
  R1                            20                              31
  R2                             1                               1
  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"
D60V12, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 35(22Q13.31) MUTATED       2                         1    53
  DEL PEAK 35(22Q13.31) WILD-TYPE     1                         6   105
D60V13, multiclass
                           clus
vv                          DEL PEAK 35(22Q13.31) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                53
                           clus
vv                          DEL PEAK 35(22Q13.31) WILD-TYPE
  ASIAN                                                   1
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 105
[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"
D60V14, binary
                                 cls
clus                               0  1
  DEL PEAK 35(22Q13.31) MUTATED    0 44
  DEL PEAK 35(22Q13.31) WILD-TYPE  3 91
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 35(22Q13.31) MUTATED      0   44
  DEL PEAK 35(22Q13.31) WILD-TYPE    3   91
                        clus
vv                       DEL PEAK 35(22Q13.31) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            44
                        clus
vv                       DEL PEAK 35(22Q13.31) WILD-TYPE
  HISPANIC OR LATINO                                   3
  NOT HISPANIC OR LATINO                              91
[1] 2 2
[1] FALSE

Clustering(61) Variable = DEL PEAK 36(22Q13.32) MUTATION ANALYSIS
D61V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 36(22Q13.32) MUTATED   26 32
  DEL PEAK 36(22Q13.32) WILD-TYPE 53 60
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                             58                             113 
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                             32                              60 
$`DEL PEAK 36(22Q13.32) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-2L-AAQE 
        2.63        22.72        22.26        31.86        14.47        22.49 
TCGA-2L-AAQM TCGA-3A-A9I9 TCGA-3A-A9IC TCGA-3A-A9IH TCGA-3A-A9IL TCGA-3A-A9IN 
       45.47        20.84        24.26        28.73        84.10        68.52 
TCGA-3A-A9IU TCGA-F2-6879 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A78T TCGA-FB-A7DR 
       15.06        10.98        19.27        17.00        12.43        11.61 
TCGA-FB-AAPU TCGA-FB-AAPZ TCGA-FB-AAQ0 TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 
       12.53        23.54        15.55         4.04         5.03         1.02 
TCGA-FZ-5919 TCGA-FZ-5920 TCGA-FZ-5924 TCGA-HZ-7919 TCGA-HZ-8005 TCGA-HZ-8636 
       24.36         2.01        15.78        19.50         3.95        17.92 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 
        6.38        21.60         5.26         1.08         0.23        12.95 
TCGA-IB-7646 TCGA-IB-7649 TCGA-IB-7654 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8127 
        4.77        15.35        15.65         4.04        21.30        17.16 
TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX TCGA-IB-A7M4 TCGA-IB-AAUO 
       15.85        21.90         1.35         8.22        15.88         7.86 
TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-RB-AA9M TCGA-US-A779 
        8.05         9.14         8.78        15.45         9.40        16.80 
TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YY-A8LH 
       12.03        13.32        11.51        66.28 

$`DEL PEAK 36(22Q13.32) WILD-TYPE`
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-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV 
       15.91        11.84        14.40        10.49         9.11        21.44 
TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL TCGA-3A-A9I5 TCGA-3A-A9I7 
        4.70         3.39        12.95         9.60        53.00        23.61 
TCGA-3A-A9IB TCGA-3A-A9IJ TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IV 
        7.36        60.95        63.85        50.70        30.64        31.79 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 
       34.09        10.13        12.39        75.12        71.74         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A7TX TCGA-FB-A4P5 TCGA-FB-A545 
       19.46         7.10         7.66         3.12         5.88        24.07 
TCGA-FB-A5VM TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS TCGA-FB-AAPY TCGA-FB-AAQ6 
       14.76        15.95        37.15         7.50        34.82         8.02 
TCGA-FZ-5921 TCGA-FZ-5922 TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-8124 TCGA-H6-A45N 
        5.10        36.20        20.35        17.79        12.89        13.84 
TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 
       22.06        21.73         0.92         7.76         0.13         0.26 
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         0.69 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
        9.83        12.43        14.93         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        23.80 
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-A5SS TCGA-IB-A5ST 
       15.98         2.47        12.00         7.20        15.12        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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
        9.44        13.28         7.56        12.92        12.46        10.29 
TCGA-M8-A5N4 TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RL-AAAS TCGA-S4-A8RM 
       19.20        13.68         3.12        15.32         0.30        21.24 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A77E TCGA-US-A77G 
