[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"         "-nVNozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[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/11541627/PAAD-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/PAAD-TP/11544841/transformed.cor.cli.txt"

nPatients in clinical file=133, in cluster file=184, common to both=132
[1]  63 132
[1] "AMP PEAK  1(1P34.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                           11                           121 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                           11                           121 
[1] "AMP PEAK  2(1P12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         21                         111 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         21                         111 
[1] "AMP PEAK  3(1Q21.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           42                            90 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           42                            90 
[1] "AMP PEAK  4(2Q36.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           17                           115 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           17                           115 
[1] "AMP PEAK  5(3P12.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                            8                           124 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                            8                           124 
[1] "AMP PEAK  6(3Q26.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           23                           109 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           23                           109 
[1] "AMP PEAK  7(4P16.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                            8                           124 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                            8                           124 
[1] "AMP PEAK  8(6P21.31) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             7                            125 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             7                            125 
[1] "AMP PEAK  9(7Q22.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           36                            96 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           36                            96 
[1] "AMP PEAK 10(8P11.22) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            24                            108 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            24                            108 
[1] "AMP PEAK 11(8P11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            23                            109 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            23                            109 
[1] "AMP PEAK 12(8Q24.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            49                             83 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            49                             83 
[1] "AMP PEAK 13(9P13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                           16                           116 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                           16                           116 
[1] "AMP PEAK 14(12P13.33) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             21                             111 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             21                             111 
[1] "AMP PEAK 15(12P11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             23                             109 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             23                             109 
[1] "AMP PEAK 16(12Q15) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                          14                          118 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                          14                          118 
[1] "AMP PEAK 17(15Q26.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                            14                            118 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                            14                            118 
[1] "AMP PEAK 18(17P11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                             5                            127 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                             5                            127 
[1] "AMP PEAK 19(17Q12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          16                          116 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          16                          116 
[1] "AMP PEAK 20(18Q11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            40                             92 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            40                             92 
[1] "AMP PEAK 21(19P13.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                             7                            125 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                             7                            125 
[1] "AMP PEAK 22(19Q13.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                            31                            101 
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                            31                            101 
[1] "AMP PEAK 23(20P11.23) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                             25                             107 
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                             25                             107 
[1] "AMP PEAK 24(XP22.11) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                             6                            126 
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                             6                            126 
[1] "AMP PEAK 25(XQ27.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                           14                           118 
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                           14                           118 
[1] "DEL PEAK  1(1P36.32) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                            36                             96 
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                            36                             96 
[1] "DEL PEAK  2(1P36.11) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                            47                             85 
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                            47                             85 
[1] "DEL PEAK  3(2Q14.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                            5                           127 
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                            5                           127 
[1] "DEL PEAK  4(3P21.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                            33                             99 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                            33                             99 
[1] "DEL PEAK  5(4P15.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                            20                            112 
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                            20                            112 
[1] "DEL PEAK  6(4Q22.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                           18                           114 
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                           18                           114 
[1] "DEL PEAK  7(4Q34.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                           25                           107 
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                           25                           107 
[1] "DEL PEAK  8(5Q14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                           22                           110 
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                           22                           110 
[1] "DEL PEAK  9(6P25.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                           51                            81 
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                           51                            81 
[1] "DEL PEAK 10(6P22.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                           48                            84 
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                           48                            84 
[1] "DEL PEAK 11(6Q25.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           62                            70 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           62                            70 
[1] "DEL PEAK 12(7Q36.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                            8                           124 
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                            8                           124 
[1] "DEL PEAK 13(8P23.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                           40                            92 
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                           40                            92 
[1] "DEL PEAK 14(9P21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                           78                            54 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                           78                            54 
[1] "DEL PEAK 15(9Q22.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                            31                            101 
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                            31                            101 
[1] "DEL PEAK 16(10P15.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                            25                            107 
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                            25                            107 
[1] "DEL PEAK 17(10Q23.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                             23                             109 
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                             23                             109 
[1] "DEL PEAK 18(11P15.4) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                            17                            115 
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                            17                            115 
[1] "DEL PEAK 19(12P13.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                            18                            114 
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                            18                            114 
[1] "DEL PEAK 20(12Q12) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                          16                          116 
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                          16                          116 
[1] "DEL PEAK 21(12Q21.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                             28                             104 
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                             28                             104 
[1] "DEL PEAK 22(12Q24.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                             27                             105 
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                             27                             105 
[1] "DEL PEAK 23(13Q14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                            14                            118 
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                            14                            118 
[1] "DEL PEAK 24(14Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                            10                            122 
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                            10                            122 
[1] "DEL PEAK 25(15Q15.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                            23                            109 
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                            23                            109 
[1] "DEL PEAK 26(16Q23.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                             8                            124 
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                             8                            124 
[1] "DEL PEAK 27(17P12) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                          58                           74 
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                          58                           74 
[1] "DEL PEAK 28(17Q22) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                          34                           98 
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                          34                           98 
[1] "DEL PEAK 29(18P11.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                             39                              93 
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                             39                              93 
[1] "DEL PEAK 30(18Q21.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                            92                             40 
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                            92                             40 
[1] "DEL PEAK 31(19P13.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                            24                            108 
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                            24                            108 
[1] "DEL PEAK 32(19P13.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                            18                            114 
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                            18                            114 
[1] "DEL PEAK 33(19Q13.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                             18                             114 
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                             18                             114 
[1] "DEL PEAK 34(21Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                            44                             88 
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                            44                             88 
[1] "DEL PEAK 35(22Q13.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                             43                              89 
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                             43                              89 
[1] "DEL PEAK 36(22Q13.32) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                             42                              90 
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                             42                              90 
[1] "DEL PEAK 37(XP21.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                           21                           111 
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                           21                           111 
[1] "DEL PEAK 38(XQ11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                           16                           116 
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                           16                           116 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "PRIMARYSITEOFDISEASE"                  
 [6] "NEOPLASM.DISEASESTAGE"                 
 [7] "PATHOLOGY.T.STAGE"                     
 [8] "PATHOLOGY.N.STAGE"                     
 [9] "PATHOLOGY.M.STAGE"                     
[10] "DCCUPLOADDATE"                         
[11] "GENDER"                                
[12] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[13] "RADIATIONTHERAPY"                      
[14] "HISTOLOGICALTYPE"                      
[15] "RADIATIONS.RADIATION.REGIMENINDICATION"
[16] "NUMBERPACKYEARSSMOKED"                 
[17] "YEAROFTOBACCOSMOKINGONSET"             
[18] "COMPLETENESS.OF.RESECTION"             
[19] "NUMBER.OF.LYMPH.NODES"                 
[20] "RACE"                                  
[21] "ETHNICITY"                             
[22] "BATCHNUMBER"                           

Input Data has 22 rows and 132 columns.

[1] "Batch" "22"   
[1] "Last Follow UP"
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB6 TCGA-2J-AAB8 TCGA-2J-AAB9 TCGA-2J-AABA 
          NA          729           NA           80           NA           NA 
TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO 
         676           NA          677          969          484          440 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-2J-AABU TCGA-2J-AABV TCGA-3E-AAAY 
         360          438          319           NA           NA         2172 
TCGA-3E-AAAZ TCGA-F2-6879 TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-7276 TCGA-F2-A44G 
          NA           NA          295          360           NA          153 
TCGA-F2-A44H TCGA-F2-A7TX TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
         586           NA          167            4          385          449 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-FB-AAQ0 TCGA-FB-AAQ3 TCGA-FZ-5920 TCGA-FZ-5922 
         378          166           NA           NA           NA           NA 
TCGA-FZ-5923 TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 
          NA          392          233          396          240           28 
TCGA-HZ-7919 TCGA-HZ-7920 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
          20           NA            4            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8005 TCGA-HZ-8315 
           8           19           24           21           NA           28 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8637 TCGA-HZ-8638 TCGA-HZ-A49G 
          16            3            5           NA           91          660 
TCGA-HZ-A49H TCGA-HZ-A49I TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P 
         491           NA          194           46           11           13 
TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7645 TCGA-IB-7646 
          33           NA            7          347           NA           NA 
TCGA-IB-7647 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7654 TCGA-IB-7885 
          NA           NA           NA          724           NA         1257 
TCGA-IB-7886 TCGA-IB-7887 TCGA-IB-7888 TCGA-IB-7889 TCGA-IB-7890 TCGA-IB-7891 
          NA           NA           NA           NA           NA          648 
TCGA-IB-7893 TCGA-IB-7897 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
          NA           NA           75          522          329          300 
TCGA-IB-A5SQ TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7LX 
          NA           NA          635          248           NA           NA 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUN TCGA-IB-AAUO TCGA-IB-AAUP TCGA-IB-AAUQ 
         181            8           NA           NA          290           NA 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
         128          179          188          153          210          179 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
         164          127           35          155          584          110 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM 
         247          416           95           36           42          397 
TCGA-S4-A8RO TCGA-S4-A8RP TCGA-US-A774 TCGA-US-A776 TCGA-US-A779 TCGA-US-A77E 
         197           NA           NA          844           NA           NA 
TCGA-US-A77G TCGA-US-A77J TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
          NA           NA          161          164          160         1834 
Variable 1:'AGE':	nDistinctValues=40,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=53,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=78,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'NEOPLASM.DISEASESTAGE':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY.T.STAGE':	nDistinctValues=4,	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:'DCCUPLOADDAY':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=7,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 13:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
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.
Variable 16:'NUMBERPACKYEARSSMOKED':	nDistinctValues=26,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 17:'YEAROFTOBACCOSMOKINGONSET':	nDistinctValues=25,	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=15,	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=TRUE.
Variable 22:'BATCH.NUMBER':	nDistinctValues=15,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                       "NEOPLASM.DISEASESTAGE"    
 [3] "PATHOLOGY.T.STAGE"         "PATHOLOGY.N.STAGE"        
 [5] "PATHOLOGY.M.STAGE"         "GENDER"                   
 [7] "HISTOLOGICAL.TYPE"         "NUMBERPACKYEARSSMOKED"    
 [9] "COMPLETENESS.OF.RESECTION" "NUMBER.OF.LYMPH.NODES"    
[11] "RACE"                     
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "3"          
[1] "PATHOLOGY.N" "4"          
Output Data has 132 columns, 1 survival variables, and 11 non-survival variables.
AGE, nv=40, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=6, binary=FALSE, numeric=FALSE
PATHOLOGY.T.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T1  T2  T3  T4 
  3  12 115   2 
[1] "table(vv)"
vv
T1+T2 T3+T4 
   15   117 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
 T1  T2  T3  T4 
  3  12 115   2 

$ClinVariableType
[1] "binary"

$Class0_nSamples
[1] 15

$Class1_nSamples
[1] 117

$Class0_label
[1] "T1+T2"

$Class1_label
[1] "T3+T4"


T1+T2 T3+T4 
   15   117 
PATHOLOGY.N.STAGE, nv=2, binary=FALSE, numeric=TRUE
PATHOLOGY.M.STAGE, nv=3, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL.TYPE, nv=4, binary=FALSE, numeric=FALSE
NUMBERPACKYEARSSMOKED, nv=26, binary=FALSE, numeric=TRUE
COMPLETENESS.OF.RESECTION, nv=4, binary=FALSE, numeric=FALSE
NUMBER.OF.LYMPH.NODES, nv=15, binary=FALSE, numeric=TRUE
RACE, nv=3, 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    6  1
  AMP PEAK  1(1P34.2) WILD-TYPE 71 17
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                            7                            88 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                            1                            17 
$`AMP PEAK  1(1P34.2) MUTATED`
TCGA-2J-AABF TCGA-2J-AABP TCGA-HZ-7289 TCGA-HZ-7925 TCGA-IB-AAUM TCGA-RB-A7B8 
        1960          360          240          361            8           36 
TCGA-US-A776 
         844 

$`AMP PEAK  1(1P34.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI 
        1962          729           80          676          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         484          440          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
         360          153          586          167            4          385 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
         449          378          166          392          233          396 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 
          28           20            4            8          840            8 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
          19           24           21           28           16            3 
TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK 
           5           91          660          491          194           46 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 
          11           13           33         1968            7          347 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 
        1951         1989          724         1257         1975          648 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST 
          75          522          329          300         1991          635 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
         248         1968          181          290         1978          128 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
         179          188          153          210          179          164 
TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
         127           35          155          584          110          247 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 
         416           95           42          397          197         1955 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         161          164          160         1834 

  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                            8                             3 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                         1960                          2172 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                          360                           240 
[1] "8.0 - 1960.0 (360.0)" "3.0 - 2172.0 (240.0)"
[1] "hr=" "1.1"
D1V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK  1(1P34.2) MUTATED          0        0         2         8         0
  AMP PEAK  1(1P34.2) WILD-TYPE        2        7        20        87         2
                               vv
clus                            STAGE IV
  AMP PEAK  1(1P34.2) MUTATED          1
  AMP PEAK  1(1P34.2) WILD-TYPE        3
D1V3, multiclass
           clus
vv          AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            0                             7
  STAGE IIA                           2                            20
  STAGE IIB                           8                            87
  STAGE III                           0                             2
  STAGE IV                            1                             3
[1] 6 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       2     9
  AMP PEAK  1(1P34.2) WILD-TYPE    13   108
D1V4, multiclass
       clus
vv      AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  T1+T2                           2                            13
  T3+T4                           9                           108
[1] 2 2
[1] FALSE
D1V5, binary
                               cls
clus                             0  1
  AMP PEAK  1(1P34.2) MUTATED    2  9
  AMP PEAK  1(1P34.2) WILD-TYPE 29 91
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      2    9
  AMP PEAK  1(1P34.2) WILD-TYPE   29   91
   clus
vv  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  0                           2                            29
  1                           9                            91
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  AMP PEAK  1(1P34.2) MUTATED    5  1  5
  AMP PEAK  1(1P34.2) WILD-TYPE 69  3 49
D1V6, multiclass
    clus
vv   AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  M0                           5                            69
  M1                           1                             3
  MX                           5                            49
[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"
D1V7, binary
                               cls
clus                             0  1
  AMP PEAK  1(1P34.2) MUTATED    3  8
  AMP PEAK  1(1P34.2) WILD-TYPE 57 64
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      3    8
  AMP PEAK  1(1P34.2) WILD-TYPE   57   64
        clus
vv       AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  FEMALE                           3                            57
  MALE                             8                            64
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  1(1P34.2) MUTATED                                     7
  AMP PEAK  1(1P34.2) WILD-TYPE                                 106
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  1(1P34.2) MUTATED                                       2
  AMP PEAK  1(1P34.2) WILD-TYPE                                    12
                               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                                        7
  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                                        106
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       12
  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                            43 
                   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-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-H6-8124                    TCGA-H6-A45N 
"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-7887 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-7891                    TCGA-IB-8126 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-8127                    TCGA-IB-A5SS 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-A6UF                    TCGA-IB-A6UG 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-A7M4                    TCGA-IB-AAUQ 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-AAUS                    TCGA-IB-AAUT 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IB-AAUU                    TCGA-IB-AAUV 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LB-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-S4-A8RP                    TCGA-US-A774 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-YY-A8LH 
"AMP PEAK  1(1P34.2) WILD-TYPE" 
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  1(1P34.2) MUTATED    9  1  0  1
  AMP PEAK  1(1P34.2) WILD-TYPE 71 41  2  2
D1V10, multiclass
    clus
vv   AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  R0                           9                            71
  R1                           1                            41
  R2                           0                             2
  RX                           1                             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"
D1V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  1(1P34.2) MUTATED       0                         0    11
  AMP PEAK  1(1P34.2) WILD-TYPE     2                         6   109
D1V12, multiclass
                           clus
vv                          AMP PEAK  1(1P34.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              11
                           clus
vv                          AMP PEAK  1(1P34.2) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             6
  WHITE                                               109
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = AMP PEAK  2(1P12) MUTATION ANALYSIS
D2V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  2(1P12) MUTATED   12  2
  AMP PEAK  2(1P12) WILD-TYPE 65 16
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                         14                          81 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                          2                          16 
$`AMP PEAK  2(1P12) MUTATED`
TCGA-2J-AABF TCGA-2J-AABP TCGA-FB-A78T TCGA-HZ-7925 TCGA-HZ-8636 TCGA-HZ-A8P1 
        1960          360          378          361            5            7 
TCGA-IB-A6UG TCGA-IB-AAUM TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-RB-A7B8 TCGA-S4-A8RM 
        1968            8           35          584           36          397 
TCGA-S4-A8RO TCGA-US-A776 
         197          844 

$`AMP PEAK  2(1P12) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI 
        1962          729           80          676          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         484          440          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
         360          153          586          167            4          385 
TCGA-FB-A5VM TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 
         449          166          392          233          396          240 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 
          28           20            4            8          840            8 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
          19           24           21           28           16            3 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O 
          91          660          491          194           46           11 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 
          13           33         1968          347         1951         1989 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 
         724         1257         1975          648           75          522 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 
         329          300         1991          635          248          181 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
         290         1978          128          179          188          153 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A9Q5 TCGA-OE-A75W 
         210          179          164          127          155          110 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-US-A774 TCGA-XD-AAUG 
         247          416           95           42         1955          161 
TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         164          160         1834 

  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                          5                           3 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                       1968                        2172 
  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE 
                      360.5                       240.0 
[1] "5.0 - 1968.0 (360.5)" "3.0 - 2172.0 (240.0)"
[1] "hr=" "1.2"
D2V2, continuous
                             vv
clus                          STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK  2(1P12) MUTATED          0        1         4        14         0
  AMP PEAK  2(1P12) WILD-TYPE        2        6        18        81         2
                             vv
clus                          STAGE IV
  AMP PEAK  2(1P12) MUTATED          2
  AMP PEAK  2(1P12) WILD-TYPE        2
D2V3, multiclass
           clus
vv          AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  STAGE IA                          0                           2
  STAGE IB                          1                           6
  STAGE IIA                         4                          18
  STAGE IIB                        14                          81
  STAGE III                         0                           2
  STAGE IV                          2                           2
[1] 6 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       2    19
  AMP PEAK  2(1P12) WILD-TYPE    13    98
D2V4, multiclass
       clus
vv      AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  T1+T2                         2                          13
  T3+T4                        19                          98
[1] 2 2
[1] FALSE
D2V5, binary
                             cls
clus                           0  1
  AMP PEAK  2(1P12) MUTATED    6 15
  AMP PEAK  2(1P12) WILD-TYPE 25 85
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED      6   15
  AMP PEAK  2(1P12) WILD-TYPE   25   85
   clus
vv  AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  0                         6                          25
  1                        15                          85
[1] 2 2
[1] FALSE
                             vv
clus                          M0 M1 MX
  AMP PEAK  2(1P12) MUTATED   10  2  9
  AMP PEAK  2(1P12) WILD-TYPE 64  2 45
D2V6, multiclass
    clus
vv   AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  M0                        10                          64
  M1                         2                           2
  MX                         9                          45
[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"
D2V7, binary
                             cls
clus                           0  1
  AMP PEAK  2(1P12) MUTATED   11 10
  AMP PEAK  2(1P12) WILD-TYPE 49 62
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1P12) MUTATED     11   10
  AMP PEAK  2(1P12) WILD-TYPE   49   62
        clus
vv       AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  FEMALE                        11                          49
  MALE                          10                          62
[1] 2 2
[1] FALSE
                             vv
clus                          PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  2(1P12) MUTATED                                    18
  AMP PEAK  2(1P12) WILD-TYPE                                  95
                             vv
clus                          PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  2(1P12) MUTATED                                       1
  AMP PEAK  2(1P12) WILD-TYPE                                    13
                             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                                     18
  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                                       95
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     13
  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
                             vv
clus                          R0 R1 R2 RX
  AMP PEAK  2(1P12) MUTATED   16  5  0  0
  AMP PEAK  2(1P12) WILD-TYPE 64 37  2  3
D2V10, multiclass
    clus
vv   AMP PEAK  2(1P12) MUTATED AMP PEAK  2(1P12) WILD-TYPE
  R0                        16                          64
  R1                         5                          37
  R2                         0                           2
  RX                         0                           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"
D2V11, continuous
                             vv
clus                          ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  2(1P12) MUTATED       0                         2    17
  AMP PEAK  2(1P12) WILD-TYPE     2                         4   103
D2V12, multiclass
                           clus
vv                          AMP PEAK  2(1P12) MUTATED
  ASIAN                                             0
  BLACK OR AFRICAN AMERICAN                         2
  WHITE                                            17
                           clus
vv                          AMP PEAK  2(1P12) WILD-TYPE
  ASIAN                                               2
  BLACK OR AFRICAN AMERICAN                           4
  WHITE                                             103
[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"

Clustering(3) Variable = AMP PEAK  3(1Q21.3) MUTATION ANALYSIS
D3V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  3(1Q21.3) MUTATED   25  4
  AMP PEAK  3(1Q21.3) WILD-TYPE 52 14
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                           29                            66 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                            4                            14 
$`AMP PEAK  3(1Q21.3) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK 
          80          676         1960          677          969          484 
TCGA-2J-AABP TCGA-FB-A78T TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7925 TCGA-HZ-8636 
         360          378          396           28          361            5 
TCGA-HZ-A77O TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7651 TCGA-IB-7886 TCGA-IB-7891 
          11         1968            7         1989         1975          648 
TCGA-IB-8127 TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUM TCGA-LB-A8F3 TCGA-M8-A5N4 
         522          248         1968            8           35          584 
TCGA-RB-A7B8 TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A776 TCGA-YY-A8LH 
          36          397          197          844         1834 

$`AMP PEAK  3(1Q21.3) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
        1962          729          440          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7289 
         385          449          166          392          233          240 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 
          20            4            8          840            8           19 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 
          24           21           28           16            3           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q 
         660          491          194           46           13           33 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-8126 TCGA-IB-A5SO 
         347         1951          724         1257           75          329 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUP TCGA-IB-AAUQ 
         300         1991          635          181          290         1978 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
         128          179          188          153          210          179 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
         164          127          155          110          247          416 
TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
          95           42         1955          161          164          160 

  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                            5                             3 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                         1989                          2172 
  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE 
                        397.0                         184.5 
[1] "5.0 - 1989.0 (397.0)" "3.0 - 2172.0 (184.5)"
[1] "hr=" "2.3"
D3V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK  3(1Q21.3) MUTATED          0        2        11        27         0
  AMP PEAK  3(1Q21.3) WILD-TYPE        2        5        11        68         2
                               vv
clus                            STAGE IV
  AMP PEAK  3(1Q21.3) MUTATED          2
  AMP PEAK  3(1Q21.3) WILD-TYPE        2
D3V3, multiclass
           clus
vv          AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            2                             5
  STAGE IIA                          11                            11
  STAGE IIB                          27                            68
  STAGE III                           0                             2
  STAGE IV                            2                             2
[1] 6 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       4    38
  AMP PEAK  3(1Q21.3) WILD-TYPE    11    79
D3V4, multiclass
       clus
vv      AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  T1+T2                           4                            11
  T3+T4                          38                            79
[1] 2 2
[1] FALSE
D3V5, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED   14 28
  AMP PEAK  3(1Q21.3) WILD-TYPE 17 72
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED     14   28
  AMP PEAK  3(1Q21.3) WILD-TYPE   17   72
   clus
vv  AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  0                          14                            17
  1                          28                            72
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  AMP PEAK  3(1Q21.3) MUTATED   24  2 16
  AMP PEAK  3(1Q21.3) WILD-TYPE 50  2 38
D3V6, multiclass
    clus
vv   AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  M0                          24                            50
  M1                           2                             2
  MX                          16                            38
[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"
D3V7, binary
                               cls
clus                             0  1
  AMP PEAK  3(1Q21.3) MUTATED   17 25
  AMP PEAK  3(1Q21.3) WILD-TYPE 43 47
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q21.3) MUTATED     17   25
  AMP PEAK  3(1Q21.3) WILD-TYPE   43   47
        clus
vv       AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  FEMALE                          17                            43
  MALE                            25                            47
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  3(1Q21.3) MUTATED                                    36
  AMP PEAK  3(1Q21.3) WILD-TYPE                                  77
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  3(1Q21.3) MUTATED                                       4
  AMP PEAK  3(1Q21.3) WILD-TYPE                                    10
                               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                                       36
  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                                         77
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       10
  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
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  3(1Q21.3) MUTATED   30 11  0  0
  AMP PEAK  3(1Q21.3) WILD-TYPE 50 31  2  3
D3V10, multiclass
    clus
vv   AMP PEAK  3(1Q21.3) MUTATED AMP PEAK  3(1Q21.3) WILD-TYPE
  R0                          30                            50
  R1                          11                            31
  R2                           0                             2
  RX                           0                             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"
D3V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  3(1Q21.3) MUTATED       0                         2    38
  AMP PEAK  3(1Q21.3) WILD-TYPE     2                         4    82
D3V12, multiclass
                           clus
vv                          AMP PEAK  3(1Q21.3) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              38
                           clus
vv                          AMP PEAK  3(1Q21.3) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(4) Variable = AMP PEAK  4(2Q36.2) MUTATION ANALYSIS
D4V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  4(2Q36.2) MUTATED   13  2
  AMP PEAK  4(2Q36.2) WILD-TYPE 64 16
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           15                            80 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                            2                            16 
$`AMP PEAK  4(2Q36.2) MUTATED`
TCGA-2J-AABE TCGA-2J-AABO TCGA-FB-A545 TCGA-HZ-7918 TCGA-HZ-A77P TCGA-IB-7651 
         676          440          385           28           13         1989 
TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-AAUU TCGA-L1-A7W4 
         724         1975          522          300          153          164 
TCGA-OE-A75W TCGA-S4-A8RO TCGA-YB-A89D 
         110          197          160 

$`AMP PEAK  4(2Q36.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI 
        1962          729           80         1960          677          969 
TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         484          360          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM 
         360          153          586          167            4          449 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 
         378          166          392          233          396          240 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
          20            4            8          840          361            8 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
          19           24           21           28           16            3 
TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK 
           5           91          660          491          194           46 
TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 
          11           33         1968            7          347         1951 
TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SS TCGA-IB-A5ST 
        1257          648           75          329         1991          635 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ 
         248         1968          181            8          290         1978 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A7SX 
         128          179          188          210          179          127 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
          35          155          584          247          416           95 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG 
          36           42          397         1955          844          161 
TCGA-XD-AAUH TCGA-YY-A8LH 
         164         1834 

  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                           13                             3 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                         1989                          2172 
  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE 
                        300.0                         243.5 
[1] "13.0 - 1989.0 (300.0)" "3.0 - 2172.0 (243.5)" 
[1] "hr=" "2.1"
D4V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK  4(2Q36.2) MUTATED          0        0         4        13         0
  AMP PEAK  4(2Q36.2) WILD-TYPE        2        7        18        82         2
                               vv
clus                            STAGE IV
  AMP PEAK  4(2Q36.2) MUTATED          0
  AMP PEAK  4(2Q36.2) WILD-TYPE        4
D4V3, multiclass
           clus
vv          AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            0                             7
  STAGE IIA                           4                            18
  STAGE IIB                          13                            82
  STAGE III                           0                             2
  STAGE IV                            0                             4
[1] 6 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    17
  AMP PEAK  4(2Q36.2) WILD-TYPE    15   100
D4V4, multiclass
       clus
vv      AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  T1+T2                           0                            15
  T3+T4                          17                           100
[1] 2 2
[1] FALSE
D4V5, binary
                               cls
clus                             0  1
  AMP PEAK  4(2Q36.2) MUTATED    4 13
  AMP PEAK  4(2Q36.2) WILD-TYPE 27 87
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED      4   13
  AMP PEAK  4(2Q36.2) WILD-TYPE   27   87
   clus
vv  AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  0                           4                            27
  1                          13                            87
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  AMP PEAK  4(2Q36.2) MUTATED   14  0  3
  AMP PEAK  4(2Q36.2) WILD-TYPE 60  4 51
D4V6, multiclass
    clus
vv   AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  M0                          14                            60
  M1                           0                             4
  MX                           3                            51
[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"
D4V7, binary
                               cls
clus                             0  1
  AMP PEAK  4(2Q36.2) MUTATED    5 12
  AMP PEAK  4(2Q36.2) WILD-TYPE 55 60
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2Q36.2) MUTATED      5   12
  AMP PEAK  4(2Q36.2) WILD-TYPE   55   60
        clus
vv       AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  FEMALE                           5                            55
  MALE                            12                            60
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  4(2Q36.2) MUTATED                                    16
  AMP PEAK  4(2Q36.2) WILD-TYPE                                  97
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  4(2Q36.2) MUTATED                                       1
  AMP PEAK  4(2Q36.2) WILD-TYPE                                    13
                               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                                       16
  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                                         97
  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"
D4V9, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  4(2Q36.2) MUTATED    9  6  1  0
  AMP PEAK  4(2Q36.2) WILD-TYPE 71 36  1  3
D4V10, multiclass
    clus
vv   AMP PEAK  4(2Q36.2) MUTATED AMP PEAK  4(2Q36.2) WILD-TYPE
  R0                           9                            71
  R1                           6                            36
  R2                           1                             1
  RX                           0                             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"
D4V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  4(2Q36.2) MUTATED       1                         0    16
  AMP PEAK  4(2Q36.2) WILD-TYPE     1                         6   104
D4V12, multiclass
                           clus
vv                          AMP PEAK  4(2Q36.2) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              16
                           clus
vv                          AMP PEAK  4(2Q36.2) 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"

Clustering(5) Variable = AMP PEAK  5(3P12.2) MUTATION ANALYSIS
D5V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  5(3P12.2) MUTATED    2  1
  AMP PEAK  5(3P12.2) WILD-TYPE 75 17
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                            3                            92 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                            1                            17 
$`AMP PEAK  5(3P12.2) MUTATED`
TCGA-FB-A5VM TCGA-HZ-7918 TCGA-IB-A6UG 
         449           28         1968 

$`AMP PEAK  5(3P12.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT 
         969          484          440          360          438          319 
TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN 
        2172          295          360          153          586          167 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N 
           4          385          378          166          392          233 
TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
         396          240           20            4            8          840 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 
         361            8           19           24           21           28 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
          16            3            5           91          660          491 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 
         194           46           11           13           33         1968 
TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
           7          347         1951         1989          724         1257 
TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
        1975          648           75          522          329          300 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
        1991          635          248          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        1978          128          179          188          153          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
         179          164          127           35          155          584 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
         110          247          416           95           36           42 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH 
         397          197         1955          844          161          164 
TCGA-YB-A89D TCGA-YY-A8LH 
         160         1834 

  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                           28                             3 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                         1968                          2172 
  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE 
                        449.0                         243.5 
[1] "28.0 - 1968.0 (449.0)" "3.0 - 2172.0 (243.5)" 
[1] "hr=" "1.1"
D5V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK  5(3P12.2) MUTATED          0        1         2         5         0
  AMP PEAK  5(3P12.2) WILD-TYPE        2        6        20        90         2
                               vv
clus                            STAGE IV
  AMP PEAK  5(3P12.2) MUTATED          0
  AMP PEAK  5(3P12.2) WILD-TYPE        4
D5V3, multiclass
           clus
vv          AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            1                             6
  STAGE IIA                           2                            20
  STAGE IIB                           5                            90
  STAGE III                           0                             2
  STAGE IV                            0                             4
[1] 6 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       1     7
  AMP PEAK  5(3P12.2) WILD-TYPE    14   110
D5V4, multiclass
       clus
vv      AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  T1+T2                           1                            14
  T3+T4                           7                           110
[1] 2 2
[1] FALSE
D5V5, binary
                               cls
clus                             0  1
  AMP PEAK  5(3P12.2) MUTATED    3  5
  AMP PEAK  5(3P12.2) WILD-TYPE 28 95
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED      3    5
  AMP PEAK  5(3P12.2) WILD-TYPE   28   95
   clus
vv  AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  0                           3                            28
  1                           5                            95
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  AMP PEAK  5(3P12.2) MUTATED    8  0  0
  AMP PEAK  5(3P12.2) WILD-TYPE 66  4 54
D5V6, multiclass
    clus
vv   AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  M0                           8                            66
  M1                           0                             4
  MX                           0                            54
[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"
D5V7, binary
                               cls
clus                             0  1
  AMP PEAK  5(3P12.2) MUTATED    0  8
  AMP PEAK  5(3P12.2) WILD-TYPE 60 64
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(3P12.2) MUTATED      0    8
  AMP PEAK  5(3P12.2) WILD-TYPE   60   64
        clus
vv       AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  FEMALE                           0                            60
  MALE                             8                            64
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  5(3P12.2) MUTATED                                     8
  AMP PEAK  5(3P12.2) WILD-TYPE                                 105
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  5(3P12.2) MUTATED                                       0
  AMP PEAK  5(3P12.2) WILD-TYPE                                    14
                               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                                        8
  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                                        105
  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"
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                            42 
                   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-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-H6-8124                    TCGA-H6-A45N 
"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-7887 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-7891                    TCGA-IB-8126 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-8127                    TCGA-IB-A5SS 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-A6UF                    TCGA-IB-A7M4 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-AAUQ                    TCGA-IB-AAUS 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-AAUT                    TCGA-IB-AAUU 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-IB-AAUV                    TCGA-LB-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-S4-A8RP 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                   TCGA-US-A774                    TCGA-YY-A8LH 
"AMP PEAK  5(3P12.2) WILD-TYPE" "AMP PEAK  5(3P12.2) WILD-TYPE" 
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  5(3P12.2) MUTATED    5  3  0  0
  AMP PEAK  5(3P12.2) WILD-TYPE 75 39  2  3
D5V10, multiclass
    clus
vv   AMP PEAK  5(3P12.2) MUTATED AMP PEAK  5(3P12.2) WILD-TYPE
  R0                           5                            75
  R1                           3                            39
  R2                           0                             2
  RX                           0                             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"
D5V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  5(3P12.2) MUTATED       0                         1     7
  AMP PEAK  5(3P12.2) WILD-TYPE     2                         5   113
D5V12, multiclass
                           clus
vv                          AMP PEAK  5(3P12.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                               7
                           clus
vv                          AMP PEAK  5(3P12.2) 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"

Clustering(6) Variable = AMP PEAK  6(3Q26.2) MUTATION ANALYSIS
D6V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  6(3Q26.2) MUTATED   10  1
  AMP PEAK  6(3Q26.2) WILD-TYPE 67 17
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                           11                            84 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                            1                            17 
$`AMP PEAK  6(3Q26.2) MUTATED`
TCGA-2J-AAB8 TCGA-FB-A5VM TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-8636 TCGA-HZ-A4BK 
          80          449           28            4            5           46 
TCGA-IB-A6UG TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-RB-A7B8 
        1968          164          127          584           36 

$`AMP PEAK  6(3Q26.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI 
        1962          729          676         1960          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         484          440          360          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
         385          378          166          392          233          396 
TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
         240           20            8          840          361            8 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
          19           24           21           28           16            3 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P 
          91          660          491          194           11           13 
TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 
          33         1968            7          347         1951         1989 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 
         724         1257         1975          648           75          522 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 
         329          300         1991          635          248          181 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
           8          290         1978          128          179          188 
TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-OE-A75W 
         153          210          179           35          155          110 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO 
         247          416           95           42          397          197 
TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
        1955          844          161          164          160         1834 

  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                            4                             3 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                         1968                          2172 
  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE 
                         80.0                         292.5 
[1] "4.0 - 1968.0 (80.0)"  "3.0 - 2172.0 (292.5)"
[1] "hr=" "1.3"
D6V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK  6(3Q26.2) MUTATED          0        2         3        17         0
  AMP PEAK  6(3Q26.2) WILD-TYPE        2        5        19        78         2
                               vv
clus                            STAGE IV
  AMP PEAK  6(3Q26.2) MUTATED          1
  AMP PEAK  6(3Q26.2) WILD-TYPE        3
D6V3, multiclass
           clus
vv          AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            2                             5
  STAGE IIA                           3                            19
  STAGE IIB                          17                            78
  STAGE III                           0                             2
  STAGE IV                            1                             3
[1] 6 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       2    21
  AMP PEAK  6(3Q26.2) WILD-TYPE    13    96
D6V4, multiclass
       clus
vv      AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  T1+T2                           2                            13
  T3+T4                          21                            96
[1] 2 2
[1] FALSE
D6V5, binary
                               cls
clus                             0  1
  AMP PEAK  6(3Q26.2) MUTATED    6 17
  AMP PEAK  6(3Q26.2) WILD-TYPE 25 83
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED      6   17
  AMP PEAK  6(3Q26.2) WILD-TYPE   25   83
   clus
vv  AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  0                           6                            25
  1                          17                            83
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  AMP PEAK  6(3Q26.2) MUTATED   15  1  7
  AMP PEAK  6(3Q26.2) WILD-TYPE 59  3 47
D6V6, multiclass
    clus
vv   AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  M0                          15                            59
  M1                           1                             3
  MX                           7                            47
[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"
D6V7, binary
                               cls
clus                             0  1
  AMP PEAK  6(3Q26.2) MUTATED    8 15
  AMP PEAK  6(3Q26.2) WILD-TYPE 52 57
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(3Q26.2) MUTATED      8   15
  AMP PEAK  6(3Q26.2) WILD-TYPE   52   57
        clus
vv       AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  FEMALE                           8                            52
  MALE                            15                            57
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  6(3Q26.2) MUTATED                                    20
  AMP PEAK  6(3Q26.2) WILD-TYPE                                  93
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  6(3Q26.2) MUTATED                                       3
  AMP PEAK  6(3Q26.2) WILD-TYPE                                    11
                               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                                       20
  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                                         93
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       11
  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
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  6(3Q26.2) MUTATED    9 13  1  0
  AMP PEAK  6(3Q26.2) WILD-TYPE 71 29  1  3
D6V10, multiclass
    clus
vv   AMP PEAK  6(3Q26.2) MUTATED AMP PEAK  6(3Q26.2) WILD-TYPE
  R0                           9                            71
  R1                          13                            29
  R2                           1                             1
  RX                           0                             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"
D6V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  6(3Q26.2) MUTATED       0                         2    19
  AMP PEAK  6(3Q26.2) WILD-TYPE     2                         4   101
D6V12, multiclass
                           clus
vv                          AMP PEAK  6(3Q26.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              19
                           clus
vv                          AMP PEAK  6(3Q26.2) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                               101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = AMP PEAK  7(4P16.3) MUTATION ANALYSIS
D7V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  7(4P16.3) MUTATED    5  1
  AMP PEAK  7(4P16.3) WILD-TYPE 72 17
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                            6                            89 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                            1                            17 
$`AMP PEAK  7(4P16.3) MUTATED`
TCGA-2J-AABP TCGA-FB-A7DR TCGA-HZ-7922 TCGA-IB-A5SS TCGA-IB-AAUU TCGA-YB-A89D 
         360          166            4         1991          153          160 

$`AMP PEAK  7(4P16.3) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         969          484          440          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
         385          449          378          392          233          396 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         240           28           20            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
           3            5           91          660          491          194 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
          46           11           13           33         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 
         347         1951         1989          724         1257         1975 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5ST 
         648           75          522          329          300          635 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ 
         248         1968          181            8          290         1978 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
         128          179          188          210          179          164 
TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
         127           35          155          584          110          247 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO 
         416           95           36           42          397          197 
TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YY-A8LH 
        1955          844          161          164         1834 

  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                            4                             3 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                         1991                          2172 
  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE 
                          163                           248 
[1] "4.0 - 1991.0 (163.0)" "3.0 - 2172.0 (248.0)"
[1] "hr=" "2.8"
D7V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK  7(4P16.3) MUTATED          0        0         2         6         0
  AMP PEAK  7(4P16.3) WILD-TYPE        2        7        20        89         2
                               vv
clus                            STAGE IV
  AMP PEAK  7(4P16.3) MUTATED          0
  AMP PEAK  7(4P16.3) WILD-TYPE        4
D7V3, multiclass
           clus
vv          AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            0                             7
  STAGE IIA                           2                            20
  STAGE IIB                           6                            89
  STAGE III                           0                             2
  STAGE IV                            0                             4
[1] 6 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     8
  AMP PEAK  7(4P16.3) WILD-TYPE    15   109
D7V4, multiclass
       clus
vv      AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  T1+T2                           0                            15
  T3+T4                           8                           109
[1] 2 2
[1] FALSE
D7V5, binary
                               cls
clus                             0  1
  AMP PEAK  7(4P16.3) MUTATED    1  6
  AMP PEAK  7(4P16.3) WILD-TYPE 30 94
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED      1    6
  AMP PEAK  7(4P16.3) WILD-TYPE   30   94
   clus
vv  AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  0                           1                            30
  1                           6                            94
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  AMP PEAK  7(4P16.3) MUTATED    5  0  3
  AMP PEAK  7(4P16.3) WILD-TYPE 69  4 51
D7V6, multiclass
    clus
vv   AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  M0                           5                            69
  M1                           0                             4
  MX                           3                            51
[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"
D7V7, binary
                               cls
clus                             0  1
  AMP PEAK  7(4P16.3) MUTATED    4  4
  AMP PEAK  7(4P16.3) WILD-TYPE 56 68
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4P16.3) MUTATED      4    4
  AMP PEAK  7(4P16.3) WILD-TYPE   56   68
        clus
vv       AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  FEMALE                           4                            56
  MALE                             4                            68
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  7(4P16.3) MUTATED                                     6
  AMP PEAK  7(4P16.3) WILD-TYPE                                 107
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  7(4P16.3) MUTATED                                       0
  AMP PEAK  7(4P16.3) WILD-TYPE                                    14
                               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                                        6
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      0
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 AMP PEAK  7(4P16.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        107
  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"
D7V9, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  7(4P16.3) MUTATED    8  0  0  0
  AMP PEAK  7(4P16.3) WILD-TYPE 72 42  2  3
D7V10, multiclass
    clus
vv   AMP PEAK  7(4P16.3) MUTATED AMP PEAK  7(4P16.3) WILD-TYPE
  R0                           8                            72
  R1                           0                            42
  R2                           0                             2
  RX                           0                             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"
D7V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  7(4P16.3) MUTATED       1                         0     7
  AMP PEAK  7(4P16.3) WILD-TYPE     1                         6   113
D7V12, multiclass
                           clus
vv                          AMP PEAK  7(4P16.3) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                               7
                           clus
vv                          AMP PEAK  7(4P16.3) WILD-TYPE
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             6
  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"

Clustering(8) Variable = AMP PEAK  8(6P21.31) MUTATION ANALYSIS
D8V1, survival
                                sevent
clus2                             0  1
  AMP PEAK  8(6P21.31) MUTATED    4  1
  AMP PEAK  8(6P21.31) WILD-TYPE 73 17
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             5                             90 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             1                             17 
$`AMP PEAK  8(6P21.31) MUTATED`
TCGA-2J-AABF TCGA-HZ-8636 TCGA-HZ-A77O TCGA-LB-A8F3 TCGA-US-A776 
        1960            5           11           35          844 

$`AMP PEAK  8(6P21.31) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI 
        1962          729           80          676          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         484          440          360          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N 
         385          449          378          166          392          233 
TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 
         396          240           28           20            4            8 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
         840          361            8           19           24           21 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
          28           16            3           91          660          491 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
         194           46           13           33         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 
         347         1951         1989          724         1257         1975 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS 
         648           75          522          329          300         1991 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
         635          248         1968          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        1978          128          179          188          153          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
         179          164          127          155          584          110 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM 
         247          416           95           36           42          397 
TCGA-S4-A8RO TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         197         1955          161          164          160         1834 

  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                             5                              3 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                          1960                           2172 
  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE 
                          35.0                          247.5 
[1] "5.0 - 1960.0 (35.0)"  "3.0 - 2172.0 (247.5)"
[1] "hr=" "1.5"
D8V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK  8(6P21.31) MUTATED          0        1         2         3
  AMP PEAK  8(6P21.31) WILD-TYPE        2        6        20        92
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK  8(6P21.31) MUTATED           0        1
  AMP PEAK  8(6P21.31) WILD-TYPE         2        3
D8V3, multiclass
           clus
vv          AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             1                              6
  STAGE IIA                            2                             20
  STAGE IIB                            3                             92
  STAGE III                            0                              2
  STAGE IV                             1                              3
[1] 6 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       2     5
  AMP PEAK  8(6P21.31) WILD-TYPE    13   112
D8V4, multiclass
       clus
vv      AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  T1+T2                            2                             13
  T3+T4                            5                            112
[1] 2 2
[1] FALSE
D8V5, binary
                                cls
clus                              0  1
  AMP PEAK  8(6P21.31) MUTATED    4  3
  AMP PEAK  8(6P21.31) WILD-TYPE 27 97
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      4    3
  AMP PEAK  8(6P21.31) WILD-TYPE   27   97
   clus
vv  AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  0                            4                             27
  1                            3                             97
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  AMP PEAK  8(6P21.31) MUTATED    2  1  4
  AMP PEAK  8(6P21.31) WILD-TYPE 72  3 50
D8V6, multiclass
    clus
vv   AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  M0                            2                             72
  M1                            1                              3
  MX                            4                             50
[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"
D8V7, binary
                                cls
clus                              0  1
  AMP PEAK  8(6P21.31) MUTATED    4  3
  AMP PEAK  8(6P21.31) WILD-TYPE 56 69
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(6P21.31) MUTATED      4    3
  AMP PEAK  8(6P21.31) WILD-TYPE   56   69
        clus
vv       AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  FEMALE                            4                             56
  MALE                              3                             69
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  8(6P21.31) MUTATED                                     6
  AMP PEAK  8(6P21.31) WILD-TYPE                                 107
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  8(6P21.31) MUTATED                                       0
  AMP PEAK  8(6P21.31) WILD-TYPE                                    14
                                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                                         6
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       0
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK  8(6P21.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         107
  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"
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                             43 
                    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-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-H6-8124                     TCGA-H6-A45N 
"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-7887 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-7891                     TCGA-IB-8126 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-8127                     TCGA-IB-A5SS 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-A6UF                     TCGA-IB-A6UG 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-A7M4                     TCGA-IB-AAUQ 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-AAUS                     TCGA-IB-AAUT 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-IB-AAUU                     TCGA-IB-AAUV 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-LB-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-S4-A8RP                     TCGA-US-A774 
"AMP PEAK  8(6P21.31) WILD-TYPE" "AMP PEAK  8(6P21.31) WILD-TYPE" 
                    TCGA-YY-A8LH 
"AMP PEAK  8(6P21.31) WILD-TYPE" 
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK  8(6P21.31) MUTATED    3  4  0  0
  AMP PEAK  8(6P21.31) WILD-TYPE 77 38  2  3
D8V10, multiclass
    clus
vv   AMP PEAK  8(6P21.31) MUTATED AMP PEAK  8(6P21.31) WILD-TYPE
  R0                            3                             77
  R1                            4                             38
  R2                            0                              2
  RX                            0                              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"
D8V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  8(6P21.31) MUTATED       0                         1     6
  AMP PEAK  8(6P21.31) WILD-TYPE     2                         5   114
D8V12, multiclass
                           clus
vv                          AMP PEAK  8(6P21.31) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                                6
                           clus
vv                          AMP PEAK  8(6P21.31) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(9) Variable = AMP PEAK  9(7Q22.1) MUTATION ANALYSIS
D9V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  9(7Q22.1) MUTATED   20  6
  AMP PEAK  9(7Q22.1) WILD-TYPE 57 12
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                           26                            69 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                            6                            12 
$`AMP PEAK  9(7Q22.1) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABT TCGA-FB-A545 TCGA-H6-8124 
        1962           80         1960          319          385          392 
TCGA-HZ-7289 TCGA-HZ-7926 TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-IB-7652 
         240            8            5          194           11          724 
TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-AAUQ TCGA-IB-AAUU 
        1975          522          300         1968         1978          153 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-RB-A7B8 TCGA-S4-A8RM 
         164          127          584          247           36          397 
TCGA-US-A776 TCGA-YB-A89D 
         844          160 