       17.26        23.08        22.85        27.75        14.14         0.39 
TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YH-A8SY TCGA-Z5-AAPL 
       18.67        13.81        12.99        12.76         0.69 

  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                           0.23                            0.13 
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                          84.10                           75.12 
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                         15.205                          13.840 
[1] "0.2 - 84.1 (15.2)" "0.1 - 75.1 (13.8)"
[1] "hr=" "1.1"
D61V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 36(22Q13.32) MUTATED         1        1        2        11        41
  DEL PEAK 36(22Q13.32) WILD-TYPE       0        5       11        15        76
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 36(22Q13.32) MUTATED           0        2
  DEL PEAK 36(22Q13.32) WILD-TYPE         5        2
D61V3, multiclass
           clus
vv          DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  STAGE I                               1                               0
  STAGE IA                              1                               5
  STAGE IB                              2                              11
  STAGE IIA                            11                              15
  STAGE IIB                            41                              76
  STAGE III                             0                               5
  STAGE IV                              2                               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 36(22Q13.32) MUTATED    3  5 50  0
  DEL PEAK 36(22Q13.32) WILD-TYPE  5 16 89  4
D61V4, multiclass
    clus
vv   DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  T1                             3                               5
  T2                             5                              16
  T3                            50                              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"
D61V5, binary
                                 cls
clus                               0  1
  DEL PEAK 36(22Q13.32) MUTATED   13 42
  DEL PEAK 36(22Q13.32) WILD-TYPE 32 82
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 36(22Q13.32) MUTATED     13   42
  DEL PEAK 36(22Q13.32) WILD-TYPE   32   82
   clus
vv  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  0                            13                              32
  1                            42                              82
[1] 2 2
[1] FALSE
D61V6, binary
                                 cls
clus                               0  1
  DEL PEAK 36(22Q13.32) MUTATED   27  2
  DEL PEAK 36(22Q13.32) WILD-TYPE 53  2
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 36(22Q13.32) MUTATED     27    2
  DEL PEAK 36(22Q13.32) WILD-TYPE   53    2
   clus
vv  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  0                            27                              53
  1                             2                               2
[1] 2 2
[1] FALSE
D61V7, binary
                                 cls
clus                               0  1
  DEL PEAK 36(22Q13.32) MUTATED   23 35
  DEL PEAK 36(22Q13.32) WILD-TYPE 55 60
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 36(22Q13.32) MUTATED     23   35
  DEL PEAK 36(22Q13.32) WILD-TYPE   55   60
        clus
vv       DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  FEMALE                            23                              55
  MALE                              35                              60
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 36(22Q13.32) MUTATED                                    49
  DEL PEAK 36(22Q13.32) WILD-TYPE                                  96
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 36(22Q13.32) MUTATED                                       8
  DEL PEAK 36(22Q13.32) WILD-TYPE                                    14
                                 vv
clus                              PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 36(22Q13.32) MUTATED                                                  1
  DEL PEAK 36(22Q13.32) WILD-TYPE                                                3
                                 vv
clus                              PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 36(22Q13.32) MUTATED                                     0
  DEL PEAK 36(22Q13.32) WILD-TYPE                                   1
D61V8, multiclass
                                                  clus
vv                                                 DEL PEAK 36(22Q13.32) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         49
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 DEL PEAK 36(22Q13.32) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                           96
  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"
D61V9, continuous
D61V10, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 36(22Q13.32) MUTATED   32 23  1  0
  DEL PEAK 36(22Q13.32) WILD-TYPE 76 28  1  4
D61V11, multiclass
    clus
vv   DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  R0                            32                              76
  R1                            23                              28
  R2                             1                               1
  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"
D61V12, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 36(22Q13.32) MUTATED       2                         1    54
  DEL PEAK 36(22Q13.32) WILD-TYPE     1                         6   104
D61V13, multiclass
                           clus
vv                          DEL PEAK 36(22Q13.32) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                54
                           clus
vv                          DEL PEAK 36(22Q13.32) WILD-TYPE
  ASIAN                                                   1
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                 104
[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"
D61V14, binary
                                 cls
clus                               0  1
  DEL PEAK 36(22Q13.32) MUTATED    0 47
  DEL PEAK 36(22Q13.32) WILD-TYPE  3 88
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 36(22Q13.32) MUTATED      0   47
  DEL PEAK 36(22Q13.32) WILD-TYPE    3   88
                        clus
vv                       DEL PEAK 36(22Q13.32) MUTATED
  HISPANIC OR LATINO                                 0
  NOT HISPANIC OR LATINO                            47
                        clus
vv                       DEL PEAK 36(22Q13.32) WILD-TYPE
  HISPANIC OR LATINO                                   3
  NOT HISPANIC OR LATINO                              88
[1] 2 2
[1] FALSE

Clustering(62) Variable = DEL PEAK 37(XP21.1) MUTATION ANALYSIS
D62V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 37(XP21.1) MUTATED   14 12
  DEL PEAK 37(XP21.1) WILD-TYPE 65 80
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                           26                           145 
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                           12                            80 
$`DEL PEAK 37(XP21.1) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABI TCGA-2J-AABU TCGA-2L-AAQE TCGA-3A-A9I9 TCGA-3A-A9IL 
       23.97        31.86         9.11        22.49        20.84        84.10 
TCGA-3A-A9IS TCGA-F2-6879 TCGA-F2-A8YN TCGA-FB-A78T TCGA-FB-AAPZ TCGA-FB-AAQ0 
       30.64        10.98        17.00        12.43        23.54        15.55 
TCGA-FZ-5924 TCGA-H6-8124 TCGA-HZ-7918 TCGA-HZ-8001 TCGA-HZ-A8P1 TCGA-IB-A6UG 
       15.78        12.89         0.92        23.21         0.23         1.35 
TCGA-IB-A7LX TCGA-IB-AAUN TCGA-OE-A75W TCGA-Q3-AA2A TCGA-S4-A8RO TCGA-US-A774 
        8.22         4.73         8.78         3.12        17.26        22.85 
TCGA-US-A77G TCGA-YY-A8LH 
        0.39        66.28 

$`DEL PEAK 37(XP21.1) WILD-TYPE`
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-AABF TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR 
       22.72        22.26        15.91        14.47        11.84        14.40 
TCGA-2J-AABT TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL 
       10.49        21.44         4.70         3.39        12.95         9.60 
TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH 
       45.47        53.00        23.61         7.36        24.26        28.73 
TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IU TCGA-3A-A9IV 
       60.95        68.52        63.85        50.70        15.06        31.79 
TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ TCGA-F2-6880 
       34.09        10.13        12.39        75.12        71.74         9.70 
TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX TCGA-FB-A4P5 
       19.46         7.10         7.66        19.27         3.12         5.88 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-FB-AAPP TCGA-FB-AAPQ TCGA-FB-AAPS 
       24.07        14.76        11.61        15.95        37.15         7.50 
TCGA-FB-AAPU TCGA-FB-AAPY TCGA-FB-AAQ1 TCGA-FB-AAQ2 TCGA-FB-AAQ3 TCGA-FB-AAQ6 
       12.53        34.82         4.04         5.03         1.02         8.02 
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-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 
       13.84        22.06        21.73        19.50         7.76         0.13 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8002 TCGA-HZ-8003 
        0.26        27.62        20.19        17.03        12.03         0.69 
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-A4BK TCGA-HZ-A77O 
       21.70        16.14        10.13         6.38        21.60         5.26 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 TCGA-IB-7647 
       10.85         1.08        12.95        49.38         4.77        21.90 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 TCGA-IB-7886 
       15.35        19.82        23.80        15.65        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        21.30         3.85 
TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SQ 
       15.98         2.47        17.16        12.00        15.85         7.20 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUO 
       15.12        20.88        21.90        15.88         0.26         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-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
       13.28         7.56         9.14        12.92        12.46        10.29 
TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS 
       19.20        15.45        13.68        15.32         9.40         0.30 
TCGA-S4-A8RM TCGA-S4-A8RP TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77J 
       21.24        23.08        27.75        16.80        14.14        18.67 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY 
       13.81        12.99        12.03        13.32        11.51        12.76 
TCGA-Z5-AAPL 
        0.69 