$`AMP PEAK  9(7Q22.1) WILD-TYPE`
TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO 
         729          676          677          969          484          440 
TCGA-2J-AABP TCGA-2J-AABR TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G 
         360          438         2172          295          360          153 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR 
         586          167            4          449          378          166 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 
         233          396           28           20            4            8 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 
         840          361           19           24           21           28 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK 
          16            3           91          660          491           46 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 
          13           33         1968            7          347         1951 
TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SS 
        1989         1257          648           75          329         1991 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUR 
         635          248          181            8          290          128 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 
         179          188          210          179           35          155 
TCGA-OE-A75W TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-AA9M TCGA-S4-A8RO TCGA-US-A774 
         110          416           95           42          197         1955 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YY-A8LH 
         161          164         1834 

  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                            5                             3 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                         1978                          2172 
  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE 
                        309.5                         210.0 
[1] "5.0 - 1978.0 (309.5)" "3.0 - 2172.0 (210.0)"
[1] "hr=" "1.1"
D9V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK  9(7Q22.1) MUTATED          0        0         6        28         0
  AMP PEAK  9(7Q22.1) WILD-TYPE        2        7        16        67         2
                               vv
clus                            STAGE IV
  AMP PEAK  9(7Q22.1) MUTATED          2
  AMP PEAK  9(7Q22.1) WILD-TYPE        2
D9V3, multiclass
           clus
vv          AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            0                             7
  STAGE IIA                           6                            16
  STAGE IIB                          28                            67
  STAGE III                           0                             2
  STAGE IV                            2                             2
[1] 6 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    35
  AMP PEAK  9(7Q22.1) WILD-TYPE    14    82
D9V4, multiclass
       clus
vv      AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  T1+T2                           1                            14
  T3+T4                          35                            82
[1] 2 2
[1] FALSE
D9V5, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q22.1) MUTATED    7 29
  AMP PEAK  9(7Q22.1) WILD-TYPE 24 71
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED      7   29
  AMP PEAK  9(7Q22.1) WILD-TYPE   24   71
   clus
vv  AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  0                           7                            24
  1                          29                            71
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  AMP PEAK  9(7Q22.1) MUTATED   20  2 14
  AMP PEAK  9(7Q22.1) WILD-TYPE 54  2 40
D9V6, multiclass
    clus
vv   AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  M0                          20                            54
  M1                           2                             2
  MX                          14                            40
[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"
D9V7, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q22.1) MUTATED   13 23
  AMP PEAK  9(7Q22.1) WILD-TYPE 47 49
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q22.1) MUTATED     13   23
  AMP PEAK  9(7Q22.1) WILD-TYPE   47   49
        clus
vv       AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  FEMALE                          13                            47
  MALE                            23                            49
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK  9(7Q22.1) MUTATED                                    31
  AMP PEAK  9(7Q22.1) WILD-TYPE                                  82
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK  9(7Q22.1) MUTATED                                       4
  AMP PEAK  9(7Q22.1) WILD-TYPE                                    10
                               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                                       31
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 AMP PEAK  9(7Q22.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         82
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       10
  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
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  9(7Q22.1) MUTATED   16 15  1  2
  AMP PEAK  9(7Q22.1) WILD-TYPE 64 27  1  1
D9V10, multiclass
    clus
vv   AMP PEAK  9(7Q22.1) MUTATED AMP PEAK  9(7Q22.1) WILD-TYPE
  R0                          16                            64
  R1                          15                            27
  R2                           1                             1
  RX                           2                             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"
D9V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  9(7Q22.1) MUTATED       1                         2    31
  AMP PEAK  9(7Q22.1) WILD-TYPE     1                         4    89
D9V12, multiclass
                           clus
vv                          AMP PEAK  9(7Q22.1) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              31
                           clus
vv                          AMP PEAK  9(7Q22.1) WILD-TYPE
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                89
[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"

Clustering(10) Variable = AMP PEAK 10(8P11.22) MUTATION ANALYSIS
D10V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 10(8P11.22) MUTATED   11  4
  AMP PEAK 10(8P11.22) WILD-TYPE 66 14
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            15                             80 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                             4                             14 
$`AMP PEAK 10(8P11.22) MUTATED`
TCGA-2J-AABF TCGA-FB-A545 TCGA-HZ-8315 TCGA-HZ-A77O TCGA-HZ-A77P TCGA-IB-7886 
        1960          385           28           11           13         1975 
TCGA-IB-8126 TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-M8-A5N4 TCGA-PZ-A5RE 
          75          300         1968          181          584          247 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-YB-A89D 
         397          197          160 

$`AMP PEAK 10(8P11.22) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI 
        1962          729           80          676          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         484          440          360          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
         449          378          166          392          233          396 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
         240           28           20            4            8          840 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 
         361            8           19           24           21           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
           3            5           91          660          491          194 
TCGA-HZ-A4BK TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 
          46           33         1968            7          347         1951 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8127 TCGA-IB-A5SO 
        1989          724         1257          648          522          329 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ 
        1991          635          248            8          290         1978 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
         128          179          188          153          210          179 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-Q3-A5QY 
         164          127           35          155          110          416 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG 
          95           36           42         1955          844          161 
TCGA-XD-AAUH TCGA-YY-A8LH 
         164         1834 

  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                            11                              3 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                          1975                           2172 
  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE 
                           247                            244 
[1] "11.0 - 1975.0 (247.0)" "3.0 - 2172.0 (244.0)" 
[1] "hr=" "1.4"
D10V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 10(8P11.22) MUTATED          0        0         7        16
  AMP PEAK 10(8P11.22) WILD-TYPE        2        7        15        79
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 10(8P11.22) MUTATED           1        0
  AMP PEAK 10(8P11.22) WILD-TYPE         1        4
D10V3, multiclass
           clus
vv          AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            7                             15
  STAGE IIB                           16                             79
  STAGE III                            1                              1
  STAGE IV                             0                              4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             T1+T2 T3+T4
  AMP PEAK 10(8P11.22) MUTATED       1    23
  AMP PEAK 10(8P11.22) WILD-TYPE    14    94
D10V4, multiclass
       clus
vv      AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  T1+T2                            1                             14
  T3+T4                           23                             94
[1] 2 2
[1] FALSE
D10V5, binary
                                cls
clus                              0  1
  AMP PEAK 10(8P11.22) MUTATED    7 17
  AMP PEAK 10(8P11.22) WILD-TYPE 24 83
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED      7   17
  AMP PEAK 10(8P11.22) WILD-TYPE   24   83
   clus
vv  AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  0                            7                             24
  1                           17                             83
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  AMP PEAK 10(8P11.22) MUTATED   13  0 11
  AMP PEAK 10(8P11.22) WILD-TYPE 61  4 43
D10V6, multiclass
    clus
vv   AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  M0                           13                             61
  M1                            0                              4
  MX                           11                             43
[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"
D10V7, binary
                                cls
clus                              0  1
  AMP PEAK 10(8P11.22) MUTATED    8 16
  AMP PEAK 10(8P11.22) WILD-TYPE 52 56
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.22) MUTATED      8   16
  AMP PEAK 10(8P11.22) WILD-TYPE   52   56
        clus
vv       AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  FEMALE                            8                             52
  MALE                             16                             56
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 10(8P11.22) MUTATED                                    23
  AMP PEAK 10(8P11.22) WILD-TYPE                                  90
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 10(8P11.22) MUTATED                                       1
  AMP PEAK 10(8P11.22) WILD-TYPE                                    13
                                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                                        23
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK 10(8P11.22) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          90
  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"
D10V9, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 10(8P11.22) MUTATED   10 12  0  0
  AMP PEAK 10(8P11.22) WILD-TYPE 70 30  2  3
D10V10, multiclass
    clus
vv   AMP PEAK 10(8P11.22) MUTATED AMP PEAK 10(8P11.22) WILD-TYPE
  R0                           10                             70
  R1                           12                             30
  R2                            0                              2
  RX                            0                              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"
D10V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 10(8P11.22) MUTATED       0                         0    23
  AMP PEAK 10(8P11.22) WILD-TYPE     2                         6    97
D10V12, multiclass
                           clus
vv                          AMP PEAK 10(8P11.22) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               23
                           clus
vv                          AMP PEAK 10(8P11.22) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              6
  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"

Clustering(11) Variable = AMP PEAK 11(8P11.21) MUTATION ANALYSIS
D11V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 11(8P11.21) MUTATED   12  4
  AMP PEAK 11(8P11.21) WILD-TYPE 65 14
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            16                             79 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                             4                             14 
$`AMP PEAK 11(8P11.21) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABP TCGA-FB-A545 TCGA-HZ-8315 TCGA-HZ-A77O 
          80         1960          360          385           28           11 
TCGA-HZ-A77P TCGA-IB-7649 TCGA-IB-7886 TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-AAUU 
          13         1951         1975          300         1968          153 
TCGA-M8-A5N4 TCGA-S4-A8RM TCGA-S4-A8RO TCGA-YB-A89D 
         584          397          197          160 

$`AMP PEAK 11(8P11.21) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK 
        1962          729          676          677          969          484 
TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         440          438          319         2172          295          360 
TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T 
         153          586          167            4          449          378 
TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 
         166          392          233          396          240           28 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
          20            4            8          840          361            8 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
          19           24           21           16            3            5 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77Q 
          91          660          491          194           46           33 
TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
        1968            7          347         1989          724         1257 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SS TCGA-IB-A5ST 
         648           75          522          329         1991          635 
TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
         248          181            8          290         1978          128 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX 
         179          188          210          179          164          127 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
          35          155          110          247          416           95 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH 
          36           42         1955          844          161          164 
TCGA-YY-A8LH 
        1834 

  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            11                              3 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                          1975                           2172 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                           330                            240 
[1] "11.0 - 1975.0 (330.0)" "3.0 - 2172.0 (240.0)" 
[1] "hr=" "1.3"
D11V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 11(8P11.21) MUTATED          0        0         6        17
  AMP PEAK 11(8P11.21) WILD-TYPE        2        7        16        78
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 11(8P11.21) MUTATED           0        0
  AMP PEAK 11(8P11.21) WILD-TYPE         2        4
D11V3, multiclass
           clus
vv          AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            6                             16
  STAGE IIB                           17                             78
  STAGE III                            0                              2
  STAGE IV                             0                              4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             T1+T2 T3+T4
  AMP PEAK 11(8P11.21) MUTATED       1    22
  AMP PEAK 11(8P11.21) WILD-TYPE    14    95
D11V4, multiclass
       clus
vv      AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  T1+T2                            1                             14
  T3+T4                           22                             95
[1] 2 2
[1] FALSE
D11V5, binary
                                cls
clus                              0  1
  AMP PEAK 11(8P11.21) MUTATED    6 17
  AMP PEAK 11(8P11.21) WILD-TYPE 25 83
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED      6   17
  AMP PEAK 11(8P11.21) WILD-TYPE   25   83
   clus
vv  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  0                            6                             25
  1                           17                             83
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  AMP PEAK 11(8P11.21) MUTATED   14  0  9
  AMP PEAK 11(8P11.21) WILD-TYPE 60  4 45
D11V6, multiclass
    clus
vv   AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  M0                           14                             60
  M1                            0                              4
  MX                            9                             45
[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"
D11V7, binary
                                cls
clus                              0  1
  AMP PEAK 11(8P11.21) MUTATED    8 15
  AMP PEAK 11(8P11.21) WILD-TYPE 52 57
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED      8   15
  AMP PEAK 11(8P11.21) WILD-TYPE   52   57
        clus
vv       AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  FEMALE                            8                             52
  MALE                             15                             57
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 11(8P11.21) MUTATED                                    21
  AMP PEAK 11(8P11.21) WILD-TYPE                                  92
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 11(8P11.21) MUTATED                                       1
  AMP PEAK 11(8P11.21) WILD-TYPE                                    13
                                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                                        21
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 11(8P11.21) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          92
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V9, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 11(8P11.21) MUTATED   10 12  0  0
  AMP PEAK 11(8P11.21) WILD-TYPE 70 30  2  3
D11V10, multiclass
    clus
vv   AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  R0                           10                             70
  R1                           12                             30
  R2                            0                              2
  RX                            0                              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"
D11V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 11(8P11.21) MUTATED       0                         0    21
  AMP PEAK 11(8P11.21) WILD-TYPE     2                         6    99
D11V12, multiclass
                           clus
vv                          AMP PEAK 11(8P11.21) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               21
                           clus
vv                          AMP PEAK 11(8P11.21) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              6
  WHITE                                                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(12) Variable = AMP PEAK 12(8Q24.21) MUTATION ANALYSIS
D12V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 12(8Q24.21) MUTATED   27  6
  AMP PEAK 12(8Q24.21) WILD-TYPE 50 12
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            33                             62 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                             6                             12 
$`AMP PEAK 12(8Q24.21) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABP TCGA-FB-A545 TCGA-FB-A5VM 
         729         1960          677          360          385          449 
TCGA-FB-A78T TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-7925 
         378          396          240           28            4          361 
TCGA-HZ-8315 TCGA-HZ-8636 TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-IB-7649 TCGA-IB-7652 
          28            5           11            7         1951          724 
TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A6UG 
        1975          522          300         1991          248         1968 
TCGA-IB-A7M4 TCGA-IB-AAUQ TCGA-L1-A7W4 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-S4-A8RM 
         181         1978          164          584          110          397 
TCGA-S4-A8RO TCGA-US-A776 TCGA-YB-A89D 
         197          844          160 

$`AMP PEAK 12(8Q24.21) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO 
        1962           80          676          969          484          440 
TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G 
         438          319         2172          295          360          153 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N 
         586          167            4          166          392          233 
TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
          20            8          840            8           19           24 
TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
          21           16            3           91          660          491 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-IB-7644 
         194           46           13           33         1968          347 
TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5ST 
        1989         1257          648           75          329          635 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
           8          290          128          179          188          153 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-PZ-A5RE 
         210          179          127           35          155          247 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-US-A774 TCGA-XD-AAUG 
         416           95           36           42         1955          161 
TCGA-XD-AAUH TCGA-YY-A8LH 
         164         1834 

  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                             4                              3 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                          1991                           2172 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                         378.0                          183.5 
[1] "4.0 - 1991.0 (378.0)" "3.0 - 2172.0 (183.5)"
[1] "hr=" "1.7"
D12V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 12(8Q24.21) MUTATED          0        4         9        35
  AMP PEAK 12(8Q24.21) WILD-TYPE        2        3        13        60
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 12(8Q24.21) MUTATED           0        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 IA                             0                              2
  STAGE IB                             4                              3
  STAGE IIA                            9                             13
  STAGE IIB                           35                             60
  STAGE III                            0                              2
  STAGE IV                             1                              3
[1] 6 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       7    42
  AMP PEAK 12(8Q24.21) WILD-TYPE     8    75
D12V4, multiclass
       clus
vv      AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  T1+T2                            7                              8
  T3+T4                           42                             75
[1] 2 2
[1] FALSE
D12V5, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED   14 35
  AMP PEAK 12(8Q24.21) WILD-TYPE 17 65
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     14   35
  AMP PEAK 12(8Q24.21) WILD-TYPE   17   65
   clus
vv  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  0                           14                             17
  1                           35                             65
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  AMP PEAK 12(8Q24.21) MUTATED   29  1 19
  AMP PEAK 12(8Q24.21) WILD-TYPE 45  3 35
D12V6, multiclass
    clus
vv   AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  M0                           29                             45
  M1                            1                              3
  MX                           19                             35
[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"
D12V7, binary
                                cls
clus                              0  1
  AMP PEAK 12(8Q24.21) MUTATED   19 30
  AMP PEAK 12(8Q24.21) WILD-TYPE 41 42
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     19   30
  AMP PEAK 12(8Q24.21) WILD-TYPE   41   42
        clus
vv       AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  FEMALE                           19                             41
  MALE                             30                             42
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 12(8Q24.21) MUTATED                                    42
  AMP PEAK 12(8Q24.21) WILD-TYPE                                  71
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 12(8Q24.21) MUTATED                                       5
  AMP PEAK 12(8Q24.21) WILD-TYPE                                     9
                                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                                        42
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 12(8Q24.21) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          71
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         9
  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
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 12(8Q24.21) MUTATED   28 18  1  1
  AMP PEAK 12(8Q24.21) WILD-TYPE 52 24  1  2
D12V10, multiclass
    clus
vv   AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  R0                           28                             52
  R1                           18                             24
  R2                            1                              1
  RX                            1                              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"
D12V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 12(8Q24.21) MUTATED       1                         0    45
  AMP PEAK 12(8Q24.21) WILD-TYPE     1                         6    75
D12V12, multiclass
                           clus
vv                          AMP PEAK 12(8Q24.21) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               45
                           clus
vv                          AMP PEAK 12(8Q24.21) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              6
  WHITE                                                 75
[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"

Clustering(13) Variable = AMP PEAK 13(9P13.3) MUTATION ANALYSIS
D13V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 13(9P13.3) MUTATED    9  0
  AMP PEAK 13(9P13.3) WILD-TYPE 68 18
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                            9                            86 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                            0                            18 
$`AMP PEAK 13(9P13.3) MUTATED`
TCGA-2J-AABP TCGA-2J-AABT TCGA-H8-A6C1 TCGA-HZ-7925 TCGA-HZ-8636 TCGA-HZ-A8P0 
         360          319          396          361            5         1968 
TCGA-IB-8126 TCGA-IB-AAUP TCGA-M8-A5N4 
          75          290          584 

$`AMP PEAK 13(9P13.3) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-3E-AAAY TCGA-F2-6880 
         969          484          440          438         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
         360          153          586          167            4          385 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7289 
         449          378          166          392          233          240 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 
          28           20            4            8          840            8 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
          19           24           21           28           16            3 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O 
          91          660          491          194           46           11 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 
          13           33            7          347         1951         1989 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8127 TCGA-IB-A5SO 
         724         1257         1975          648          522          329 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 
         300         1991          635          248         1968          181 
TCGA-IB-AAUM TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
           8         1978          128          179          188          153 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
         210          179          164          127           35          155 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
         110          247          416           95           36           42 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH 
         397          197         1955          844          161          164 
TCGA-YB-A89D TCGA-YY-A8LH 
         160         1834 

  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                            5                             3 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                         1968                          2172 
  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE 
                        360.0                         221.5 
[1] "5.0 - 1968.0 (360.0)" "3.0 - 2172.0 (221.5)"
[1] "hr="   "8e+07"
D13V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK 13(9P13.3) MUTATED          0        0         4        10         1
  AMP PEAK 13(9P13.3) WILD-TYPE        2        7        18        85         1
                               vv
clus                            STAGE IV
  AMP PEAK 13(9P13.3) MUTATED          1
  AMP PEAK 13(9P13.3) WILD-TYPE        3
D13V3, multiclass
           clus
vv          AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            0                             7
  STAGE IIA                           4                            18
  STAGE IIB                          10                            85
  STAGE III                           1                             1
  STAGE IV                            1                             3
[1] 6 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    16
  AMP PEAK 13(9P13.3) WILD-TYPE    15   101
D13V4, multiclass
       clus
vv      AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  T1+T2                           0                            15
  T3+T4                          16                           101
[1] 2 2
[1] FALSE
D13V5, binary
                               cls
clus                             0  1
  AMP PEAK 13(9P13.3) MUTATED    5 11
  AMP PEAK 13(9P13.3) WILD-TYPE 26 89
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED      5   11
  AMP PEAK 13(9P13.3) WILD-TYPE   26   89
   clus
vv  AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  0                           5                            26
  1                          11                            89
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  AMP PEAK 13(9P13.3) MUTATED    9  1  6
  AMP PEAK 13(9P13.3) WILD-TYPE 65  3 48
D13V6, multiclass
    clus
vv   AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  M0                           9                            65
  M1                           1                             3
  MX                           6                            48
[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"
D13V7, binary
                               cls
clus                             0  1
  AMP PEAK 13(9P13.3) MUTATED    6 10
  AMP PEAK 13(9P13.3) WILD-TYPE 54 62
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9P13.3) MUTATED      6   10
  AMP PEAK 13(9P13.3) WILD-TYPE   54   62
        clus
vv       AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  FEMALE                           6                            54
  MALE                            10                            62
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 13(9P13.3) MUTATED                                    14
  AMP PEAK 13(9P13.3) WILD-TYPE                                  99
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 13(9P13.3) MUTATED                                       1
  AMP PEAK 13(9P13.3) WILD-TYPE                                    13
                               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                                       14
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 AMP PEAK 13(9P13.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         99
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V9, continuous
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK 13(9P13.3) MUTATED   11  5  0  0
  AMP PEAK 13(9P13.3) WILD-TYPE 69 37  2  3
D13V10, multiclass
    clus
vv   AMP PEAK 13(9P13.3) MUTATED AMP PEAK 13(9P13.3) WILD-TYPE
  R0                          11                            69
  R1                           5                            37
  R2                           0                             2
  RX                           0                             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"
D13V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 13(9P13.3) MUTATED       0                         1    14
  AMP PEAK 13(9P13.3) WILD-TYPE     2                         5   106
D13V12, multiclass
                           clus
vv                          AMP PEAK 13(9P13.3) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              14
                           clus
vv                          AMP PEAK 13(9P13.3) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                               106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(14) Variable = AMP PEAK 14(12P13.33) MUTATION ANALYSIS
D14V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 14(12P13.33) MUTATED   11  2
  AMP PEAK 14(12P13.33) WILD-TYPE 66 16
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                             13                              82 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                              2                              16 
$`AMP PEAK 14(12P13.33) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABI TCGA-HZ-7289 TCGA-HZ-7922 TCGA-HZ-A77O 
          80         1960          969          240            4           11 
TCGA-IB-8127 TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUT TCGA-LB-A7SX TCGA-Q3-AA2A 
         522          248         1968          188          127           95 
TCGA-US-A776 
         844 

$`AMP PEAK 14(12P13.33) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABO 
        1962          729          676          677          484          440 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         360          438          319         2172          295          360 
TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
         153          586          167            4          385          449 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 
         378          166          392          233          396           28 
TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
          20            8          840          361            8           19 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
          24           21           28           16            3            5 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P 
          91          660          491          194           46           13 
TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 
          33         1968            7          347         1951         1989 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO 
         724         1257         1975          648           75          329 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
         300         1991          635          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
        1978          128          179          153          210          179 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
         164           35          155          584          110          247 
TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 
         416           36           42          397          197         1955 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         161          164          160         1834 