  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                         0.23                          0.13 
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                        84.10                         75.12 
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                       15.665                        14.140 
[1] "0.2 - 84.1 (15.7)" "0.1 - 75.1 (14.1)"
[1] "hr=" "1.3"
D62V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 37(XP21.1) MUTATED         1        0        4         5        16
  DEL PEAK 37(XP21.1) WILD-TYPE       0        6        9        21       101
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 37(XP21.1) MUTATED           1        0
  DEL PEAK 37(XP21.1) WILD-TYPE         4        4
D62V3, multiclass
           clus
vv          DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            0                             6
  STAGE IB                            4                             9
  STAGE IIA                           5                            21
  STAGE IIB                          16                           101
  STAGE III                           1                             4
  STAGE IV                            0                             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 37(XP21.1) MUTATED     1   5  20   1
  DEL PEAK 37(XP21.1) WILD-TYPE   7  16 119   3
D62V4, multiclass
    clus
vv   DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  T1                           1                             7
  T2                           5                            16
  T3                          20                           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"
D62V5, binary
                               cls
clus                              0   1
  DEL PEAK 37(XP21.1) MUTATED     9  17
  DEL PEAK 37(XP21.1) WILD-TYPE  36 107
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 37(XP21.1) MUTATED      9   17
  DEL PEAK 37(XP21.1) WILD-TYPE   36  107
   clus
vv  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  0                           9                            36
  1                          17                           107
[1] 2 2
[1] FALSE
D62V6, binary
                               cls
clus                             0  1
  DEL PEAK 37(XP21.1) MUTATED   13  0
  DEL PEAK 37(XP21.1) WILD-TYPE 67  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 37(XP21.1) MUTATED     13    0
  DEL PEAK 37(XP21.1) WILD-TYPE   67    4
   clus
vv  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  0                          13                            67
  1                           0                             4
[1] 2 2
[1] FALSE
D62V7, binary
                               cls
clus                             0  1
  DEL PEAK 37(XP21.1) MUTATED   10 17
  DEL PEAK 37(XP21.1) WILD-TYPE 68 78
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 37(XP21.1) MUTATED     10   17
  DEL PEAK 37(XP21.1) WILD-TYPE   68   78
        clus
vv       DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  FEMALE                          10                            68
  MALE                            17                            78
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 37(XP21.1) MUTATED                                    22
  DEL PEAK 37(XP21.1) WILD-TYPE                                 123
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 37(XP21.1) MUTATED                                       5
  DEL PEAK 37(XP21.1) WILD-TYPE                                    17
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 37(XP21.1) MUTATED                                                  0
  DEL PEAK 37(XP21.1) WILD-TYPE                                                4
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 37(XP21.1) MUTATED                                     0
  DEL PEAK 37(XP21.1) WILD-TYPE                                   1
D62V8, multiclass
                                                  clus
vv                                                 DEL PEAK 37(XP21.1) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       22
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 37(XP21.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        123
  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"
D62V9, continuous
D62V10, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 37(XP21.1) MUTATED   22  4  0  1
  DEL PEAK 37(XP21.1) WILD-TYPE 86 47  2  3
D62V11, multiclass
    clus
vv   DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  R0                          22                            86
  R1                           4                            47
  R2                           0                             2
  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"
D62V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 37(XP21.1) MUTATED       0                         0    27
  DEL PEAK 37(XP21.1) WILD-TYPE     3                         7   131
D62V13, multiclass
                           clus
vv                          DEL PEAK 37(XP21.1) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              27
                           clus
vv                          DEL PEAK 37(XP21.1) WILD-TYPE
  ASIAN                                                 3
  BLACK OR AFRICAN AMERICAN                             7
  WHITE                                               131
[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"
D62V14, binary
                               cls
clus                              0   1