  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                              4                               3 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                           1968                            2172 
  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE 
                          240.0                           268.5 
[1] "4.0 - 1968.0 (240.0)" "3.0 - 2172.0 (268.5)"
[1] "hr=" "1"  
D14V2, continuous
                                 vv
clus                              STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 14(12P13.33) MUTATED          0        2         3        16
  AMP PEAK 14(12P13.33) WILD-TYPE        2        5        19        79
                                 vv
clus                              STAGE III STAGE IV
  AMP PEAK 14(12P13.33) MUTATED           0        0
  AMP PEAK 14(12P13.33) WILD-TYPE         2        4
D14V3, multiclass
           clus
vv          AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  STAGE IA                              0                               2
  STAGE IB                              2                               5
  STAGE IIA                             3                              19
  STAGE IIB                            16                              79
  STAGE III                             0                               2
  STAGE IV                              0                               4
[1] 6 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       4    17
  AMP PEAK 14(12P13.33) WILD-TYPE    11   100
D14V4, multiclass
       clus
vv      AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  T1+T2                             4                              11
  T3+T4                            17                             100
[1] 2 2
[1] FALSE
D14V5, binary
                                 cls
clus                               0  1
  AMP PEAK 14(12P13.33) MUTATED    4 17
  AMP PEAK 14(12P13.33) WILD-TYPE 27 83
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED      4   17
  AMP PEAK 14(12P13.33) WILD-TYPE   27   83
   clus
vv  AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  0                             4                              27
  1                            17                              83
[1] 2 2
[1] FALSE
                                 vv
clus                              M0 M1 MX
  AMP PEAK 14(12P13.33) MUTATED   12  0  9
  AMP PEAK 14(12P13.33) WILD-TYPE 62  4 45
D14V6, multiclass
    clus
vv   AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  M0                            12                              62
  M1                             0                               4
  MX                             9                              45
[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"
D14V7, binary
                                 cls
clus                               0  1
  AMP PEAK 14(12P13.33) MUTATED    5 16
  AMP PEAK 14(12P13.33) WILD-TYPE 55 56
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(12P13.33) MUTATED      5   16
  AMP PEAK 14(12P13.33) WILD-TYPE   55   56
        clus
vv       AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  FEMALE                             5                              55
  MALE                              16                              56
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 14(12P13.33) MUTATED                                    16
  AMP PEAK 14(12P13.33) WILD-TYPE                                  97
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 14(12P13.33) MUTATED                                       3
  AMP PEAK 14(12P13.33) WILD-TYPE                                    11
                                 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                                         16
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 AMP PEAK 14(12P13.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                           97
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         11
  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
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 14(12P13.33) MUTATED    9 10  0  2
  AMP PEAK 14(12P13.33) WILD-TYPE 71 32  2  1
D14V10, multiclass
    clus
vv   AMP PEAK 14(12P13.33) MUTATED AMP PEAK 14(12P13.33) WILD-TYPE
  R0                             9                              71
  R1                            10                              32
  R2                             0                               2
  RX                             2                               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"
D14V11, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 14(12P13.33) MUTATED       0                         1    19
  AMP PEAK 14(12P13.33) WILD-TYPE     2                         5   101
D14V12, multiclass
                           clus
vv                          AMP PEAK 14(12P13.33) MUTATED
  ASIAN                                                 0
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                19
                           clus
vv                          AMP PEAK 14(12P13.33) WILD-TYPE
  ASIAN                                                   2
  BLACK OR AFRICAN AMERICAN                               5
  WHITE                                                 101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(15) Variable = AMP PEAK 15(12P11.21) MUTATION ANALYSIS
D15V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 15(12P11.21) MUTATED   12  3
  AMP PEAK 15(12P11.21) WILD-TYPE 65 15
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                             15                              80 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                              3                              15 
$`AMP PEAK 15(12P11.21) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABO TCGA-F2-A8YN TCGA-HZ-7289 
          80         1960          969          440          167          240 
TCGA-HZ-7922 TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-IB-7886 
           4            5          194           46           11         1975 
TCGA-IB-8127 TCGA-IB-A6UG TCGA-Q3-AA2A 
         522         1968           95 

$`AMP PEAK 15(12P11.21) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABP 
        1962          729          676          677          484          360 
TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G 
         438          319         2172          295          360          153 
TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR 
         586            4          385          449          378          166 
TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7923 
         392          233          396           28           20            8 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
         840          361            8           19           24           21 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
          28           16            3           91          660          491 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 
          13           33         1968            7          347         1951 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO 
        1989          724         1257          648           75          329 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM 
         300         1991          635          248          181            8 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
         290         1978          128          179          188          153 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
         210          179          164          127           35          155 
TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M 
         584          110          247          416           36           42 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH 
         397          197         1955          844          161          164 
TCGA-YB-A89D TCGA-YY-A8LH 
         160         1834 

  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                              4                               3 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                           1975                            2172 
  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE 
                            194                             269 
[1] "4.0 - 1975.0 (194.0)" "3.0 - 2172.0 (269.0)"
[1] "hr=" "1"  
D15V2, continuous
                                 vv
clus                              STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 15(12P11.21) MUTATED          0        2         3        17
  AMP PEAK 15(12P11.21) WILD-TYPE        2        5        19        78
                                 vv
clus                              STAGE III STAGE IV
  AMP PEAK 15(12P11.21) MUTATED           0        1
  AMP PEAK 15(12P11.21) WILD-TYPE         2        3
D15V3, multiclass
           clus
vv          AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  STAGE IA                              0                               2
  STAGE IB                              2                               5
  STAGE IIA                             3                              19
  STAGE IIB                            17                              78
  STAGE III                             0                               2
  STAGE IV                              1                               3
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              T1+T2 T3+T4
  AMP PEAK 15(12P11.21) MUTATED       2    21
  AMP PEAK 15(12P11.21) WILD-TYPE    13    96
D15V4, multiclass
       clus
vv      AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  T1+T2                             2                              13
  T3+T4                            21                              96
[1] 2 2
[1] FALSE
D15V5, binary
                                 cls
clus                               0  1
  AMP PEAK 15(12P11.21) MUTATED    5 18
  AMP PEAK 15(12P11.21) WILD-TYPE 26 82
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED      5   18
  AMP PEAK 15(12P11.21) WILD-TYPE   26   82
   clus
vv  AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  0                             5                              26
  1                            18                              82
[1] 2 2
[1] FALSE
                                 vv
clus                              M0 M1 MX
  AMP PEAK 15(12P11.21) MUTATED   13  1  9
  AMP PEAK 15(12P11.21) WILD-TYPE 61  3 45
D15V6, multiclass
    clus
vv   AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  M0                            13                              61
  M1                             1                               3
  MX                             9                              45
[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"
D15V7, binary
                                 cls
clus                               0  1
  AMP PEAK 15(12P11.21) MUTATED    5 18
  AMP PEAK 15(12P11.21) WILD-TYPE 55 54
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 15(12P11.21) MUTATED      5   18
  AMP PEAK 15(12P11.21) WILD-TYPE   55   54
        clus
vv       AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  FEMALE                             5                              55
  MALE                              18                              54
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 15(12P11.21) MUTATED                                    20
  AMP PEAK 15(12P11.21) WILD-TYPE                                  93
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 15(12P11.21) MUTATED                                       3
  AMP PEAK 15(12P11.21) WILD-TYPE                                    11
                                 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                                         20
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 AMP PEAK 15(12P11.21) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                           93
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         11
  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
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 15(12P11.21) MUTATED    9 12  0  2
  AMP PEAK 15(12P11.21) WILD-TYPE 71 30  2  1
D15V10, multiclass
    clus
vv   AMP PEAK 15(12P11.21) MUTATED AMP PEAK 15(12P11.21) WILD-TYPE
  R0                             9                              71
  R1                            12                              30
  R2                             0                               2
  RX                             2                               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"
D15V11, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 15(12P11.21) MUTATED       0                         1    21
  AMP PEAK 15(12P11.21) WILD-TYPE     2                         5    99
D15V12, multiclass
                           clus
vv                          AMP PEAK 15(12P11.21) MUTATED
  ASIAN                                                 0
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                21
                           clus
vv                          AMP PEAK 15(12P11.21) WILD-TYPE
  ASIAN                                                   2
  BLACK OR AFRICAN AMERICAN                               5
  WHITE                                                  99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(16) Variable = AMP PEAK 16(12Q15) MUTATION ANALYSIS
D16V1, survival
                              sevent
clus2                           0  1
  AMP PEAK 16(12Q15) MUTATED    6  3
  AMP PEAK 16(12Q15) WILD-TYPE 71 15
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                           9                           86 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                           3                           15 
$`AMP PEAK 16(12Q15) MUTATED`
TCGA-F2-A8YN TCGA-HZ-7289 TCGA-HZ-7922 TCGA-HZ-A4BK TCGA-IB-7649 TCGA-IB-8127 
         167          240            4           46         1951          522 
TCGA-IB-A5SS TCGA-IB-A6UG TCGA-Q3-AA2A 
        1991         1968           95 

$`AMP PEAK 16(12Q15) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT 
         969          484          440          360          438          319 
TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-A4P5 
        2172          295          360          153          586            4 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N 
         385          449          378          166          392          233 
TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         396           28           20            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
           3            5           91          660          491          194 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 
          11           13           33         1968            7          347 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 
        1989          724         1257         1975          648           75 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM 
         329          300          635          248          181            8 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
         290         1978          128          179          188          153 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 
         210          179          164          127           35          155 
TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M 
         584          110          247          416           36           42 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH 
         397          197         1955          844          161          164 
TCGA-YB-A89D TCGA-YY-A8LH 
         160         1834 

  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                           4                            3 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                        1991                         2172 
  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE 
                       240.0                        247.5 
[1] "4.0 - 1991.0 (240.0)" "3.0 - 2172.0 (247.5)"
[1] "hr=" "1.2"
D16V2, continuous
                              vv
clus                           STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK 16(12Q15) MUTATED          0        1         2        11         0
  AMP PEAK 16(12Q15) WILD-TYPE        2        6        20        84         2
                              vv
clus                           STAGE IV
  AMP PEAK 16(12Q15) MUTATED          0
  AMP PEAK 16(12Q15) WILD-TYPE        4
D16V3, multiclass
           clus
vv          AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  STAGE IA                           0                            2
  STAGE IB                           1                            6
  STAGE IIA                          2                           20
  STAGE IIB                         11                           84
  STAGE III                          0                            2
  STAGE IV                           0                            4
[1] 6 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       0    14
  AMP PEAK 16(12Q15) WILD-TYPE    15   103
D16V4, multiclass
       clus
vv      AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  T1+T2                          0                           15
  T3+T4                         14                          103
[1] 2 2
[1] FALSE
D16V5, binary
                              cls
clus                            0  1
  AMP PEAK 16(12Q15) MUTATED    2 12
  AMP PEAK 16(12Q15) WILD-TYPE 29 88
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED      2   12
  AMP PEAK 16(12Q15) WILD-TYPE   29   88
   clus
vv  AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  0                          2                           29
  1                         12                           88
[1] 2 2
[1] FALSE
                              vv
clus                           M0 M1 MX
  AMP PEAK 16(12Q15) MUTATED    7  0  7
  AMP PEAK 16(12Q15) WILD-TYPE 67  4 47
D16V6, multiclass
    clus
vv   AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  M0                          7                           67
  M1                          0                            4
  MX                          7                           47
[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"
D16V7, binary
                              cls
clus                            0  1
  AMP PEAK 16(12Q15) MUTATED    4 10
  AMP PEAK 16(12Q15) WILD-TYPE 56 62
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 16(12Q15) MUTATED      4   10
  AMP PEAK 16(12Q15) WILD-TYPE   56   62
        clus
vv       AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  FEMALE                          4                           56
  MALE                           10                           62
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 16(12Q15) MUTATED                                    12
  AMP PEAK 16(12Q15) WILD-TYPE                                 101
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 16(12Q15) MUTATED                                       2
  AMP PEAK 16(12Q15) WILD-TYPE                                    12
                              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                                      12
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                          0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                       0
                                                  clus
vv                                                 AMP PEAK 16(12Q15) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                       101
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      12
  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
                              vv
clus                           R0 R1 R2 RX
  AMP PEAK 16(12Q15) MUTATED    5  7  0  2
  AMP PEAK 16(12Q15) WILD-TYPE 75 35  2  1
D16V10, multiclass
    clus
vv   AMP PEAK 16(12Q15) MUTATED AMP PEAK 16(12Q15) WILD-TYPE
  R0                          5                           75
  R1                          7                           35
  R2                          0                            2
  RX                          2                            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"
D16V11, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 16(12Q15) MUTATED       0                         1    12
  AMP PEAK 16(12Q15) WILD-TYPE     2                         5   108
D16V12, multiclass
                           clus
vv                          AMP PEAK 16(12Q15) MUTATED
  ASIAN                                              0
  BLACK OR AFRICAN AMERICAN                          1
  WHITE                                             12
                           clus
vv                          AMP PEAK 16(12Q15) 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"

Clustering(17) Variable = AMP PEAK 17(15Q26.1) MUTATION ANALYSIS
D17V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 17(15Q26.1) MUTATED    8  1
  AMP PEAK 17(15Q26.1) WILD-TYPE 69 17
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                             9                             86 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                             1                             17 
$`AMP PEAK 17(15Q26.1) MUTATED`
TCGA-2J-AABO TCGA-2J-AABP TCGA-HZ-7922 TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-AAUU 
         440          360            4          724         1975          153 
TCGA-LB-A7SX TCGA-RB-A7B8 TCGA-US-A776 
         127           36          844 

$`AMP PEAK 17(15Q26.1) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         969          484          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
         360          153          586          167            4          385 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
         449          378          166          392          233          396 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         240           28           20            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
           3            5           91          660          491          194 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
          46           11           13           33         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 
         347         1951         1989         1257          648           75 
TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF 
         522          329          300         1991          635          248 
TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
        1968          181            8          290         1978          128 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 
         179          188          210          179          164           35 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
         155          584          110          247          416           95 
TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH 
          42          397          197         1955          161          164 
TCGA-YB-A89D TCGA-YY-A8LH 
         160         1834 

  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                             4                              3 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                          1975                           2172 
  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE 
                         360.0                          243.5 
[1] "4.0 - 1975.0 (360.0)" "3.0 - 2172.0 (243.5)"
[1] "hr=" "1.8"
D17V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 17(15Q26.1) MUTATED          0        0         1        13
  AMP PEAK 17(15Q26.1) WILD-TYPE        2        7        21        82
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 17(15Q26.1) MUTATED           0        0
  AMP PEAK 17(15Q26.1) WILD-TYPE         2        4
D17V3, multiclass
           clus
vv          AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            1                             21
  STAGE IIB                           13                             82
  STAGE III                            0                              2
  STAGE IV                             0                              4
[1] 6 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    13
  AMP PEAK 17(15Q26.1) WILD-TYPE    14   104
D17V4, multiclass
       clus
vv      AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  T1+T2                            1                             14
  T3+T4                           13                            104
[1] 2 2
[1] FALSE
D17V5, binary
                                cls
clus                              0  1
  AMP PEAK 17(15Q26.1) MUTATED    1 13
  AMP PEAK 17(15Q26.1) WILD-TYPE 30 87
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED      1   13
  AMP PEAK 17(15Q26.1) WILD-TYPE   30   87
   clus
vv  AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  0                            1                             30
  1                           13                             87
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  AMP PEAK 17(15Q26.1) MUTATED    8  0  6
  AMP PEAK 17(15Q26.1) WILD-TYPE 66  4 48
D17V6, multiclass
    clus
vv   AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  M0                            8                             66
  M1                            0                              4
  MX                            6                             48
[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"
D17V7, binary
                                cls
clus                              0  1
  AMP PEAK 17(15Q26.1) MUTATED    7  7
  AMP PEAK 17(15Q26.1) WILD-TYPE 53 65
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(15Q26.1) MUTATED      7    7
  AMP PEAK 17(15Q26.1) WILD-TYPE   53   65
        clus
vv       AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  FEMALE                            7                             53
  MALE                              7                             65
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 17(15Q26.1) MUTATED                                    11
  AMP PEAK 17(15Q26.1) WILD-TYPE                                 102
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 17(15Q26.1) MUTATED                                       1
  AMP PEAK 17(15Q26.1) WILD-TYPE                                    13
                                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                                        11
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 17(15Q26.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         102
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        13
  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
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 17(15Q26.1) MUTATED    9  5  0  0
  AMP PEAK 17(15Q26.1) WILD-TYPE 71 37  2  3
D17V10, multiclass
    clus
vv   AMP PEAK 17(15Q26.1) MUTATED AMP PEAK 17(15Q26.1) WILD-TYPE
  R0                            9                             71
  R1                            5                             37
  R2                            0                              2
  RX                            0                              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"
D17V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 17(15Q26.1) MUTATED       1                         1    12
  AMP PEAK 17(15Q26.1) WILD-TYPE     1                         5   108
D17V12, multiclass
                           clus
vv                          AMP PEAK 17(15Q26.1) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               12
                           clus
vv                          AMP PEAK 17(15Q26.1) WILD-TYPE
  ASIAN                                                  1
  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"

Clustering(18) Variable = AMP PEAK 18(17P11.2) MUTATION ANALYSIS
D18V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 18(17P11.2) MUTATED    4  0
  AMP PEAK 18(17P11.2) WILD-TYPE 73 18
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                             4                             91 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                             0                             18 
$`AMP PEAK 18(17P11.2) MUTATED`
TCGA-2J-AABP TCGA-FB-A545 TCGA-HZ-8315 TCGA-LB-A8F3 
         360          385           28           35 

$`AMP PEAK 18(17P11.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         969          484          440          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
         449          378          166          392          233          396 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
         240           28           20            4            8          840 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 
         361            8           19           24           21           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
           3            5           91          660          491          194 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
          46           11           13           33         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 
         347         1951         1989          724         1257         1975 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS 
         648           75          522          329          300         1991 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
         635          248         1968          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        1978          128          179          188          153          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
         179          164          127          155          584          110 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM 
         247          416           95           36           42          397 
TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         197         1955          844          161          164          160 
TCGA-YY-A8LH 
        1834 

  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                            28                              3 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                           385                           2172 
  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE 
                         197.5                          247.0 
[1] "28.0 - 385.0 (197.5)" "3.0 - 2172.0 (247.0)"
[1] "hr="     "2.6e+07"
D18V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 18(17P11.2) MUTATED          0        0         2         3
  AMP PEAK 18(17P11.2) WILD-TYPE        2        7        20        92
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 18(17P11.2) MUTATED           0        0
  AMP PEAK 18(17P11.2) WILD-TYPE         2        4
D18V3, multiclass
           clus
vv          AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            2                             20
  STAGE IIB                            3                             92
  STAGE III                            0                              2
  STAGE IV                             0                              4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             T1+T2 T3+T4
  AMP PEAK 18(17P11.2) MUTATED       1     4
  AMP PEAK 18(17P11.2) WILD-TYPE    14   113
D18V4, multiclass
       clus
vv      AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  T1+T2                            1                             14
  T3+T4                            4                            113
[1] 2 2
[1] FALSE
D18V5, binary
                                cls
clus                              0  1
  AMP PEAK 18(17P11.2) MUTATED    2  3
  AMP PEAK 18(17P11.2) WILD-TYPE 29 97
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED      2    3
  AMP PEAK 18(17P11.2) WILD-TYPE   29   97
   clus
vv  AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  0                            2                             29
  1                            3                             97
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  AMP PEAK 18(17P11.2) MUTATED    3  0  2
  AMP PEAK 18(17P11.2) WILD-TYPE 71  4 52
D18V6, multiclass
    clus
vv   AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  M0                            3                             71
  M1                            0                              4
  MX                            2                             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"
D18V7, binary
                                cls
clus                              0  1
  AMP PEAK 18(17P11.2) MUTATED    4  1
  AMP PEAK 18(17P11.2) WILD-TYPE 56 71
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(17P11.2) MUTATED      4    1
  AMP PEAK 18(17P11.2) WILD-TYPE   56   71
        clus
vv       AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  FEMALE                            4                             56
  MALE                              1                             71
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 18(17P11.2) MUTATED                                     4
  AMP PEAK 18(17P11.2) WILD-TYPE                                 109
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 18(17P11.2) MUTATED                                       0
  AMP PEAK 18(17P11.2) WILD-TYPE                                    14
                                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                                         4
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       0
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 18(17P11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         109
  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"
D18V9, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 18(17P11.2) MUTATED    3  1  0  0
  AMP PEAK 18(17P11.2) WILD-TYPE 77 41  2  3
D18V10, multiclass
    clus
vv   AMP PEAK 18(17P11.2) MUTATED AMP PEAK 18(17P11.2) WILD-TYPE
  R0                            3                             77
  R1                            1                             41
  R2                            0                              2
  RX                            0                              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"
D18V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 18(17P11.2) MUTATED       0                         1     4
  AMP PEAK 18(17P11.2) WILD-TYPE     2                         5   116
D18V12, multiclass
                           clus
vv                          AMP PEAK 18(17P11.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                                4
                           clus
vv                          AMP PEAK 18(17P11.2) 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"

Clustering(19) Variable = AMP PEAK 19(17Q12) MUTATION ANALYSIS
D19V1, survival
                              sevent
clus2                           0  1
  AMP PEAK 19(17Q12) MUTATED   11  1
  AMP PEAK 19(17Q12) WILD-TYPE 66 17
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                          12                           83 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                           1                           17 
$`AMP PEAK 19(17Q12) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-FB-A545 TCGA-HZ-7922 
        1962          969          484          440          385            4 
TCGA-HZ-A4BH TCGA-IB-A7M4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-S4-A8RO 
         194          181          127           35          584          197 

$`AMP PEAK 19(17Q12) WILD-TYPE`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABP 
         729           80          676         1960          677          360 
TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G 
         438          319         2172          295          360          153 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR 
         586          167            4          449          378          166 
TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 
         392          233          396          240           28           20 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
           8          840          361            8           19           24 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
          21           28           16            3            5           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q 
         660          491           46           11           13           33 
TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
        1968            7          347         1951         1989          724 
TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO 
        1257         1975          648           75          522          329 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUM 
         300         1991          635          248         1968            8 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
         290         1978          128          179          188          153 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE 
         210          179          164          155          110          247 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-US-A774 
         416           95           36           42          397         1955 
TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         844          161          164          160         1834 

  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                           4                            3 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                        1962                         2172 
  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE 
                         291                          247 
[1] "4.0 - 1962.0 (291.0)" "3.0 - 2172.0 (247.0)"
[1] "hr=" "1.7"
D19V2, continuous
                              vv
clus                           STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK 19(17Q12) MUTATED          0        0         5        11         0
  AMP PEAK 19(17Q12) WILD-TYPE        2        7        17        84         2
                              vv
clus                           STAGE IV
  AMP PEAK 19(17Q12) MUTATED          0
  AMP PEAK 19(17Q12) WILD-TYPE        4
D19V3, multiclass
           clus
vv          AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  STAGE IA                           0                            2
  STAGE IB                           0                            7
  STAGE IIA                          5                           17
  STAGE IIB                         11                           84
  STAGE III                          0                            2
  STAGE IV                           0                            4
[1] 6 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       0    16
  AMP PEAK 19(17Q12) WILD-TYPE    15   101
D19V4, multiclass
       clus
vv      AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  T1+T2                          0                           15
  T3+T4                         16                          101
[1] 2 2
[1] FALSE
D19V5, binary
                              cls
clus                            0  1
  AMP PEAK 19(17Q12) MUTATED    5 11
  AMP PEAK 19(17Q12) WILD-TYPE 26 89
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED      5   11
  AMP PEAK 19(17Q12) WILD-TYPE   26   89
   clus
vv  AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  0                          5                           26
  1                         11                           89
[1] 2 2
[1] FALSE
                              vv
clus                           M0 M1 MX
  AMP PEAK 19(17Q12) MUTATED    8  0  8
  AMP PEAK 19(17Q12) WILD-TYPE 66  4 46
D19V6, multiclass
    clus
vv   AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  M0                          8                           66
  M1                          0                            4
  MX                          8                           46
[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"
D19V7, binary
                              cls
clus                            0  1
  AMP PEAK 19(17Q12) MUTATED    8  8
  AMP PEAK 19(17Q12) WILD-TYPE 52 64
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(17Q12) MUTATED      8    8
  AMP PEAK 19(17Q12) WILD-TYPE   52   64
        clus
vv       AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  FEMALE                          8                           52
  MALE                            8                           64
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 19(17Q12) MUTATED                                    14
  AMP PEAK 19(17Q12) WILD-TYPE                                  99
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 19(17Q12) MUTATED                                       2
  AMP PEAK 19(17Q12) WILD-TYPE                                    12
                              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                                      14
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                          0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                       0
                                                  clus
vv                                                 AMP PEAK 19(17Q12) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        99
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      12
  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
                              vv
clus                           R0 R1 R2 RX
  AMP PEAK 19(17Q12) MUTATED    9  6  0  0
  AMP PEAK 19(17Q12) WILD-TYPE 71 36  2  3
D19V10, multiclass
    clus
vv   AMP PEAK 19(17Q12) MUTATED AMP PEAK 19(17Q12) WILD-TYPE
  R0                          9                           71
  R1                          6                           36
  R2                          0                            2
  RX                          0                            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"
D19V11, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 19(17Q12) MUTATED       0                         2    13
  AMP PEAK 19(17Q12) WILD-TYPE     2                         4   107
D19V12, multiclass
                           clus
vv                          AMP PEAK 19(17Q12) MUTATED
  ASIAN                                              0
  BLACK OR AFRICAN AMERICAN                          2
  WHITE                                             13
                           clus
vv                          AMP PEAK 19(17Q12) WILD-TYPE
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            4
  WHITE                                              107
[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"