  DEL PEAK 37(XP21.1) MUTATED     1  21
  DEL PEAK 37(XP21.1) WILD-TYPE   2 114
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 37(XP21.1) MUTATED      1   21
  DEL PEAK 37(XP21.1) WILD-TYPE    2  114
                        clus
vv                       DEL PEAK 37(XP21.1) MUTATED
  HISPANIC OR LATINO                               1
  NOT HISPANIC OR LATINO                          21
                        clus
vv                       DEL PEAK 37(XP21.1) WILD-TYPE
  HISPANIC OR LATINO                                 2
  NOT HISPANIC OR LATINO                           114
[1] 2 2
[1] FALSE

Clustering(63) Variable = DEL PEAK 38(XQ11.2) MUTATION ANALYSIS
D63V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 38(XQ11.2) MUTATED   10 11
  DEL PEAK 38(XQ11.2) WILD-TYPE 69 81
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                           21                           150 
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                           11                            81 
$`DEL PEAK 38(XQ11.2) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABI TCGA-2J-AABU TCGA-2L-AAQE TCGA-3A-A9I9 TCGA-3A-A9IL 
       23.97        31.86         9.11        22.49        20.84        84.10 
TCGA-F2-6879 TCGA-F2-A8YN TCGA-FB-AAPZ TCGA-FZ-5920 TCGA-FZ-5924 TCGA-H6-8124 
       10.98        17.00        23.54         2.01        15.78        12.89 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-A8P1 TCGA-IB-7646 TCGA-IB-AAUN TCGA-LB-A7SX 
       21.73         0.92         0.23         4.77         4.73        12.92 
TCGA-OE-A75W TCGA-US-A776 TCGA-YY-A8LH 
        8.78        27.75        66.28 

$`DEL PEAK 38(XQ11.2) WILD-TYPE`
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-AABF TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR 
       22.72        22.26        15.91        14.47        11.84        14.40 
TCGA-2J-AABT TCGA-2J-AABV TCGA-2L-AAQA TCGA-2L-AAQI TCGA-2L-AAQJ TCGA-2L-AAQL 
       10.49        21.44         4.70         3.39        12.95         9.60 
TCGA-2L-AAQM TCGA-3A-A9I5 TCGA-3A-A9I7 TCGA-3A-A9IB TCGA-3A-A9IC TCGA-3A-A9IH 
       45.47        53.00        23.61         7.36        24.26        28.73 
TCGA-3A-A9IJ TCGA-3A-A9IN TCGA-3A-A9IO TCGA-3A-A9IR TCGA-3A-A9IS TCGA-3A-A9IU 
       60.95        68.52        63.85        50.70        30.64        15.06 
TCGA-3A-A9IV TCGA-3A-A9IX TCGA-3A-A9IZ TCGA-3A-A9J0 TCGA-3E-AAAY TCGA-3E-AAAZ 
       31.79        34.09        10.13        12.39        75.12        71.74 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A7TX 
        9.70        19.46         7.10         7.66        19.27         3.12 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAPP 
        5.88        24.07        14.76        12.43        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-FB-AAQ6 TCGA-FZ-5919 TCGA-FZ-5921 TCGA-FZ-5922 
        5.03         1.02         8.02        24.36         5.10        36.20 
TCGA-FZ-5923 TCGA-FZ-5926 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7920 
       20.35        17.79        13.84        22.06        19.50         7.76 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
        0.13         0.26        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         0.69         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-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-IB-7644 TCGA-IB-7645 
       21.60         5.26        10.85         1.08        12.95        49.38 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 
       21.90        15.35        19.82        23.80        15.65        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        21.30 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
        3.85        15.98         2.47        17.16        12.00        15.85 
TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX 
        7.20        15.12        20.88        21.90         1.35         8.22 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
       15.88         0.26         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-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
       12.46        10.29        19.20        15.45        13.68         3.12 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-RL-AAAS TCGA-S4-A8RM TCGA-S4-A8RO TCGA-S4-A8RP 
       15.32         9.40         0.30        21.24        17.26        23.08 
TCGA-US-A774 TCGA-US-A779 TCGA-US-A77E TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG 
       22.85        16.80        14.14         0.39        18.67        13.81 
TCGA-XD-AAUH TCGA-XD-AAUI TCGA-XD-AAUL TCGA-YB-A89D TCGA-YH-A8SY TCGA-Z5-AAPL 
       12.99        12.03        13.32        11.51        12.76         0.69 

  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                         0.23                          0.13 
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                        84.10                         75.12 
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                       15.780                        14.155 
[1] "0.2 - 84.1 (15.8)" "0.1 - 75.1 (14.2)"
[1] "hr=" "1.2"
D63V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 38(XQ11.2) MUTATED         1        0        2         5        13
  DEL PEAK 38(XQ11.2) WILD-TYPE       0        6       11        21       104
                               vv
clus                            STAGE III STAGE IV
  DEL PEAK 38(XQ11.2) MUTATED           0        0
  DEL PEAK 38(XQ11.2) WILD-TYPE         5        4
D63V3, multiclass