Clustering(20) Variable = AMP PEAK 20(18Q11.2) MUTATION ANALYSIS
D20V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 20(18Q11.2) MUTATED   25  7
  AMP PEAK 20(18Q11.2) WILD-TYPE 52 11
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                            32                             63 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                             7                             11 
$`AMP PEAK 20(18Q11.2) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP 
         729           80          677          484          440          360 
TCGA-2J-AABT TCGA-F2-A44G TCGA-FB-A545 TCGA-FB-A78T TCGA-H6-8124 TCGA-H8-A6C1 
         319          153          385          378          392          396 
TCGA-HZ-7919 TCGA-HZ-7925 TCGA-HZ-8636 TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A8P0 
          20          361            5           46           11         1968 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7886 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO 
         347         1951         1975           75          522          329 
TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUU TCGA-OE-A75W TCGA-PZ-A5RE 
         300         1968          181          153          110          247 
TCGA-S4-A8RM TCGA-YY-A8LH 
         397         1834 

$`AMP PEAK 20(18Q11.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABR TCGA-3E-AAAY 
        1962          676         1960          969          438         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM 
         295          360          586          167            4          449 
TCGA-FB-A7DR TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-7923 
         166          233          240           28            4            8 
TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 
         840            8           19           24           21           28 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
          16            3           91          660          491          194 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
          13           33            7         1989          724         1257 
TCGA-IB-7891 TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-AAUM TCGA-IB-AAUP 
         648         1991          635          248            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        1978          128          179          188          210          179 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-Q3-A5QY 
         164          127           35          155          584          416 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 
          95           36           42          197         1955          844 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         161          164          160 

  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                             5                              3 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                          1975                           2172 
  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE 
                         360.5                          188.0 
[1] "5.0 - 1975.0 (360.5)" "3.0 - 2172.0 (188.0)"
[1] "hr=" "1.5"
D20V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 20(18Q11.2) MUTATED          0        0         7        29
  AMP PEAK 20(18Q11.2) WILD-TYPE        2        7        15        66
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 20(18Q11.2) MUTATED           1        3
  AMP PEAK 20(18Q11.2) WILD-TYPE         1        1
D20V3, multiclass
           clus
vv          AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            7                             15
  STAGE IIB                           29                             66
  STAGE III                            1                              1
  STAGE IV                             3                              1
[1] 6 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       3    37
  AMP PEAK 20(18Q11.2) WILD-TYPE    12    80
D20V4, multiclass
       clus
vv      AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  T1+T2                            3                             12
  T3+T4                           37                             80
[1] 2 2
[1] FALSE
D20V5, binary
                                cls
clus                              0  1
  AMP PEAK 20(18Q11.2) MUTATED    8 32
  AMP PEAK 20(18Q11.2) WILD-TYPE 23 68
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED      8   32
  AMP PEAK 20(18Q11.2) WILD-TYPE   23   68
   clus
vv  AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  0                            8                             23
  1                           32                             68
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  AMP PEAK 20(18Q11.2) MUTATED   25  3 12
  AMP PEAK 20(18Q11.2) WILD-TYPE 49  1 42
D20V6, multiclass
    clus
vv   AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  M0                           25                             49
  M1                            3                              1
  MX                           12                             42
[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"
D20V7, binary
                                cls
clus                              0  1
  AMP PEAK 20(18Q11.2) MUTATED   14 26
  AMP PEAK 20(18Q11.2) WILD-TYPE 46 46
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(18Q11.2) MUTATED     14   26
  AMP PEAK 20(18Q11.2) WILD-TYPE   46   46
        clus
vv       AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  FEMALE                           14                             46
  MALE                             26                             46
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 20(18Q11.2) MUTATED                                    34
  AMP PEAK 20(18Q11.2) WILD-TYPE                                  79
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 20(18Q11.2) MUTATED                                       5
  AMP PEAK 20(18Q11.2) WILD-TYPE                                     9
                                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                                        34
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 AMP PEAK 20(18Q11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          79
  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"
D20V9, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 20(18Q11.2) MUTATED   25 13  0  0
  AMP PEAK 20(18Q11.2) WILD-TYPE 55 29  2  3
D20V10, multiclass
    clus
vv   AMP PEAK 20(18Q11.2) MUTATED AMP PEAK 20(18Q11.2) WILD-TYPE
  R0                           25                             55
  R1                           13                             29
  R2                            0                              2
  RX                            0                              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"
D20V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 20(18Q11.2) MUTATED       0                         0    39
  AMP PEAK 20(18Q11.2) WILD-TYPE     2                         6    81
D20V12, multiclass
                           clus
vv                          AMP PEAK 20(18Q11.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               39
                           clus
vv                          AMP PEAK 20(18Q11.2) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              6
  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"

Clustering(21) Variable = AMP PEAK 21(19P13.2) MUTATION ANALYSIS
D21V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 21(19P13.2) MUTATED    6  1
  AMP PEAK 21(19P13.2) WILD-TYPE 71 17
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                             7                             88 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                             1                             17 
$`AMP PEAK 21(19P13.2) MUTATED`
TCGA-2J-AAB8 TCGA-FB-A545 TCGA-H6-8124 TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-AAUU 
          80          385          392         1975          522          153 
TCGA-YB-A89D 
         160 

$`AMP PEAK 21(19P13.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI 
        1962          729          676         1960          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         484          440          360          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 
         449          378          166          233          396          240 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
          28           20            4            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
           3            5           91          660          491          194 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
          46           11           13           33         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7891 
         347         1951         1989          724         1257          648 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF 
          75          329          300         1991          635          248 
TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
        1968          181            8          290         1978          128 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX 
         179          188          210          179          164          127 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
          35          155          584          110          247          416 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 
          95           36           42          397          197         1955 
TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YY-A8LH 
         844          161          164         1834 

  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                            80                              3 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                          1975                           2172 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                         385.0                          243.5 
[1] "80.0 - 1975.0 (385.0)" "3.0 - 2172.0 (243.5)" 
[1] "hr=" "1.6"
D21V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 21(19P13.2) MUTATED          0        0         0         7
  AMP PEAK 21(19P13.2) WILD-TYPE        2        7        22        88
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 21(19P13.2) MUTATED           0        0
  AMP PEAK 21(19P13.2) WILD-TYPE         2        4
D21V3, multiclass
           clus
vv          AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            0                             22
  STAGE IIB                            7                             88
  STAGE III                            0                              2
  STAGE IV                             0                              4
[1] 6 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     7
  AMP PEAK 21(19P13.2) WILD-TYPE    15   110
D21V4, multiclass
       clus
vv      AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  T1+T2                            0                             15
  T3+T4                            7                            110
[1] 2 2
[1] FALSE
D21V5, binary
                                cls
clus                              0  1
  AMP PEAK 21(19P13.2) MUTATED    0  7
  AMP PEAK 21(19P13.2) WILD-TYPE 31 93
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19P13.2) MUTATED      0    7
  AMP PEAK 21(19P13.2) WILD-TYPE   31   93
   clus
vv  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  0                            0                             31
  1                            7                             93
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  AMP PEAK 21(19P13.2) MUTATED    6  0  1
  AMP PEAK 21(19P13.2) WILD-TYPE 68  4 53
D21V6, multiclass
    clus
vv   AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  M0                            6                             68
  M1                            0                              4
  MX                            1                             53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V7, binary
                                cls
clus                              0  1
  AMP PEAK 21(19P13.2) MUTATED    2  5
  AMP PEAK 21(19P13.2) WILD-TYPE 58 67
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19P13.2) MUTATED      2    5
  AMP PEAK 21(19P13.2) WILD-TYPE   58   67
        clus
vv       AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  FEMALE                            2                             58
  MALE                              5                             67
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 21(19P13.2) MUTATED                                     7
  AMP PEAK 21(19P13.2) WILD-TYPE                                 106
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 21(19P13.2) MUTATED                                       0
  AMP PEAK 21(19P13.2) WILD-TYPE                                    14
                                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                                         7
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       0
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK 21(19P13.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         106
  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"
D21V9, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 21(19P13.2) MUTATED    3  3  0  0
  AMP PEAK 21(19P13.2) WILD-TYPE 77 39  2  3
D21V10, multiclass
    clus
vv   AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  R0                            3                             77
  R1                            3                             39
  R2                            0                              2
  RX                            0                              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"
D21V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 21(19P13.2) MUTATED       0                         0     7
  AMP PEAK 21(19P13.2) WILD-TYPE     2                         6   113
D21V12, multiclass
                           clus
vv                          AMP PEAK 21(19P13.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                                7
                           clus
vv                          AMP PEAK 21(19P13.2) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              6
  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"

Clustering(22) Variable = AMP PEAK 22(19Q13.2) MUTATION ANALYSIS
D22V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 22(19Q13.2) MUTATED   20  6
  AMP PEAK 22(19Q13.2) WILD-TYPE 57 12
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                            26                             69 
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                             6                             12 
$`AMP PEAK 22(19Q13.2) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABO TCGA-FB-A545 
         729           80         1960          677          440          385 
TCGA-FB-A7DR TCGA-H6-8124 TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-8001 TCGA-HZ-A4BH 
         166          392           28            4           19          194 
TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A6UG 
        1975          648          522          300         1991         1968 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-PZ-A5RE 
         290         1978          153          164          127          247 
TCGA-US-A776 TCGA-YB-A89D 
         844          160 

$`AMP PEAK 22(19Q13.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AABE TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR 
        1962          676          969          484          360          438 
TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H 
         319         2172          295          360          153          586 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-H6-A45N TCGA-H8-A6C1 
         167            4          449          378          233          396 
TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
         240           20            8          840          361            8 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
          24           21           28           16            3            5 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P 
          91          660          491           46           11           13 
TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 
          33         1968            7          347         1951         1989 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5ST TCGA-IB-A6UF 
         724         1257           75          329          635          248 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV 
         181            8          128          179          188          210 
TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-Q3-A5QY 
         179           35          155          584          110          416 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 
          95           36           42          397          197         1955 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YY-A8LH 
         161          164         1834 

  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                             4                              3 
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                          1991                           2172 
  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE 
                         342.5                          210.0 
[1] "4.0 - 1991.0 (342.5)" "3.0 - 2172.0 (210.0)"
[1] "hr=" "1.4"
D22V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 22(19Q13.2) MUTATED          0        0         6        24
  AMP PEAK 22(19Q13.2) WILD-TYPE        2        7        16        71
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 22(19Q13.2) MUTATED           1        0
  AMP PEAK 22(19Q13.2) WILD-TYPE         1        4
D22V3, multiclass
           clus
vv          AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            6                             16
  STAGE IIB                           24                             71
  STAGE III                            1                              1
  STAGE IV                             0                              4
[1] 6 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       1    30
  AMP PEAK 22(19Q13.2) WILD-TYPE    14    87
D22V4, multiclass
       clus
vv      AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  T1+T2                            1                             14
  T3+T4                           30                             87
[1] 2 2
[1] FALSE
D22V5, binary
                                cls
clus                              0  1
  AMP PEAK 22(19Q13.2) MUTATED    6 24
  AMP PEAK 22(19Q13.2) WILD-TYPE 25 76
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(19Q13.2) MUTATED      6   24
  AMP PEAK 22(19Q13.2) WILD-TYPE   25   76
   clus
vv  AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  0                            6                             25
  1                           24                             76
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  AMP PEAK 22(19Q13.2) MUTATED   23  0  8
  AMP PEAK 22(19Q13.2) WILD-TYPE 51  4 46
D22V6, multiclass
    clus
vv   AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  M0                           23                             51
  M1                            0                              4
  MX                            8                             46
[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"
D22V7, binary
                                cls
clus                              0  1
  AMP PEAK 22(19Q13.2) MUTATED    8 23
  AMP PEAK 22(19Q13.2) WILD-TYPE 52 49
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(19Q13.2) MUTATED      8   23
  AMP PEAK 22(19Q13.2) WILD-TYPE   52   49
        clus
vv       AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  FEMALE                            8                             52
  MALE                             23                             49
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 22(19Q13.2) MUTATED                                    27
  AMP PEAK 22(19Q13.2) WILD-TYPE                                  86
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 22(19Q13.2) MUTATED                                       2
  AMP PEAK 22(19Q13.2) WILD-TYPE                                    12
                                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                                        27
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK 22(19Q13.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          86
  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"
D22V9, continuous
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 22(19Q13.2) MUTATED   16 12  1  0
  AMP PEAK 22(19Q13.2) WILD-TYPE 64 30  1  3
D22V10, multiclass
    clus
vv   AMP PEAK 22(19Q13.2) MUTATED AMP PEAK 22(19Q13.2) WILD-TYPE
  R0                           16                             64
  R1                           12                             30
  R2                            1                              1
  RX                            0                              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"
D22V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 22(19Q13.2) MUTATED       1                         2    28
  AMP PEAK 22(19Q13.2) WILD-TYPE     1                         4    92
D22V12, multiclass
                           clus
vv                          AMP PEAK 22(19Q13.2) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               28
                           clus
vv                          AMP PEAK 22(19Q13.2) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              4
  WHITE                                                 92
[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"

Clustering(23) Variable = AMP PEAK 23(20P11.23) MUTATION ANALYSIS
D23V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 23(20P11.23) MUTATED   16  2
  AMP PEAK 23(20P11.23) WILD-TYPE 61 16
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                             18                              77 
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                              2                              16 
$`AMP PEAK 23(20P11.23) MUTATED`
TCGA-2J-AABF TCGA-2J-AABP TCGA-FB-A545 TCGA-FB-A5VM TCGA-HZ-7289 TCGA-HZ-7922 
        1960          360          385          449          240            4 
TCGA-HZ-A49G TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP 
         660           11           33         1975          522          300 
TCGA-IB-AAUU TCGA-LB-A8F3 TCGA-S4-A8RO TCGA-US-A776 TCGA-YB-A89D TCGA-YY-A8LH 
         153           35          197          844          160         1834 

$`AMP PEAK 23(20P11.23) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI 
        1962          729           80          676          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         484          440          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A78T 
         360          153          586          167            4          378 
TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 
         166          392          233          396           28           20 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
           8          840          361            8           19           24 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
          21           28           16            3            5           91 
TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A8P0 TCGA-HZ-A8P1 
         491          194           46           13         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7891 
         347         1951         1989          724         1257          648 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
          75          329         1991          635          248         1968 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
         181            8          290         1978          128          179 
TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A9Q5 
         188          210          179          164          127          155 
TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
         584          110          247          416           95           36 
TCGA-RB-AA9M TCGA-S4-A8RM TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH 
          42          397         1955          161          164 

  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                              4                               3 
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                           1975                            2172 
  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE 
                            330                             233 
[1] "4.0 - 1975.0 (330.0)" "3.0 - 2172.0 (233.0)"
[1] "hr=" "1.6"
D23V2, continuous
                                 vv
clus                              STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 23(20P11.23) MUTATED          0        2         5        18
  AMP PEAK 23(20P11.23) WILD-TYPE        2        5        17        77
                                 vv
clus                              STAGE III STAGE IV
  AMP PEAK 23(20P11.23) MUTATED           0        0
  AMP PEAK 23(20P11.23) WILD-TYPE         2        4
D23V3, multiclass
           clus
vv          AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  STAGE IA                              0                               2
  STAGE IB                              2                               5
  STAGE IIA                             5                              17
  STAGE IIB                            18                              77
  STAGE III                             0                               2
  STAGE IV                              0                               4
[1] 6 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       4    21
  AMP PEAK 23(20P11.23) WILD-TYPE    11    96
D23V4, multiclass
       clus
vv      AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  T1+T2                             4                              11
  T3+T4                            21                              96
[1] 2 2
[1] FALSE
D23V5, binary
                                 cls
clus                               0  1
  AMP PEAK 23(20P11.23) MUTATED    7 18
  AMP PEAK 23(20P11.23) WILD-TYPE 24 82
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 23(20P11.23) MUTATED      7   18
  AMP PEAK 23(20P11.23) WILD-TYPE   24   82
   clus
vv  AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  0                             7                              24
  1                            18                              82
[1] 2 2
[1] FALSE
                                 vv
clus                              M0 M1 MX
  AMP PEAK 23(20P11.23) MUTATED   11  0 14
  AMP PEAK 23(20P11.23) WILD-TYPE 63  4 40
D23V6, multiclass
    clus
vv   AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  M0                            11                              63
  M1                             0                               4
  MX                            14                              40
[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"
D23V7, binary
                                 cls
clus                               0  1
  AMP PEAK 23(20P11.23) MUTATED    9 16
  AMP PEAK 23(20P11.23) WILD-TYPE 51 56
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 23(20P11.23) MUTATED      9   16
  AMP PEAK 23(20P11.23) WILD-TYPE   51   56
        clus
vv       AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  FEMALE                             9                              51
  MALE                              16                              56
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 23(20P11.23) MUTATED                                    20
  AMP PEAK 23(20P11.23) WILD-TYPE                                  93
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 23(20P11.23) MUTATED                                       3
  AMP PEAK 23(20P11.23) WILD-TYPE                                    11
                                 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                                         20
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
                                                  clus
vv                                                 AMP PEAK 23(20P11.23) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                           93
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         11
  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
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 23(20P11.23) MUTATED   14  9  0  1
  AMP PEAK 23(20P11.23) WILD-TYPE 66 33  2  2
D23V10, multiclass
    clus
vv   AMP PEAK 23(20P11.23) MUTATED AMP PEAK 23(20P11.23) WILD-TYPE
  R0                            14                              66
  R1                             9                              33
  R2                             0                               2
  RX                             1                               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"
D23V11, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 23(20P11.23) MUTATED       0                         1    23
  AMP PEAK 23(20P11.23) WILD-TYPE     2                         5    97
D23V12, multiclass
                           clus
vv                          AMP PEAK 23(20P11.23) MUTATED
  ASIAN                                                 0
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                23
                           clus
vv                          AMP PEAK 23(20P11.23) WILD-TYPE
  ASIAN                                                   2
  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"

Clustering(24) Variable = AMP PEAK 24(XP22.11) MUTATION ANALYSIS
D24V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 24(XP22.11) MUTATED    5  0
  AMP PEAK 24(XP22.11) WILD-TYPE 72 18
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                             5                             90 
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                             0                             18 
$`AMP PEAK 24(XP22.11) MUTATED`
TCGA-2J-AAB8 TCGA-F2-6880 TCGA-HZ-7925 TCGA-LB-A7SX TCGA-US-A776 
          80          295          361          127          844 

$`AMP PEAK 24(XP22.11) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI 
        1962          729          676         1960          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         484          440          360          438          319         2172 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
         360          153          586          167            4          385 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
         449          378          166          392          233          396 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
         240           28           20            4            8          840 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
           3            5           91          660          491          194 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
          46           11           13           33         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 
         347         1951         1989          724         1257         1975 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS 
         648           75          522          329          300         1991 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
         635          248         1968          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        1978          128          179          188          153          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
         179          164           35          155          584          110 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM 
         247          416           95           36           42          397 
TCGA-S4-A8RO TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         197         1955          161          164          160         1834 

  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                            80                              3 
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                           844                           2172 
  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE 
                         295.0                          243.5 
[1] "80.0 - 844.0 (295.0)" "3.0 - 2172.0 (243.5)"
[1] "hr="     "2.6e+07"
D24V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  AMP PEAK 24(XP22.11) MUTATED          0        0         1         5
  AMP PEAK 24(XP22.11) WILD-TYPE        2        7        21        90
                                vv
clus                             STAGE III STAGE IV
  AMP PEAK 24(XP22.11) MUTATED           0        0
  AMP PEAK 24(XP22.11) WILD-TYPE         2        4
D24V3, multiclass
           clus
vv          AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            1                             21
  STAGE IIB                            5                             90
  STAGE III                            0                              2
  STAGE IV                             0                              4
[1] 6 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       0     6
  AMP PEAK 24(XP22.11) WILD-TYPE    15   111
D24V4, multiclass
       clus
vv      AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  T1+T2                            0                             15
  T3+T4                            6                            111
[1] 2 2
[1] FALSE
D24V5, binary
                                cls
clus                              0  1
  AMP PEAK 24(XP22.11) MUTATED    1  5
  AMP PEAK 24(XP22.11) WILD-TYPE 30 95
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 24(XP22.11) MUTATED      1    5
  AMP PEAK 24(XP22.11) WILD-TYPE   30   95
   clus
vv  AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  0                            1                             30
  1                            5                             95
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  AMP PEAK 24(XP22.11) MUTATED    3  0  3
  AMP PEAK 24(XP22.11) WILD-TYPE 71  4 51
D24V6, multiclass
    clus
vv   AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  M0                            3                             71
  M1                            0                              4
  MX                            3                             51
[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"
D24V7, binary
                                cls
clus                              0  1
  AMP PEAK 24(XP22.11) MUTATED    1  5
  AMP PEAK 24(XP22.11) WILD-TYPE 59 67
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 24(XP22.11) MUTATED      1    5
  AMP PEAK 24(XP22.11) WILD-TYPE   59   67
        clus
vv       AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  FEMALE                            1                             59
  MALE                              5                             67
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 24(XP22.11) MUTATED                                     5
  AMP PEAK 24(XP22.11) WILD-TYPE                                 108
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 24(XP22.11) MUTATED                                       0
  AMP PEAK 24(XP22.11) WILD-TYPE                                    14
                                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                                         5
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       0
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 AMP PEAK 24(XP22.11) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         108
  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"
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                             42 
                    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-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-H6-8124                     TCGA-H6-A45N 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-H8-A6C1                     TCGA-HZ-A77Q 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-HZ-A8P0                     TCGA-HZ-A8P1 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-7644                     TCGA-IB-7649 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-7651                     TCGA-IB-7885 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-IB-7886                     TCGA-IB-7887 
"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-AAUU                     TCGA-IB-AAUV 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-LB-A9Q5                     TCGA-OE-A75W 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-S4-A8RM                     TCGA-S4-A8RP 
"AMP PEAK 24(XP22.11) WILD-TYPE" "AMP PEAK 24(XP22.11) WILD-TYPE" 
                    TCGA-US-A774                     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    4  2  0  0
  AMP PEAK 24(XP22.11) WILD-TYPE 76 40  2  3
D24V10, multiclass
    clus
vv   AMP PEAK 24(XP22.11) MUTATED AMP PEAK 24(XP22.11) WILD-TYPE
  R0                            4                             76
  R1                            2                             40
  R2                            0                              2
  RX                            0                              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"
D24V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 24(XP22.11) MUTATED       0                         1     5
  AMP PEAK 24(XP22.11) WILD-TYPE     2                         5   115
D24V12, multiclass
                           clus
vv                          AMP PEAK 24(XP22.11) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                                5
                           clus
vv                          AMP PEAK 24(XP22.11) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                115
[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"

Clustering(25) Variable = AMP PEAK 25(XQ27.1) MUTATION ANALYSIS
D25V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 25(XQ27.1) MUTATED    8  1
  AMP PEAK 25(XQ27.1) WILD-TYPE 69 17
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                            9                            86 
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                            1                            17 
$`AMP PEAK 25(XQ27.1) MUTATED`
TCGA-2J-AAB4 TCGA-FB-A78T TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-8001 TCGA-IB-7652 
         729          378          240           28           19          724 
TCGA-IB-A6UG TCGA-Q3-AA2A TCGA-S4-A8RO 
        1968           95          197 

$`AMP PEAK 25(XQ27.1) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI 
        1962           80          676         1960          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         484          440          360          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
         385          449          166          392          233          396 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
          20            4            8          840          361            8 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
          24           21           28           16            3            5 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O 
          91          660          491          194           46           11 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 
          13           33         1968            7          347         1951 
TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 
        1989         1257         1975          648           75          522 
TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 
         329          300         1991          635          248          181 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
           8          290         1978          128          179          188 
TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 
         153          210          179          164          127           35 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 
         155          584          110          247          416           36 
TCGA-RB-AA9M TCGA-S4-A8RM TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH 
          42          397         1955          844          161          164 
TCGA-YB-A89D TCGA-YY-A8LH 
         160         1834 

  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                           19                             3 
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                         1968                          2172 
  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE 
                        240.0                         247.5 
[1] "19.0 - 1968.0 (240.0)" "3.0 - 2172.0 (247.5)" 
[1] "hr=" "1.5"
D25V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  AMP PEAK 25(XQ27.1) MUTATED          0        1         2        10         1
  AMP PEAK 25(XQ27.1) WILD-TYPE        2        6        20        85         1
                               vv
clus                            STAGE IV
  AMP PEAK 25(XQ27.1) MUTATED          0
  AMP PEAK 25(XQ27.1) WILD-TYPE        4
D25V3, multiclass
           clus
vv          AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            1                             6
  STAGE IIA                           2                            20
  STAGE IIB                          10                            85
  STAGE III                           1                             1
  STAGE IV                            0                             4
[1] 6 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       1    13
  AMP PEAK 25(XQ27.1) WILD-TYPE    14   104
D25V4, multiclass
       clus
vv      AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  T1+T2                           1                            14
  T3+T4                          13                           104
[1] 2 2
[1] FALSE
D25V5, binary
                               cls
clus                             0  1
  AMP PEAK 25(XQ27.1) MUTATED    3 11
  AMP PEAK 25(XQ27.1) WILD-TYPE 28 89
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 25(XQ27.1) MUTATED      3   11
  AMP PEAK 25(XQ27.1) WILD-TYPE   28   89
   clus
vv  AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  0                           3                            28
  1                          11                            89
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  AMP PEAK 25(XQ27.1) MUTATED    7  0  7
  AMP PEAK 25(XQ27.1) WILD-TYPE 67  4 47
D25V6, multiclass
    clus
vv   AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  M0                           7                            67
  M1                           0                             4
  MX                           7                            47
[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"
D25V7, binary
                               cls
clus                             0  1
  AMP PEAK 25(XQ27.1) MUTATED    5  9
  AMP PEAK 25(XQ27.1) WILD-TYPE 55 63
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 25(XQ27.1) MUTATED      5    9
  AMP PEAK 25(XQ27.1) WILD-TYPE   55   63
        clus
vv       AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  FEMALE                           5                            55
  MALE                             9                            63
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  AMP PEAK 25(XQ27.1) MUTATED                                    11
  AMP PEAK 25(XQ27.1) WILD-TYPE                                 102
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  AMP PEAK 25(XQ27.1) MUTATED                                       3
  AMP PEAK 25(XQ27.1) WILD-TYPE                                    11
                               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                                       11
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 AMP PEAK 25(XQ27.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        102
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       11
  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                            42 
                   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-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-H6-8124                    TCGA-H6-A45N 
"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-7887 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-7891                    TCGA-IB-8126 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-8127                    TCGA-IB-A5SS 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-A6UF                    TCGA-IB-A7M4 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-AAUQ                    TCGA-IB-AAUS 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-IB-AAUT                    TCGA-IB-AAUU 
"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-S4-A8RP 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                   TCGA-US-A774                    TCGA-YY-A8LH 
"AMP PEAK 25(XQ27.1) WILD-TYPE" "AMP PEAK 25(XQ27.1) WILD-TYPE" 
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK 25(XQ27.1) MUTATED    9  3  0  2
  AMP PEAK 25(XQ27.1) WILD-TYPE 71 39  2  1
D25V10, multiclass
    clus
vv   AMP PEAK 25(XQ27.1) MUTATED AMP PEAK 25(XQ27.1) WILD-TYPE
  R0                           9                            71
  R1                           3                            39
  R2                           0                             2
  RX                           2                             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"
D25V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 25(XQ27.1) MUTATED       1                         0    13
  AMP PEAK 25(XQ27.1) WILD-TYPE     1                         6   107
D25V12, multiclass
                           clus
vv                          AMP PEAK 25(XQ27.1) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              13
                           clus
vv                          AMP PEAK 25(XQ27.1) WILD-TYPE
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             6
  WHITE                                               107
[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"

Clustering(26) Variable = DEL PEAK  1(1P36.32) MUTATION ANALYSIS
D26V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  1(1P36.32) MUTATED   20  3
  DEL PEAK  1(1P36.32) WILD-TYPE 57 15
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                            23                             72 
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                             3                             15 
$`DEL PEAK  1(1P36.32) MUTATED`
TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-FB-A78T TCGA-FB-A7DR TCGA-HZ-7289 
         677          969          440          378          166          240 
TCGA-HZ-7918 TCGA-HZ-A77O TCGA-HZ-A8P1 TCGA-IB-7651 TCGA-IB-7886 TCGA-IB-8127 
          28           11            7         1989         1975          522 
TCGA-IB-A5SP TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-Q3-AA2A 
         300         1968          181           35          584           95 
TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A776 TCGA-YY-A8LH 
          42          397          197          844         1834 

$`DEL PEAK  1(1P36.32) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABK 
        1962          729           80          676         1960          484 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         360          438          319         2172          295          360 
TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
         153          586          167            4          385          449 
TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 
         392          233          396           20            4            8 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
         840          361            8           19           24           21 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G 
          28           16            3            5           91          660 
TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 
         491          194           46           13           33         1968 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 
         347         1951          724         1257          648           75 
TCGA-IB-A5SO TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-AAUM TCGA-IB-AAUP 
         329         1991          635          248            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        1978          128          179          188          153          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE 
         179          164          127          155          110          247 
TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         416           36         1955          161          164          160 

  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                             7                              3 
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                          1989                           2172 
  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE 
                         378.0                          221.5 
[1] "7.0 - 1989.0 (378.0)" "3.0 - 2172.0 (221.5)"
[1] "hr=" "2"  
D26V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  1(1P36.32) MUTATED          0        3        10        22
  DEL PEAK  1(1P36.32) WILD-TYPE        2        4        12        73
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK  1(1P36.32) MUTATED           0        1
  DEL PEAK  1(1P36.32) WILD-TYPE         2        3
D26V3, multiclass
           clus
vv          DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             3                              4
  STAGE IIA                           10                             12
  STAGE IIB                           22                             73
  STAGE III                            0                              2
  STAGE IV                             1                              3
[1] 6 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       4    32
  DEL PEAK  1(1P36.32) WILD-TYPE    11    85
D26V4, multiclass
       clus
vv      DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  T1+T2                            4                             11
  T3+T4                           32                             85
[1] 2 2
[1] FALSE
D26V5, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.32) MUTATED   11 24
  DEL PEAK  1(1P36.32) WILD-TYPE 20 76
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.32) MUTATED     11   24
  DEL PEAK  1(1P36.32) WILD-TYPE   20   76
   clus
vv  DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  0                           11                             20
  1                           24                             76
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK  1(1P36.32) MUTATED   18  1 17
  DEL PEAK  1(1P36.32) WILD-TYPE 56  3 37
D26V6, multiclass
    clus
vv   DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  M0                           18                             56
  M1                            1                              3
  MX                           17                             37
[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"
D26V7, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.32) MUTATED   13 23
  DEL PEAK  1(1P36.32) WILD-TYPE 47 49
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.32) MUTATED     13   23
  DEL PEAK  1(1P36.32) WILD-TYPE   47   49
        clus
vv       DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  FEMALE                           13                             47
  MALE                             23                             49
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  1(1P36.32) MUTATED                                    31
  DEL PEAK  1(1P36.32) WILD-TYPE                                  82
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  1(1P36.32) MUTATED                                       3
  DEL PEAK  1(1P36.32) WILD-TYPE                                    11
                                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                                        31
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK  1(1P36.32) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          82
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        11
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  1(1P36.32) MUTATED   23 10  0  2
  DEL PEAK  1(1P36.32) WILD-TYPE 57 32  2  1
D26V10, multiclass
    clus
vv   DEL PEAK  1(1P36.32) MUTATED DEL PEAK  1(1P36.32) WILD-TYPE
  R0                           23                             57
  R1                           10                             32
  R2                            0                              2
  RX                            2                              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"
D26V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  1(1P36.32) MUTATED       1                         2    32
  DEL PEAK  1(1P36.32) WILD-TYPE     1                         4    88
D26V12, multiclass
                           clus
vv                          DEL PEAK  1(1P36.32) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               32
                           clus
vv                          DEL PEAK  1(1P36.32) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              4
  WHITE                                                 88
[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"

Clustering(27) Variable = DEL PEAK  2(1P36.11) MUTATION ANALYSIS
D27V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  2(1P36.11) MUTATED   25  6
  DEL PEAK  2(1P36.11) WILD-TYPE 52 12
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                            31                             64 
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                             6                             12 
$`DEL PEAK  2(1P36.11) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-FB-A78T 
        1962         1960          677          969          440          378 
TCGA-FB-A7DR TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7925 TCGA-HZ-A77O 
         166          396          240           28          361           11 
TCGA-HZ-A8P1 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP 
           7         1989          724         1975          522          300 
TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-LB-A8F3 TCGA-OE-A75W 
        1991          248         1968          181           35          110 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A776 
          95           36           42          397          197          844 
TCGA-YY-A8LH 
        1834 

$`DEL PEAK  2(1P36.11) WILD-TYPE`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR 
         729           80          676          484          360          438 
TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H 
         319         2172          295          360          153          586 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-H6-8124 TCGA-H6-A45N 
         167            4          385          449          392          233 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 
          20            4            8          840            8           19 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
          24           21           28           16            3            5 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P 
          91          660          491          194           46           13 
TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7885 TCGA-IB-7891 
          33         1968          347         1951         1257          648 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5ST TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ 
          75          329          635            8          290         1978 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
         128          179          188          153          210          179 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY 
         164          127          155          584          247          416 
TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
        1955          161          164          160 

  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                             7                              3 
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                          1991                           2172 
  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE 
                           378                            191 
[1] "7.0 - 1991.0 (378.0)" "3.0 - 2172.0 (191.0)"
[1] "hr=" "1.9"
D27V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  2(1P36.11) MUTATED          0        3        12        31
  DEL PEAK  2(1P36.11) WILD-TYPE        2        4        10        64
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK  2(1P36.11) MUTATED           0        1
  DEL PEAK  2(1P36.11) WILD-TYPE         2        3
D27V3, multiclass
           clus
vv          DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             3                              4
  STAGE IIA                           12                             10
  STAGE IIB                           31                             64
  STAGE III                            0                              2
  STAGE IV                             1                              3
[1] 6 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       5    42
  DEL PEAK  2(1P36.11) WILD-TYPE    10    75
D27V4, multiclass
       clus
vv      DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  T1+T2                            5                             10
  T3+T4                           42                             75
[1] 2 2
[1] FALSE
D27V5, binary
                                cls
clus                              0  1
  DEL PEAK  2(1P36.11) MUTATED   13 33
  DEL PEAK  2(1P36.11) WILD-TYPE 18 67
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  2(1P36.11) MUTATED     13   33
  DEL PEAK  2(1P36.11) WILD-TYPE   18   67
   clus
vv  DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  0                           13                             18
  1                           33                             67
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK  2(1P36.11) MUTATED   26  1 20
  DEL PEAK  2(1P36.11) WILD-TYPE 48  3 34
D27V6, multiclass
    clus
vv   DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  M0                           26                             48
  M1                            1                              3
  MX                           20                             34
[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"
D27V7, binary
                                cls
clus                              0  1
  DEL PEAK  2(1P36.11) MUTATED   16 31
  DEL PEAK  2(1P36.11) WILD-TYPE 44 41
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  2(1P36.11) MUTATED     16   31
  DEL PEAK  2(1P36.11) WILD-TYPE   44   41
        clus
vv       DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  FEMALE                           16                             44
  MALE                             31                             41
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  2(1P36.11) MUTATED                                    39
  DEL PEAK  2(1P36.11) WILD-TYPE                                  74
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  2(1P36.11) MUTATED                                       6
  DEL PEAK  2(1P36.11) WILD-TYPE                                     8
                                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                                        39
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK  2(1P36.11) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          74
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         8
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  2(1P36.11) MUTATED   31 13  0  2
  DEL PEAK  2(1P36.11) WILD-TYPE 49 29  2  1
D27V10, multiclass
    clus
vv   DEL PEAK  2(1P36.11) MUTATED DEL PEAK  2(1P36.11) WILD-TYPE
  R0                           31                             49
  R1                           13                             29
  R2                            0                              2
  RX                            2                              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"
D27V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  2(1P36.11) MUTATED       2                         2    43
  DEL PEAK  2(1P36.11) WILD-TYPE     0                         4    77
D27V12, multiclass
                           clus
vv                          DEL PEAK  2(1P36.11) MUTATED
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               43
                           clus
vv                          DEL PEAK  2(1P36.11) WILD-TYPE
  ASIAN                                                  0
  BLACK OR AFRICAN AMERICAN                              4
  WHITE                                                 77
[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"

Clustering(28) Variable = DEL PEAK  3(2Q14.3) MUTATION ANALYSIS
D28V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  3(2Q14.3) MUTATED    4  0
  DEL PEAK  3(2Q14.3) WILD-TYPE 73 18
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                            4                            91 
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                            0                            18 
$`DEL PEAK  3(2Q14.3) MUTATED`
TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-US-A776 
         392          240           28          844 

$`DEL PEAK  3(2Q14.3) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT 
         969          484          440          360          438          319 
TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN 
        2172          295          360          153          586          167 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-A45N 
           4          385          449          378          166          233 
TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         396           20            4            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
           3            5           91          660          491          194 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
          46           11           13           33         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 
         347         1951         1989          724         1257         1975 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS 
         648           75          522          329          300         1991 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
         635          248         1968          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        1978          128          179          188          153          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
         179          164          127           35          155          584 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
         110          247          416           95           36           42 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         397          197         1955          161          164          160 
TCGA-YY-A8LH 
        1834 

  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                           28                             3 
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                          844                          2172 
  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE 
                          316                           247 
[1] "28.0 - 844.0 (316.0)" "3.0 - 2172.0 (247.0)"
[1] "hr="     "2.6e+07"
D28V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK  3(2Q14.3) MUTATED          0        0         1         4         0
  DEL PEAK  3(2Q14.3) WILD-TYPE        2        7        21        91         2
                               vv
clus                            STAGE IV
  DEL PEAK  3(2Q14.3) MUTATED          0
  DEL PEAK  3(2Q14.3) WILD-TYPE        4
D28V3, multiclass
           clus
vv          DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            0                             7
  STAGE IIA                           1                            21
  STAGE IIB                           4                            91
  STAGE III                           0                             2
  STAGE IV                            0                             4
[1] 6 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       0     5
  DEL PEAK  3(2Q14.3) WILD-TYPE    15   112
D28V4, multiclass
       clus
vv      DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  T1+T2                           0                            15
  T3+T4                           5                           112
[1] 2 2
[1] FALSE
D28V5, binary
                               cls
clus                             0  1
  DEL PEAK  3(2Q14.3) MUTATED    1  4
  DEL PEAK  3(2Q14.3) WILD-TYPE 30 96
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q14.3) MUTATED      1    4
  DEL PEAK  3(2Q14.3) WILD-TYPE   30   96
   clus
vv  DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  0                           1                            30
  1                           4                            96
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK  3(2Q14.3) MUTATED    2  0  3
  DEL PEAK  3(2Q14.3) WILD-TYPE 72  4 51
D28V6, multiclass
    clus
vv   DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  M0                           2                            72
  M1                           0                             4
  MX                           3                            51
[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"
D28V7, binary
                               cls
clus                             0  1
  DEL PEAK  3(2Q14.3) MUTATED    1  4
  DEL PEAK  3(2Q14.3) WILD-TYPE 59 68
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q14.3) MUTATED      1    4
  DEL PEAK  3(2Q14.3) WILD-TYPE   59   68
        clus
vv       DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  FEMALE                           1                            59
  MALE                             4                            68
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  3(2Q14.3) MUTATED                                     3
  DEL PEAK  3(2Q14.3) WILD-TYPE                                 110
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  3(2Q14.3) MUTATED                                       1
  DEL PEAK  3(2Q14.3) WILD-TYPE                                    13
                               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                                        3
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK  3(2Q14.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        110
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
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                            43 
                   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-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-H6-A45N 
"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-7887 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-7891                    TCGA-IB-8126 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-8127                    TCGA-IB-A5SS 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-A6UF                    TCGA-IB-A6UG 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-A7M4                    TCGA-IB-AAUQ 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUS                    TCGA-IB-AAUT 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-IB-AAUU                    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-S4-A8RP                    TCGA-US-A774 
"DEL PEAK  3(2Q14.3) WILD-TYPE" "DEL PEAK  3(2Q14.3) WILD-TYPE" 
                   TCGA-YY-A8LH 
"DEL PEAK  3(2Q14.3) WILD-TYPE" 
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  3(2Q14.3) MUTATED    3  1  0  1
  DEL PEAK  3(2Q14.3) WILD-TYPE 77 41  2  2
D28V10, multiclass
    clus
vv   DEL PEAK  3(2Q14.3) MUTATED DEL PEAK  3(2Q14.3) WILD-TYPE
  R0                           3                            77
  R1                           1                            41
  R2                           0                             2
  RX                           1                             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"
D28V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  3(2Q14.3) MUTATED       0                         0     5
  DEL PEAK  3(2Q14.3) WILD-TYPE     2                         6   115
D28V12, multiclass
                           clus
vv                          DEL PEAK  3(2Q14.3) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                               5
                           clus
vv                          DEL PEAK  3(2Q14.3) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             6
  WHITE                                               115
[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"

Clustering(29) Variable = DEL PEAK  4(3P21.31) MUTATION ANALYSIS
D29V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  4(3P21.31) MUTATED   21  1
  DEL PEAK  4(3P21.31) WILD-TYPE 56 17
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                            22                             73 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                             1                             17 
$`DEL PEAK  4(3P21.31) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABI TCGA-2J-AABO TCGA-F2-A44H TCGA-FB-A5VM TCGA-H8-A6C1 
          80          969          440          586          449          396 
TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A8P1 
          28            4          361           46           11            7 
TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-AAUU TCGA-LB-A7SX TCGA-LB-A8F3 
        1975          522          300          153          127           35 
TCGA-M8-A5N4 TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-YY-A8LH 
         584           36           42         1834 

$`DEL PEAK  4(3P21.31) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABK 
        1962          729          676         1960          677          484 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         360          438          319         2172          295          360 
TCGA-F2-A44G TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T TCGA-FB-A7DR 
         153          167            4          385          378          166 
TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 
         392          233          240           20            8          840 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
           3            5           91          660          491          194 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 
          13           33         1968          347         1951         1989 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SS 
         724         1257          648           75          329         1991 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
         635          248         1968          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        1978          128          179          188          210          179 
TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
         164          155          110          247          416           95 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH 
         397          197         1955          844          161          164 
TCGA-YB-A89D 
         160 

  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                             4                              3 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                          1975                           2172 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                         226.5                          247.0 
[1] "4.0 - 1975.0 (226.5)" "3.0 - 2172.0 (247.0)"
[1] "hr=" "3.2"
D29V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  4(3P21.31) MUTATED          0        3         7        23
  DEL PEAK  4(3P21.31) WILD-TYPE        2        4        15        72
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK  4(3P21.31) MUTATED           0        0
  DEL PEAK  4(3P21.31) WILD-TYPE         2        4
D29V3, multiclass
           clus
vv          DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             3                              4
  STAGE IIA                            7                             15
  STAGE IIB                           23                             72
  STAGE III                            0                              2
  STAGE IV                             0                              4
[1] 6 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       6    27
  DEL PEAK  4(3P21.31) WILD-TYPE     9    90
D29V4, multiclass
       clus
vv      DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  T1+T2                            6                              9
  T3+T4                           27                             90
[1] 2 2
[1] FALSE
D29V5, binary
                                cls
clus                              0  1
  DEL PEAK  4(3P21.31) MUTATED   10 23
  DEL PEAK  4(3P21.31) WILD-TYPE 21 77
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  4(3P21.31) MUTATED     10   23
  DEL PEAK  4(3P21.31) WILD-TYPE   21   77
   clus
vv  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  0                           10                             21
  1                           23                             77
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK  4(3P21.31) MUTATED   19  0 14
  DEL PEAK  4(3P21.31) WILD-TYPE 55  4 40
D29V6, multiclass
    clus
vv   DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  M0                           19                             55
  M1                            0                              4
  MX                           14                             40
[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"
D29V7, binary
                                cls
clus                              0  1
  DEL PEAK  4(3P21.31) MUTATED   11 22
  DEL PEAK  4(3P21.31) WILD-TYPE 49 50
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  4(3P21.31) MUTATED     11   22
  DEL PEAK  4(3P21.31) WILD-TYPE   49   50
        clus
vv       DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  FEMALE                           11                             49
  MALE                             22                             50
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  4(3P21.31) MUTATED                                    29
  DEL PEAK  4(3P21.31) WILD-TYPE                                  84
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  4(3P21.31) MUTATED                                       4
  DEL PEAK  4(3P21.31) WILD-TYPE                                    10
                                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                                        29
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK  4(3P21.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          84
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        10
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  4(3P21.31) MUTATED   21 12  0  0
  DEL PEAK  4(3P21.31) WILD-TYPE 59 30  2  3
D29V10, multiclass
    clus
vv   DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  R0                           21                             59
  R1                           12                             30
  R2                            0                              2
  RX                            0                              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"
D29V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  4(3P21.31) MUTATED       0                         2    29
  DEL PEAK  4(3P21.31) WILD-TYPE     2                         4    91
D29V12, multiclass
                           clus
vv                          DEL PEAK  4(3P21.31) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               29
                           clus
vv                          DEL PEAK  4(3P21.31) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              4
  WHITE                                                 91
[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"

Clustering(30) Variable = DEL PEAK  5(4P15.31) MUTATION ANALYSIS
D30V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  5(4P15.31) MUTATED   10  2
  DEL PEAK  5(4P15.31) WILD-TYPE 67 16
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                            12                             83 
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                             2                             16 
$`DEL PEAK  5(4P15.31) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABO TCGA-FB-A5VM TCGA-FB-A7DR TCGA-H8-A6C1 TCGA-HZ-7918 
          80          440          449          166          396           28 
TCGA-HZ-7925 TCGA-HZ-8636 TCGA-IB-7886 TCGA-IB-A5SP TCGA-IB-A7M4 TCGA-IB-AAUQ 
         361            5         1975          300          181         1978 

$`DEL PEAK  5(4P15.31) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI 
        1962          729          676         1960          677          969 
TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         484          360          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
         360          153          586          167            4          385 
TCGA-FB-A78T TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7922 
         378          392          233          240           20            4 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
           8          840            8           19           24           21 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
          28           16            3           91          660          491 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 
         194           46           11           13           33         1968 
TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
           7          347         1951         1989          724         1257 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SS TCGA-IB-A5ST 
         648           75          522          329         1991          635 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS 
         248         1968            8          290          128          179 
TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX 
         188          153          210          179          164          127 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
          35          155          584          110          247          416 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 
          95           36           42          397          197         1955 
TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         844          161          164          160         1834 

  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                             5                              3 
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                          1978                           2172 
  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE 
                         330.5                          240.0 
[1] "5.0 - 1978.0 (330.5)" "3.0 - 2172.0 (240.0)"
[1] "hr=" "1.7"
D30V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK  5(4P15.31) MUTATED          0        1         5        13
  DEL PEAK  5(4P15.31) WILD-TYPE        2        6        17        82
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK  5(4P15.31) MUTATED           0        1
  DEL PEAK  5(4P15.31) WILD-TYPE         2        3
D30V3, multiclass
           clus
vv          DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             1                              6
  STAGE IIA                            5                             17
  STAGE IIB                           13                             82
  STAGE III                            0                              2
  STAGE IV                             1                              3
[1] 6 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    19
  DEL PEAK  5(4P15.31) WILD-TYPE    14    98
D30V4, multiclass
       clus
vv      DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  T1+T2                            1                             14
  T3+T4                           19                             98
[1] 2 2
[1] FALSE
D30V5, binary
                                cls
clus                              0  1
  DEL PEAK  5(4P15.31) MUTATED    6 13
  DEL PEAK  5(4P15.31) WILD-TYPE 25 87
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(4P15.31) MUTATED      6   13
  DEL PEAK  5(4P15.31) WILD-TYPE   25   87
   clus
vv  DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  0                            6                             25
  1                           13                             87
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK  5(4P15.31) MUTATED   13  1  6
  DEL PEAK  5(4P15.31) WILD-TYPE 61  3 48
D30V6, multiclass
    clus
vv   DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  M0                           13                             61
  M1                            1                              3
  MX                            6                             48
[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"
D30V7, binary
                                cls
clus                              0  1
  DEL PEAK  5(4P15.31) MUTATED    4 16
  DEL PEAK  5(4P15.31) WILD-TYPE 56 56
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(4P15.31) MUTATED      4   16
  DEL PEAK  5(4P15.31) WILD-TYPE   56   56
        clus
vv       DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  FEMALE                            4                             56
  MALE                             16                             56
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  5(4P15.31) MUTATED                                    18
  DEL PEAK  5(4P15.31) WILD-TYPE                                  95
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  5(4P15.31) MUTATED                                       1
  DEL PEAK  5(4P15.31) WILD-TYPE                                    13
                                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                                        18
  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                                          95
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V9, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  5(4P15.31) MUTATED   10  9  0  0
  DEL PEAK  5(4P15.31) WILD-TYPE 70 33  2  3
D30V10, multiclass
    clus
vv   DEL PEAK  5(4P15.31) MUTATED DEL PEAK  5(4P15.31) WILD-TYPE
  R0                           10                             70
  R1                            9                             33
  R2                            0                              2
  RX                            0                              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"
D30V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  5(4P15.31) MUTATED       1                         1    18
  DEL PEAK  5(4P15.31) WILD-TYPE     1                         5   102
D30V12, multiclass
                           clus
vv                          DEL PEAK  5(4P15.31) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               18
                           clus
vv                          DEL PEAK  5(4P15.31) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                102
[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"