           clus
vv          DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  STAGE I                             1                             0
  STAGE IA                            0                             6
  STAGE IB                            2                            11
  STAGE IIA                           5                            21
  STAGE IIB                          13                           104
  STAGE III                           0                             5
  STAGE IV                            0                             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 38(XQ11.2) MUTATED     1   4  16   0
  DEL PEAK 38(XQ11.2) WILD-TYPE   7  17 123   4
D63V4, multiclass
    clus
vv   DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  T1                           1                             7
  T2                           4                            17
  T3                          16                           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"
D63V5, binary
                               cls
clus                              0   1
  DEL PEAK 38(XQ11.2) MUTATED     7  13
  DEL PEAK 38(XQ11.2) WILD-TYPE  38 111
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 38(XQ11.2) MUTATED      7   13
  DEL PEAK 38(XQ11.2) WILD-TYPE   38  111
   clus
vv  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  0                           7                            38
  1                          13                           111
[1] 2 2
[1] FALSE
D63V6, binary
                               cls
clus                             0  1
  DEL PEAK 38(XQ11.2) MUTATED   13  0
  DEL PEAK 38(XQ11.2) WILD-TYPE 67  4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 38(XQ11.2) MUTATED     13    0
  DEL PEAK 38(XQ11.2) WILD-TYPE   67    4
   clus
vv  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  0                          13                            67
  1                           0                             4
[1] 2 2
[1] FALSE
D63V7, binary
                               cls
clus                             0  1
  DEL PEAK 38(XQ11.2) MUTATED    6 15
  DEL PEAK 38(XQ11.2) WILD-TYPE 72 80
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 38(XQ11.2) MUTATED      6   15
  DEL PEAK 38(XQ11.2) WILD-TYPE   72   80
        clus
vv       DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  FEMALE                           6                            72
  MALE                            15                            80
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 38(XQ11.2) MUTATED                                    15
  DEL PEAK 38(XQ11.2) WILD-TYPE                                 130
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 38(XQ11.2) MUTATED                                       5
  DEL PEAK 38(XQ11.2) WILD-TYPE                                    17
                               vv
clus                            PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA
  DEL PEAK 38(XQ11.2) MUTATED                                                  1
  DEL PEAK 38(XQ11.2) WILD-TYPE                                                3
                               vv
clus                            PANCREAS-UNDIFFERENTIATED CARCINOMA
  DEL PEAK 38(XQ11.2) MUTATED                                     0
  DEL PEAK 38(XQ11.2) WILD-TYPE                                   1
D63V8, multiclass
                                                  clus
vv                                                 DEL PEAK 38(XQ11.2) MUTATED
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       15
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 38(XQ11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        130
  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"
D63V9, continuous
D63V10, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 38(XQ11.2) MUTATED   16  4  0  1
  DEL PEAK 38(XQ11.2) WILD-TYPE 92 47  2  3
D63V11, multiclass
    clus
vv   DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  R0                          16                            92
  R1                           4                            47
  R2                           0                             2
  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"
D63V12, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 38(XQ11.2) MUTATED       0                         2    19
  DEL PEAK 38(XQ11.2) WILD-TYPE     3                         5   139
D63V13, multiclass
                           clus
vv                          DEL PEAK 38(XQ11.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              19
                           clus
vv                          DEL PEAK 38(XQ11.2) WILD-TYPE
  ASIAN                                                 3
  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"
D63V14, binary
                               cls
clus                              0   1
  DEL PEAK 38(XQ11.2) MUTATED     0  16
  DEL PEAK 38(XQ11.2) WILD-TYPE   3 119
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 38(XQ11.2) MUTATED      0   16
  DEL PEAK 38(XQ11.2) WILD-TYPE    3  119
                        clus
vv                       DEL PEAK 38(XQ11.2) MUTATED
  HISPANIC OR LATINO                               0
  NOT HISPANIC OR LATINO                          16
                        clus
vv                       DEL PEAK 38(XQ11.2) WILD-TYPE
  HISPANIC OR LATINO                                 3
  NOT HISPANIC OR LATINO                           119
[1] 2 2
[1] FALSE