Clustering(31) Variable = DEL PEAK  6(4Q22.1) MUTATION ANALYSIS
D31V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  6(4Q22.1) MUTATED    9  2
  DEL PEAK  6(4Q22.1) WILD-TYPE 68 16
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                           11                            84 
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                            2                            16 
$`DEL PEAK  6(4Q22.1) MUTATED`
TCGA-2J-AABO TCGA-2J-AABP TCGA-FB-A5VM TCGA-FB-A7DR TCGA-HZ-7922 TCGA-HZ-7925 
         440          360          449          166            4          361 
TCGA-HZ-A4BH TCGA-IB-7886 TCGA-IB-A5SP TCGA-IB-AAUQ TCGA-RB-AA9M 
         194         1975          300         1978           42 

$`DEL PEAK  6(4Q22.1) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         969          484          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 
         360          153          586          167            4          385 
TCGA-FB-A78T TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 
         378          392          233          396          240           28 
TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
          20            8          840            8           19           24 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
          21           28           16            3            5           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q 
         660          491           46           11           13           33 
TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
        1968            7          347         1951         1989          724 
TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SS 
        1257          648           75          522          329         1991 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
         635          248         1968          181            8          290 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
         128          179          188          153          210          179 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
         164          127           35          155          584          110 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-S4-A8RM TCGA-S4-A8RO 
         247          416           95           36          397          197 
TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
        1955          844          161          164          160         1834 

  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                            4                             3 
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                         1978                          2172 
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                        360.0                         236.5 
[1] "4.0 - 1978.0 (360.0)" "3.0 - 2172.0 (236.5)"
[1] "hr=" "1.7"
D31V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK  6(4Q22.1) MUTATED          0        1         4        13         0
  DEL PEAK  6(4Q22.1) WILD-TYPE        2        6        18        82         2
                               vv
clus                            STAGE IV
  DEL PEAK  6(4Q22.1) MUTATED          0
  DEL PEAK  6(4Q22.1) WILD-TYPE        4
D31V3, multiclass
           clus
vv          DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            1                             6
  STAGE IIA                           4                            18
  STAGE IIB                          13                            82
  STAGE III                           0                             2
  STAGE IV                            0                             4
[1] 6 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    16
  DEL PEAK  6(4Q22.1) WILD-TYPE    13   101
D31V4, multiclass
       clus
vv      DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  T1+T2                           2                            13
  T3+T4                          16                           101
[1] 2 2
[1] FALSE
D31V5, binary
                               cls
clus                             0  1
  DEL PEAK  6(4Q22.1) MUTATED    4 13
  DEL PEAK  6(4Q22.1) WILD-TYPE 27 87
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q22.1) MUTATED      4   13
  DEL PEAK  6(4Q22.1) WILD-TYPE   27   87
   clus
vv  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  0                           4                            27
  1                          13                            87
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK  6(4Q22.1) MUTATED    9  0  9
  DEL PEAK  6(4Q22.1) WILD-TYPE 65  4 45
D31V6, multiclass
    clus
vv   DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  M0                           9                            65
  M1                           0                             4
  MX                           9                            45
[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"
D31V7, binary
                               cls
clus                             0  1
  DEL PEAK  6(4Q22.1) MUTATED    4 14
  DEL PEAK  6(4Q22.1) WILD-TYPE 56 58
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q22.1) MUTATED      4   14
  DEL PEAK  6(4Q22.1) WILD-TYPE   56   58
        clus
vv       DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  FEMALE                           4                            56
  MALE                            14                            58
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  6(4Q22.1) MUTATED                                    16
  DEL PEAK  6(4Q22.1) WILD-TYPE                                  97
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  6(4Q22.1) MUTATED                                       0
  DEL PEAK  6(4Q22.1) WILD-TYPE                                    14
                               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                                       16
  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                                         97
  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"
D31V9, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  6(4Q22.1) MUTATED   11  6  0  0
  DEL PEAK  6(4Q22.1) WILD-TYPE 69 36  2  3
D31V10, multiclass
    clus
vv   DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  R0                          11                            69
  R1                           6                            36
  R2                           0                             2
  RX                           0                             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"
D31V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  6(4Q22.1) MUTATED       1                         1    16
  DEL PEAK  6(4Q22.1) WILD-TYPE     1                         5   104
D31V12, multiclass
                           clus
vv                          DEL PEAK  6(4Q22.1) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              16
                           clus
vv                          DEL PEAK  6(4Q22.1) WILD-TYPE
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             5
  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"

Clustering(32) Variable = DEL PEAK  7(4Q34.3) MUTATION ANALYSIS
D32V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  7(4Q34.3) MUTATED   16  2
  DEL PEAK  7(4Q34.3) WILD-TYPE 61 16
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                           18                            77 
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                            2                            16 
$`DEL PEAK  7(4Q34.3) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABO TCGA-FB-A5VM TCGA-FB-A7DR TCGA-H8-A6C1 
          80          677          440          449          166          396 
TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-A49G TCGA-HZ-A4BH TCGA-IB-7652 TCGA-IB-7886 
           4          361          660          194          724         1975 
TCGA-IB-A5SP TCGA-IB-AAUQ TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-OE-A75W TCGA-RB-AA9M 
         300         1978          164          127          110           42 

$`DEL PEAK  7(4Q34.3) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABK 
        1962          729          676         1960          969          484 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         360          438          319         2172          295          360 
TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A78T 
         153          586          167            4          385          378 
TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7923 
         392          233          240           28           20            8 
TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 
         840            8           19           24           21           28 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49H TCGA-HZ-A4BK 
          16            3            5           91          491           46 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 
          11           13           33         1968            7          347 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 
        1951         1989         1257          648           75          522 
TCGA-IB-A5SO TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 
         329         1991          635          248         1968          181 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
           8          290          128          179          188          153 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE 
         210          179           35          155          584          247 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 
         416           95           36          397          197         1955 
TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         844          161          164          160         1834 

  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                            4                             3 
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                         1978                          2172 
  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE 
                        330.5                         240.0 
[1] "4.0 - 1978.0 (330.5)" "3.0 - 2172.0 (240.0)"
[1] "hr=" "2.1"
D32V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK  7(4Q34.3) MUTATED          0        1         7        17         0
  DEL PEAK  7(4Q34.3) WILD-TYPE        2        6        15        78         2
                               vv
clus                            STAGE IV
  DEL PEAK  7(4Q34.3) MUTATED          0
  DEL PEAK  7(4Q34.3) WILD-TYPE        4
D32V3, multiclass
           clus
vv          DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            1                             6
  STAGE IIA                           7                            15
  STAGE IIB                          17                            78
  STAGE III                           0                             2
  STAGE IV                            0                             4
[1] 6 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       3    22
  DEL PEAK  7(4Q34.3) WILD-TYPE    12    95
D32V4, multiclass
       clus
vv      DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  T1+T2                           3                            12
  T3+T4                          22                            95
[1] 2 2
[1] FALSE
D32V5, binary
                               cls
clus                             0  1
  DEL PEAK  7(4Q34.3) MUTATED    7 17
  DEL PEAK  7(4Q34.3) WILD-TYPE 24 83
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q34.3) MUTATED      7   17
  DEL PEAK  7(4Q34.3) WILD-TYPE   24   83
   clus
vv  DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  0                           7                            24
  1                          17                            83
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK  7(4Q34.3) MUTATED   14  0 11
  DEL PEAK  7(4Q34.3) WILD-TYPE 60  4 43
D32V6, multiclass
    clus
vv   DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  M0                          14                            60
  M1                           0                             4
  MX                          11                            43
[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"
D32V7, binary
                               cls
clus                             0  1
  DEL PEAK  7(4Q34.3) MUTATED    7 18
  DEL PEAK  7(4Q34.3) WILD-TYPE 53 54
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q34.3) MUTATED      7   18
  DEL PEAK  7(4Q34.3) WILD-TYPE   53   54
        clus
vv       DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  FEMALE                           7                            53
  MALE                            18                            54
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  7(4Q34.3) MUTATED                                    22
  DEL PEAK  7(4Q34.3) WILD-TYPE                                  91
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  7(4Q34.3) MUTATED                                       2
  DEL PEAK  7(4Q34.3) WILD-TYPE                                    12
                               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                                       22
  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                                         91
  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"
D32V9, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  7(4Q34.3) MUTATED   13 10  1  0
  DEL PEAK  7(4Q34.3) WILD-TYPE 67 32  1  3
D32V10, multiclass
    clus
vv   DEL PEAK  7(4Q34.3) MUTATED DEL PEAK  7(4Q34.3) WILD-TYPE
  R0                          13                            67
  R1                          10                            32
  R2                           1                             1
  RX                           0                             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"
D32V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  7(4Q34.3) MUTATED       2                         2    21
  DEL PEAK  7(4Q34.3) WILD-TYPE     0                         4    99
D32V12, multiclass
                           clus
vv                          DEL PEAK  7(4Q34.3) MUTATED
  ASIAN                                               2
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              21
                           clus
vv                          DEL PEAK  7(4Q34.3) WILD-TYPE
  ASIAN                                                 0
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(33) Variable = DEL PEAK  8(5Q14.2) MUTATION ANALYSIS
D33V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  8(5Q14.2) MUTATED   15  1
  DEL PEAK  8(5Q14.2) WILD-TYPE 62 17
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                           16                            79 
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                            1                            17 
$`DEL PEAK  8(5Q14.2) MUTATED`
TCGA-2J-AABO TCGA-2J-AABP TCGA-FB-A545 TCGA-FB-A5VM TCGA-HZ-7289 TCGA-HZ-7918 
         440          360          385          449          240           28 
TCGA-HZ-7922 TCGA-HZ-A77O TCGA-IB-7652 TCGA-IB-8127 TCGA-IB-A6UG TCGA-IB-A7M4 
           4           11          724          522         1968          181 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-OE-A75W 
         164          127          584          110 

$`DEL PEAK  8(5Q14.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         969          484          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A78T 
         360          153          586          167            4          378 
TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7923 
         166          392          233          396           20            8 
TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 
         840          361            8           19           24           21 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G 
          28           16            3            5           91          660 
TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 
         491          194           46           13           33         1968 
TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7886 
           7          347         1951         1989         1257         1975 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST 
         648           75          329          300         1991          635 
TCGA-IB-A6UF TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
         248            8          290         1978          128          179 
TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 
         188          153          210          179           35          155 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM 
         247          416           95           36           42          397 
TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         197         1955          844          161          164          160 
TCGA-YY-A8LH 
        1834 

  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                            4                             3 
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                         1968                          2172 
  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE 
                          300                           247 
[1] "4.0 - 1968.0 (300.0)" "3.0 - 2172.0 (247.0)"
[1] "hr=" "2.4"
D33V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK  8(5Q14.2) MUTATED          0        1         3        18         0
  DEL PEAK  8(5Q14.2) WILD-TYPE        2        6        19        77         2
                               vv
clus                            STAGE IV
  DEL PEAK  8(5Q14.2) MUTATED          0
  DEL PEAK  8(5Q14.2) WILD-TYPE        4
D33V3, multiclass
           clus
vv          DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            1                             6
  STAGE IIA                           3                            19
  STAGE IIB                          18                            77
  STAGE III                           0                             2
  STAGE IV                            0                             4
[1] 6 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       2    20
  DEL PEAK  8(5Q14.2) WILD-TYPE    13    97
D33V4, multiclass
       clus
vv      DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  T1+T2                           2                            13
  T3+T4                          20                            97
[1] 2 2
[1] FALSE
D33V5, binary
                               cls
clus                             0  1
  DEL PEAK  8(5Q14.2) MUTATED    4 18
  DEL PEAK  8(5Q14.2) WILD-TYPE 27 82
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q14.2) MUTATED      4   18
  DEL PEAK  8(5Q14.2) WILD-TYPE   27   82
   clus
vv  DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  0                           4                            27
  1                          18                            82
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK  8(5Q14.2) MUTATED   12  0 10
  DEL PEAK  8(5Q14.2) WILD-TYPE 62  4 44
D33V6, multiclass
    clus
vv   DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  M0                          12                            62
  M1                           0                             4
  MX                          10                            44
[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"
D33V7, binary
                               cls
clus                             0  1
  DEL PEAK  8(5Q14.2) MUTATED   11 11
  DEL PEAK  8(5Q14.2) WILD-TYPE 49 61
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q14.2) MUTATED     11   11
  DEL PEAK  8(5Q14.2) WILD-TYPE   49   61
        clus
vv       DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  FEMALE                          11                            49
  MALE                            11                            61
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  8(5Q14.2) MUTATED                                    20
  DEL PEAK  8(5Q14.2) WILD-TYPE                                  93
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  8(5Q14.2) MUTATED                                       1
  DEL PEAK  8(5Q14.2) WILD-TYPE                                    13
                               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                                       20
  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                                         93
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V9, continuous
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  8(5Q14.2) MUTATED   13  6  1  1
  DEL PEAK  8(5Q14.2) WILD-TYPE 67 36  1  2
D33V10, multiclass
    clus
vv   DEL PEAK  8(5Q14.2) MUTATED DEL PEAK  8(5Q14.2) WILD-TYPE
  R0                          13                            67
  R1                           6                            36
  R2                           1                             1
  RX                           1                             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"
D33V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  8(5Q14.2) MUTATED       1                         1    19
  DEL PEAK  8(5Q14.2) WILD-TYPE     1                         5   101
D33V12, multiclass
                           clus
vv                          DEL PEAK  8(5Q14.2) MUTATED
  ASIAN                                               1
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              19
                           clus
vv                          DEL PEAK  8(5Q14.2) WILD-TYPE
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                               101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(34) Variable = DEL PEAK  9(6P25.2) MUTATION ANALYSIS
D34V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  9(6P25.2) MUTATED   29  5
  DEL PEAK  9(6P25.2) WILD-TYPE 48 13
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                           34                            61 
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                            5                            13 
$`DEL PEAK  9(6P25.2) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP 
        1962          729          677          969          440          360 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A545 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HZ-7289 
         586          167          385          392          396          240 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-A4BK 
          28           20            4           19           28           46 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP 
          11           13           33         1975          522          300 
TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUU TCGA-LB-A7SX TCGA-PZ-A5RE 
        1991          248         1968          153          127          247 
TCGA-Q3-AA2A TCGA-S4-A8RM TCGA-YB-A89D TCGA-YY-A8LH 
          95          397          160         1834 

$`DEL PEAK  9(6P25.2) WILD-TYPE`
TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABK TCGA-2J-AABR TCGA-2J-AABT 
          80          676         1960          484          438          319 
TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-FB-A4P5 TCGA-FB-A5VM 
        2172          295          360          153            4          449 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-A45N TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         378          166          233            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
           8           24           21           16            3            5 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A8P0 TCGA-HZ-A8P1 
          91          660          491          194         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7891 
         347         1951         1989          724         1257          648 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
          75          329          635          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        1978          128          179          188          210          179 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-Q3-A5QY 
         164           35          155          584          110          416 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG 
          36           42          197         1955          844          161 
TCGA-XD-AAUH 
         164 

  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                            4                             3 
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                         1991                          2172 
  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE 
                          274                           210 
[1] "4.0 - 1991.0 (274.0)" "3.0 - 2172.0 (210.0)"
[1] "hr=" "1.7"
D34V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK  9(6P25.2) MUTATED          0        3        10        37         1
  DEL PEAK  9(6P25.2) WILD-TYPE        2        4        12        58         1
                               vv
clus                            STAGE IV
  DEL PEAK  9(6P25.2) MUTATED          0
  DEL PEAK  9(6P25.2) WILD-TYPE        4
D34V3, multiclass
           clus
vv          DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            3                             4
  STAGE IIA                          10                            12
  STAGE IIB                          37                            58
  STAGE III                           1                             1
  STAGE IV                            0                             4
[1] 6 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       5    46
  DEL PEAK  9(6P25.2) WILD-TYPE    10    71
D34V4, multiclass
       clus
vv      DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  T1+T2                           5                            10
  T3+T4                          46                            71
[1] 2 2
[1] FALSE
D34V5, binary
                               cls
clus                             0  1
  DEL PEAK  9(6P25.2) MUTATED   13 38
  DEL PEAK  9(6P25.2) WILD-TYPE 18 62
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6P25.2) MUTATED     13   38
  DEL PEAK  9(6P25.2) WILD-TYPE   18   62
   clus
vv  DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  0                          13                            18
  1                          38                            62
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK  9(6P25.2) MUTATED   32  0 19
  DEL PEAK  9(6P25.2) WILD-TYPE 42  4 35
D34V6, multiclass
    clus
vv   DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  M0                          32                            42
  M1                           0                             4
  MX                          19                            35
[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"
D34V7, binary
                               cls
clus                             0  1
  DEL PEAK  9(6P25.2) MUTATED   19 32
  DEL PEAK  9(6P25.2) WILD-TYPE 41 40
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6P25.2) MUTATED     19   32
  DEL PEAK  9(6P25.2) WILD-TYPE   41   40
        clus
vv       DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  FEMALE                          19                            41
  MALE                            32                            40
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK  9(6P25.2) MUTATED                                    40
  DEL PEAK  9(6P25.2) WILD-TYPE                                  73
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK  9(6P25.2) MUTATED                                      10
  DEL PEAK  9(6P25.2) WILD-TYPE                                     4
                               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                                       40
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     10
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK  9(6P25.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         73
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        4
  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
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  9(6P25.2) MUTATED   30 16  0  2
  DEL PEAK  9(6P25.2) WILD-TYPE 50 26  2  1
D34V10, multiclass
    clus
vv   DEL PEAK  9(6P25.2) MUTATED DEL PEAK  9(6P25.2) WILD-TYPE
  R0                          30                            50
  R1                          16                            26
  R2                           0                             2
  RX                           2                             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"
D34V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  9(6P25.2) MUTATED       0                         2    48
  DEL PEAK  9(6P25.2) WILD-TYPE     2                         4    72
D34V12, multiclass
                           clus
vv                          DEL PEAK  9(6P25.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              48
                           clus
vv                          DEL PEAK  9(6P25.2) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                72
[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"

Clustering(35) Variable = DEL PEAK 10(6P22.2) MUTATION ANALYSIS
D35V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 10(6P22.2) MUTATED   28  5
  DEL PEAK 10(6P22.2) WILD-TYPE 49 13
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                           33                            62 
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                            5                            13 
$`DEL PEAK 10(6P22.2) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP 
        1962          729          677          969          440          360 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A545 TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7918 
         586          167          385          392          240           28 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-A4BK 
          20            4          361           19           28           46 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP 
          11           13           33         1975          522          300 
TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUU TCGA-LB-A7SX TCGA-PZ-A5RE 
        1991          248         1968          153          127          247 
TCGA-Q3-AA2A TCGA-YB-A89D TCGA-YY-A8LH 
          95          160         1834 

$`DEL PEAK 10(6P22.2) WILD-TYPE`
TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABK TCGA-2J-AABR TCGA-2J-AABT 
          80          676         1960          484          438          319 
TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-FB-A4P5 TCGA-FB-A5VM 
        2172          295          360          153            4          449 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7923 TCGA-HZ-7924 
         378          166          233          396            8          840 
TCGA-HZ-7926 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 
           8           24           21           16            3            5 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A8P0 TCGA-HZ-A8P1 
          91          660          491          194         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7891 
         347         1951         1989          724         1257          648 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
          75          329          635          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        1978          128          179          188          210          179 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-Q3-A5QY 
         164           35          155          584          110          416 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 
          36           42          397          197         1955          844 
TCGA-XD-AAUG TCGA-XD-AAUH 
         161          164 

  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                            4                             3 
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                         1991                          2172 
  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE 
                        248.0                         221.5 
[1] "4.0 - 1991.0 (248.0)" "3.0 - 2172.0 (221.5)"
[1] "hr=" "1.6"
D35V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK 10(6P22.2) MUTATED          0        3         9        35         1
  DEL PEAK 10(6P22.2) WILD-TYPE        2        4        13        60         1
                               vv
clus                            STAGE IV
  DEL PEAK 10(6P22.2) MUTATED          0
  DEL PEAK 10(6P22.2) WILD-TYPE        4
D35V3, multiclass
           clus
vv          DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            3                             4
  STAGE IIA                           9                            13
  STAGE IIB                          35                            60
  STAGE III                           1                             1
  STAGE IV                            0                             4
[1] 6 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       4    44
  DEL PEAK 10(6P22.2) WILD-TYPE    11    73
D35V4, multiclass
       clus
vv      DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  T1+T2                           4                            11
  T3+T4                          44                            73
[1] 2 2
[1] FALSE
D35V5, binary
                               cls
clus                             0  1
  DEL PEAK 10(6P22.2) MUTATED   12 36
  DEL PEAK 10(6P22.2) WILD-TYPE 19 64
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(6P22.2) MUTATED     12   36
  DEL PEAK 10(6P22.2) WILD-TYPE   19   64
   clus
vv  DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  0                          12                            19
  1                          36                            64
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK 10(6P22.2) MUTATED   30  0 18
  DEL PEAK 10(6P22.2) WILD-TYPE 44  4 36
D35V6, multiclass
    clus
vv   DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  M0                          30                            44
  M1                           0                             4
  MX                          18                            36
[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"
D35V7, binary
                               cls
clus                             0  1
  DEL PEAK 10(6P22.2) MUTATED   18 30
  DEL PEAK 10(6P22.2) WILD-TYPE 42 42
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(6P22.2) MUTATED     18   30
  DEL PEAK 10(6P22.2) WILD-TYPE   42   42
        clus
vv       DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  FEMALE                          18                            42
  MALE                            30                            42
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 10(6P22.2) MUTATED                                    38
  DEL PEAK 10(6P22.2) WILD-TYPE                                  75
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 10(6P22.2) MUTATED                                       9
  DEL PEAK 10(6P22.2) WILD-TYPE                                     5
                               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                                       38
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      9
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        1
                                                  clus
vv                                                 DEL PEAK 10(6P22.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         75
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        5
  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
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 10(6P22.2) MUTATED   28 15  0  2
  DEL PEAK 10(6P22.2) WILD-TYPE 52 27  2  1
D35V10, multiclass
    clus
vv   DEL PEAK 10(6P22.2) MUTATED DEL PEAK 10(6P22.2) WILD-TYPE
  R0                          28                            52
  R1                          15                            27
  R2                           0                             2
  RX                           2                             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"
D35V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 10(6P22.2) MUTATED       0                         2    45
  DEL PEAK 10(6P22.2) WILD-TYPE     2                         4    75
D35V12, multiclass
                           clus
vv                          DEL PEAK 10(6P22.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              45
                           clus
vv                          DEL PEAK 10(6P22.2) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                75
[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"

Clustering(36) Variable = DEL PEAK 11(6Q25.3) MUTATION ANALYSIS
D36V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 11(6Q25.3) MUTATED   33  7
  DEL PEAK 11(6Q25.3) WILD-TYPE 44 11
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           40                            55 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                            7                            11 
$`DEL PEAK 11(6Q25.3) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-F2-A44H 
        1962          676          677          969          440          586 
TCGA-F2-A8YN TCGA-FB-A545 TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7918 
         167          385          392          233          240           28 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-8636 
          20            4          361           19           28            5 
TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-IB-7644 
         194           11           13           33         1968          347 
TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A6UF 
        1257         1975          522          300         1991          248 
TCGA-IB-A6UG TCGA-IB-AAUU TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
        1968          153          127          584          110          247 
TCGA-S4-A8RM TCGA-US-A776 TCGA-YB-A89D TCGA-YY-A8LH 
         397          844          160         1834 

$`DEL PEAK 11(6Q25.3) WILD-TYPE`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR 
         729           80         1960          484          360          438 
TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-FB-A4P5 
         319         2172          295          360          153            4 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H8-A6C1 TCGA-HZ-7923 TCGA-HZ-7924 
         449          378          166          396            8          840 
TCGA-HZ-7926 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 
           8           24           21           16            3           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A8P1 TCGA-IB-7649 TCGA-IB-7651 
         660          491           46            7         1951         1989 
TCGA-IB-7652 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5ST TCGA-IB-A7M4 
         724          648           75          329          635          181 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
           8          290         1978          128          179          188 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-Q3-A5QY 
         210          179          164           35          155          416 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RO TCGA-US-A774 TCGA-XD-AAUG 
          95           36           42          197         1955          161 
TCGA-XD-AAUH 
         164 

  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                            4                             3 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                         1991                          2172 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                        323.5                         188.0 
[1] "4.0 - 1991.0 (323.5)" "3.0 - 2172.0 (188.0)"
[1] "hr=" "1.4"
D36V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK 11(6Q25.3) MUTATED          0        2        14        43         1
  DEL PEAK 11(6Q25.3) WILD-TYPE        2        5         8        52         1
                               vv
clus                            STAGE IV
  DEL PEAK 11(6Q25.3) MUTATED          2
  DEL PEAK 11(6Q25.3) WILD-TYPE        2
D36V3, multiclass
           clus
vv          DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            2                             5
  STAGE IIA                          14                             8
  STAGE IIB                          43                            52
  STAGE III                           1                             1
  STAGE IV                            2                             2
[1] 6 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       3    59
  DEL PEAK 11(6Q25.3) WILD-TYPE    12    58
D36V4, multiclass
       clus
vv      DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  T1+T2                           3                            12
  T3+T4                          59                            58
[1] 2 2
[1] FALSE
D36V5, binary
                               cls
clus                             0  1
  DEL PEAK 11(6Q25.3) MUTATED   18 44
  DEL PEAK 11(6Q25.3) WILD-TYPE 13 56
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(6Q25.3) MUTATED     18   44
  DEL PEAK 11(6Q25.3) WILD-TYPE   13   56
   clus
vv  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  0                          18                            13
  1                          44                            56
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK 11(6Q25.3) MUTATED   35  2 25
  DEL PEAK 11(6Q25.3) WILD-TYPE 39  2 29
D36V6, multiclass
    clus
vv   DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  M0                          35                            39
  M1                           2                             2
  MX                          25                            29
[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"
D36V7, binary
                               cls
clus                             0  1
  DEL PEAK 11(6Q25.3) MUTATED   25 37
  DEL PEAK 11(6Q25.3) WILD-TYPE 35 35
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(6Q25.3) MUTATED     25   37
  DEL PEAK 11(6Q25.3) WILD-TYPE   35   35
        clus
vv       DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  FEMALE                          25                            35
  MALE                            37                            35
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 11(6Q25.3) MUTATED                                    53
  DEL PEAK 11(6Q25.3) WILD-TYPE                                  60
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 11(6Q25.3) MUTATED                                       8
  DEL PEAK 11(6Q25.3) WILD-TYPE                                     6
                               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                                       53
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      8
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 11(6Q25.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         60
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        6
  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
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 11(6Q25.3) MUTATED   37 20  0  1
  DEL PEAK 11(6Q25.3) WILD-TYPE 43 22  2  2
D36V10, multiclass
    clus
vv   DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  R0                          37                            43
  R1                          20                            22
  R2                           0                             2
  RX                           1                             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"
D36V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 11(6Q25.3) MUTATED       0                         2    57
  DEL PEAK 11(6Q25.3) WILD-TYPE     2                         4    63
D36V12, multiclass
                           clus
vv                          DEL PEAK 11(6Q25.3) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              57
                           clus
vv                          DEL PEAK 11(6Q25.3) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                63
[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"

Clustering(37) Variable = DEL PEAK 12(7Q36.1) MUTATION ANALYSIS
D37V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 12(7Q36.1) MUTATED    4  1
  DEL PEAK 12(7Q36.1) WILD-TYPE 73 17
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                            5                            90 
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                            1                            17 
$`DEL PEAK 12(7Q36.1) MUTATED`
TCGA-H6-8124 TCGA-HZ-7922 TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-PZ-A5RE 
         392            4          194           11          247 

$`DEL PEAK 12(7Q36.1) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT 
         969          484          440          360          438          319 
TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN 
        2172          295          360          153          586          167 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-A45N 
           4          385          449          378          166          233 
TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 
         396          240           28           20            8          840 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 
         361            8           19           24           21           28 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
          16            3            5           91          660          491 
TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 
          46           13           33         1968            7          347 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 
        1951         1989          724         1257         1975          648 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST 
          75          522          329          300         1991          635 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ 
         248         1968          181            8          290         1978 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
         128          179          188          153          210          179 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
         164          127           35          155          584          110 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO 
         416           95           36           42          397          197 
TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
        1955          844          161          164          160         1834 

  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                            4                             3 
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                          392                          2172 
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                          194                           269 
[1] "4.0 - 392.0 (194.0)"  "3.0 - 2172.0 (269.0)"
[1] "hr=" "3.3"
D37V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK 12(7Q36.1) MUTATED          0        1         0         7         0
  DEL PEAK 12(7Q36.1) WILD-TYPE        2        6        22        88         2
                               vv
clus                            STAGE IV
  DEL PEAK 12(7Q36.1) MUTATED          0
  DEL PEAK 12(7Q36.1) WILD-TYPE        4
D37V3, multiclass
           clus
vv          DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            1                             6
  STAGE IIA                           0                            22
  STAGE IIB                           7                            88
  STAGE III                           0                             2
  STAGE IV                            0                             4
[1] 6 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       2     6
  DEL PEAK 12(7Q36.1) WILD-TYPE    13   111
D37V4, multiclass
       clus
vv      DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  T1+T2                           2                            13
  T3+T4                           6                           111
[1] 2 2
[1] FALSE
D37V5, binary
                               cls
clus                             0  1
  DEL PEAK 12(7Q36.1) MUTATED    1  7
  DEL PEAK 12(7Q36.1) WILD-TYPE 30 93
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(7Q36.1) MUTATED      1    7
  DEL PEAK 12(7Q36.1) WILD-TYPE   30   93
   clus
vv  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  0                           1                            30
  1                           7                            93
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK 12(7Q36.1) MUTATED    3  0  5
  DEL PEAK 12(7Q36.1) WILD-TYPE 71  4 49
D37V6, multiclass
    clus
vv   DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  M0                           3                            71
  M1                           0                             4
  MX                           5                            49
[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"
D37V7, binary
                               cls
clus                             0  1
  DEL PEAK 12(7Q36.1) MUTATED    4  4
  DEL PEAK 12(7Q36.1) WILD-TYPE 56 68
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(7Q36.1) MUTATED      4    4
  DEL PEAK 12(7Q36.1) WILD-TYPE   56   68
        clus
vv       DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  FEMALE                           4                            56
  MALE                             4                            68
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 12(7Q36.1) MUTATED                                     8
  DEL PEAK 12(7Q36.1) WILD-TYPE                                 105
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 12(7Q36.1) MUTATED                                       0
  DEL PEAK 12(7Q36.1) WILD-TYPE                                    14
                               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                                        8
  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                                        105
  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"
D37V9, continuous
[1] "Remove cluster labels:"      "DEL PEAK 12(7Q36.1) MUTATED"
clus
  DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE 
                            1                            43 
                   TCGA-2J-AAB1                    TCGA-2J-AABA 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-2J-AABE                    TCGA-2J-AABF 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-2J-AABI                    TCGA-2J-AABO 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-2J-AABV                    TCGA-F2-6880 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-F2-A8YN                    TCGA-FB-A4P5 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-FB-A5VM                    TCGA-FB-A78T 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-FB-A7DR                    TCGA-H6-A45N 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-H8-A6C1                    TCGA-HZ-A77Q 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-HZ-A8P0                    TCGA-HZ-A8P1 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-IB-7644                    TCGA-IB-7649 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-IB-7651                    TCGA-IB-7885 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-IB-7886                    TCGA-IB-7887 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-IB-7891                    TCGA-IB-8126 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-IB-8127                    TCGA-IB-A5SS 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-IB-A6UF                    TCGA-IB-A6UG 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-IB-A7M4                    TCGA-IB-AAUQ 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-IB-AAUS                    TCGA-IB-AAUT 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-IB-AAUU                    TCGA-IB-AAUV 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-LB-A7SX                    TCGA-LB-A9Q5 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-OE-A75W                    TCGA-S4-A8RM 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-S4-A8RP                    TCGA-US-A774 
"DEL PEAK 12(7Q36.1) WILD-TYPE" "DEL PEAK 12(7Q36.1) WILD-TYPE" 
                   TCGA-YY-A8LH 
"DEL PEAK 12(7Q36.1) WILD-TYPE" 
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 12(7Q36.1) MUTATED    5  2  0  0
  DEL PEAK 12(7Q36.1) WILD-TYPE 75 40  2  3
D37V10, multiclass
    clus
vv   DEL PEAK 12(7Q36.1) MUTATED DEL PEAK 12(7Q36.1) WILD-TYPE
  R0                           5                            75
  R1                           2                            40
  R2                           0                             2
  RX                           0                             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"
D37V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 12(7Q36.1) MUTATED       0                         0     7
  DEL PEAK 12(7Q36.1) WILD-TYPE     2                         6   113
D37V12, multiclass
                           clus
vv                          DEL PEAK 12(7Q36.1) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                               7
                           clus
vv                          DEL PEAK 12(7Q36.1) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             6
  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"

Clustering(38) Variable = DEL PEAK 13(8P23.2) MUTATION ANALYSIS
D38V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 13(8P23.2) MUTATED   25  4
  DEL PEAK 13(8P23.2) WILD-TYPE 52 14
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                           29                            66 
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                            4                            14 
$`DEL PEAK 13(8P23.2) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABH TCGA-F2-A44G TCGA-F2-A8YN 
         729           80          676          677          153          167 
TCGA-FB-A7DR TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8636 
         166          240           20            4          361            5 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A8P1 TCGA-IB-7652 TCGA-IB-7886 
         194           46           13            7          724         1975 
TCGA-IB-8127 TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUQ TCGA-IB-AAUU 
         522          248         1968          181         1978          153 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-OE-A75W TCGA-RB-AA9M TCGA-US-A776 
         164           35          110           42          844 

$`DEL PEAK 13(8P23.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP 
        1962         1960          969          484          440          360 
TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44H 
         438          319         2172          295          360          586 
TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-H6-8124 TCGA-H6-A45N 
           4          385          449          378          392          233 
TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7926 TCGA-HZ-8001 
         396           28            8          840            8           19 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 
          24           21           28           16            3           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-IB-7644 
         660          491           11           33         1968          347 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO 
        1951         1989         1257          648           75          329 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUR 
         300         1991          635            8          290          128 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A7SX TCGA-LB-A9Q5 
         179          188          210          179          127          155 
TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-S4-A8RM 
         584          247          416           95           36          397 
TCGA-S4-A8RO TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         197         1955          161          164          160         1834 

  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                            4                             3 
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                         1978                          2172 
  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE 
                        167.0                         309.5 
[1] "4.0 - 1978.0 (167.0)" "3.0 - 2172.0 (309.5)"
[1] "hr=" "1.3"
D38V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK 13(8P23.2) MUTATED          0        3         8        28         0
  DEL PEAK 13(8P23.2) WILD-TYPE        2        4        14        67         2
                               vv
clus                            STAGE IV
  DEL PEAK 13(8P23.2) MUTATED          1
  DEL PEAK 13(8P23.2) WILD-TYPE        3
D38V3, multiclass
           clus
vv          DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            3                             4
  STAGE IIA                           8                            14
  STAGE IIB                          28                            67
  STAGE III                           0                             2
  STAGE IV                            1                             3
[1] 6 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    35
  DEL PEAK 13(8P23.2) WILD-TYPE    10    82
D38V4, multiclass
       clus
vv      DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  T1+T2                           5                            10
  T3+T4                          35                            82
[1] 2 2
[1] FALSE
D38V5, binary
                               cls
clus                             0  1
  DEL PEAK 13(8P23.2) MUTATED   11 28
  DEL PEAK 13(8P23.2) WILD-TYPE 20 72
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(8P23.2) MUTATED     11   28
  DEL PEAK 13(8P23.2) WILD-TYPE   20   72
   clus
vv  DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  0                          11                            20
  1                          28                            72
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK 13(8P23.2) MUTATED   24  1 15
  DEL PEAK 13(8P23.2) WILD-TYPE 50  3 39
D38V6, multiclass
    clus
vv   DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  M0                          24                            50
  M1                           1                             3
  MX                          15                            39
[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"
D38V7, binary
                               cls
clus                             0  1
  DEL PEAK 13(8P23.2) MUTATED   12 28
  DEL PEAK 13(8P23.2) WILD-TYPE 48 44
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(8P23.2) MUTATED     12   28
  DEL PEAK 13(8P23.2) WILD-TYPE   48   44
        clus
vv       DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  FEMALE                          12                            48
  MALE                            28                            44
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 13(8P23.2) MUTATED                                    32
  DEL PEAK 13(8P23.2) WILD-TYPE                                  81
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 13(8P23.2) MUTATED                                       6
  DEL PEAK 13(8P23.2) WILD-TYPE                                     8
                               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                                       32
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      6
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 13(8P23.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         81
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        8
  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
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 13(8P23.2) MUTATED   21 17  1  1
  DEL PEAK 13(8P23.2) WILD-TYPE 59 25  1  2
D38V10, multiclass
    clus
vv   DEL PEAK 13(8P23.2) MUTATED DEL PEAK 13(8P23.2) WILD-TYPE
  R0                          21                            59
  R1                          17                            25
  R2                           1                             1
  RX                           1                             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"
D38V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 13(8P23.2) MUTATED       2                         1    36
  DEL PEAK 13(8P23.2) WILD-TYPE     0                         5    84
D38V12, multiclass
                           clus
vv                          DEL PEAK 13(8P23.2) MUTATED
  ASIAN                                               2
  BLACK OR AFRICAN AMERICAN                           1
  WHITE                                              36
                           clus
vv                          DEL PEAK 13(8P23.2) WILD-TYPE
  ASIAN                                                 0
  BLACK OR AFRICAN AMERICAN                             5
  WHITE                                                84
[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"

Clustering(39) Variable = DEL PEAK 14(9P21.3) MUTATION ANALYSIS
D39V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 14(9P21.3) MUTATED   44  7
  DEL PEAK 14(9P21.3) WILD-TYPE 33 11
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                           51                            44 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                            7                            11 
$`DEL PEAK 14(9P21.3) MUTATED`
TCGA-2J-AAB1 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO 
        1962          676         1960          677          969          440 
TCGA-2J-AABT TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-A5VM 
         319          153          586          167          385          449 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 
         378          166          392          396          240           28 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7925 TCGA-HZ-8315 TCGA-HZ-8636 TCGA-HZ-A49G 
          20            4          361           28            5          660 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
         194           46           11           33         1968            7 
TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP 
        1951          724         1257         1975          522          300 
TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A7SX 
        1991          248          181          153          164          127 
TCGA-LB-A8F3 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-AA2A TCGA-RB-A7B8 
          35          584          110          247           95           36 
TCGA-RB-AA9M TCGA-S4-A8RM TCGA-YY-A8LH 
          42          397         1834 

$`DEL PEAK 14(9P21.3) WILD-TYPE`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR TCGA-3E-AAAY 
         729           80          484          360          438         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-FB-A4P5 TCGA-H6-A45N TCGA-HZ-7923 TCGA-HZ-7924 
         295          360            4          233            8          840 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 
           8           19           24           21           16            3 
TCGA-HZ-8638 TCGA-HZ-A49H TCGA-HZ-A77P TCGA-IB-7644 TCGA-IB-7651 TCGA-IB-7891 
          91          491           13          347         1989          648 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-AAUM TCGA-IB-AAUP 
          75          329          635         1968            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        1978          128          179          188          210          179 
TCGA-LB-A9Q5 TCGA-Q3-A5QY TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG 
         155          416          197         1955          844          161 
TCGA-XD-AAUH TCGA-YB-A89D 
         164          160 

  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                            4                             3 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                         1991                          2172 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                        300.0                         203.5 
[1] "4.0 - 1991.0 (300.0)" "3.0 - 2172.0 (203.5)"
[1] "hr=" "1.6"
D39V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK 14(9P21.3) MUTATED          0        5        17        54         0
  DEL PEAK 14(9P21.3) WILD-TYPE        2        2         5        41         2
                               vv
clus                            STAGE IV
  DEL PEAK 14(9P21.3) MUTATED          2
  DEL PEAK 14(9P21.3) WILD-TYPE        2
D39V3, multiclass
           clus
vv          DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            5                             2
  STAGE IIA                          17                             5
  STAGE IIB                          54                            41
  STAGE III                           0                             2
  STAGE IV                            2                             2
[1] 6 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       8    70
  DEL PEAK 14(9P21.3) WILD-TYPE     7    47
D39V4, multiclass
       clus
vv      DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  T1+T2                           8                             7
  T3+T4                          70                            47
[1] 2 2
[1] FALSE
D39V5, binary
                               cls
clus                             0  1
  DEL PEAK 14(9P21.3) MUTATED   21 56
  DEL PEAK 14(9P21.3) WILD-TYPE 10 44
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(9P21.3) MUTATED     21   56
  DEL PEAK 14(9P21.3) WILD-TYPE   10   44
   clus
vv  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  0                          21                            10
  1                          56                            44
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK 14(9P21.3) MUTATED   44  2 32
  DEL PEAK 14(9P21.3) WILD-TYPE 30  2 22
D39V6, multiclass
    clus
vv   DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  M0                          44                            30
  M1                           2                             2
  MX                          32                            22
[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"
D39V7, binary
                               cls
clus                             0  1
  DEL PEAK 14(9P21.3) MUTATED   33 45
  DEL PEAK 14(9P21.3) WILD-TYPE 27 27
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(9P21.3) MUTATED     33   45
  DEL PEAK 14(9P21.3) WILD-TYPE   27   27
        clus
vv       DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  FEMALE                          33                            27
  MALE                            45                            27
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 14(9P21.3) MUTATED                                    67
  DEL PEAK 14(9P21.3) WILD-TYPE                                  46
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 14(9P21.3) MUTATED                                      10
  DEL PEAK 14(9P21.3) WILD-TYPE                                     4
                               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                                       67
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                     10
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 14(9P21.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         46
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        4
  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
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 14(9P21.3) MUTATED   46 26  1  2
  DEL PEAK 14(9P21.3) WILD-TYPE 34 16  1  1
D39V10, multiclass
    clus
vv   DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  R0                          46                            34
  R1                          26                            16
  R2                           1                             1
  RX                           2                             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"
D39V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 14(9P21.3) MUTATED       2                         3    69
  DEL PEAK 14(9P21.3) WILD-TYPE     0                         3    51
D39V12, multiclass
                           clus
vv                          DEL PEAK 14(9P21.3) MUTATED
  ASIAN                                               2
  BLACK OR AFRICAN AMERICAN                           3
  WHITE                                              69
                           clus
vv                          DEL PEAK 14(9P21.3) WILD-TYPE
  ASIAN                                                 0
  BLACK OR AFRICAN AMERICAN                             3
  WHITE                                                51
[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"

Clustering(40) Variable = DEL PEAK 15(9Q22.33) MUTATION ANALYSIS
D40V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 15(9Q22.33) MUTATED   19  3
  DEL PEAK 15(9Q22.33) WILD-TYPE 58 15
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                            22                             73 
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                             3                             15 
$`DEL PEAK 15(9Q22.33) MUTATED`
TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABO TCGA-F2-A44G TCGA-F2-A44H TCGA-H6-8124 
         676         1960          440          153          586          392 
TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-A49G TCGA-HZ-A4BH TCGA-HZ-A4BK 
         396           28            4          660          194           46 
TCGA-HZ-A77O TCGA-IB-7649 TCGA-IB-AAUU TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-M8-A5N4 
          11         1951          153          127           35          584 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-YY-A8LH 
          95           36           42         1834 

$`DEL PEAK 15(9Q22.33) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK 
        1962          729           80          677          969          484 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         360          438          319         2172          295          360 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR 
         167            4          385          449          378          166 
TCGA-H6-A45N TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         233          240           20            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49H TCGA-HZ-A77P TCGA-HZ-A77Q 
           3            5           91          491           13           33 
TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
        1968            7          347         1989          724         1257 
TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
        1975          648           75          522          329          300 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM 
        1991          635          248         1968          181            8 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV 
         290         1978          128          179          188          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
         179          164          155          110          247          416 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH 
         397          197         1955          844          161          164 
TCGA-YB-A89D 
         160 

  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                             4                              3 
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                          1960                           2172 
  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE 
                         173.5                          248.0 
[1] "4.0 - 1960.0 (173.5)" "3.0 - 2172.0 (248.0)"
[1] "hr=" "1.3"
D40V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 15(9Q22.33) MUTATED          0        1         9        21
  DEL PEAK 15(9Q22.33) WILD-TYPE        2        6        13        74
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 15(9Q22.33) MUTATED           0        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 IA                             0                              2
  STAGE IB                             1                              6
  STAGE IIA                            9                             13
  STAGE IIB                           21                             74
  STAGE III                            0                              2
  STAGE IV                             0                              4
[1] 6 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       3    28
  DEL PEAK 15(9Q22.33) WILD-TYPE    12    89
D40V4, multiclass
       clus
vv      DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  T1+T2                            3                             12
  T3+T4                           28                             89
[1] 2 2
[1] FALSE
D40V5, binary
                                cls
clus                              0  1
  DEL PEAK 15(9Q22.33) MUTATED    9 22
  DEL PEAK 15(9Q22.33) WILD-TYPE 22 78
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(9Q22.33) MUTATED      9   22
  DEL PEAK 15(9Q22.33) WILD-TYPE   22   78
   clus
vv  DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  0                            9                             22
  1                           22                             78
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 15(9Q22.33) MUTATED   13  0 18
  DEL PEAK 15(9Q22.33) WILD-TYPE 61  4 36
D40V6, multiclass
    clus
vv   DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  M0                           13                             61
  M1                            0                              4
  MX                           18                             36
[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"
D40V7, binary
                                cls
clus                              0  1
  DEL PEAK 15(9Q22.33) MUTATED   15 16
  DEL PEAK 15(9Q22.33) WILD-TYPE 45 56
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(9Q22.33) MUTATED     15   16
  DEL PEAK 15(9Q22.33) WILD-TYPE   45   56
        clus
vv       DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  FEMALE                           15                             45
  MALE                             16                             56
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 15(9Q22.33) MUTATED                                    28
  DEL PEAK 15(9Q22.33) WILD-TYPE                                  85
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 15(9Q22.33) MUTATED                                       3
  DEL PEAK 15(9Q22.33) WILD-TYPE                                    11
                                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                                        28
  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                                          85
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        11
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 15(9Q22.33) MUTATED   20  9  0  1
  DEL PEAK 15(9Q22.33) WILD-TYPE 60 33  2  2
D40V10, multiclass
    clus
vv   DEL PEAK 15(9Q22.33) MUTATED DEL PEAK 15(9Q22.33) WILD-TYPE
  R0                           20                             60
  R1                            9                             33
  R2                            0                              2
  RX                            1                              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"
D40V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 15(9Q22.33) MUTATED       0                         2    26
  DEL PEAK 15(9Q22.33) WILD-TYPE     2                         4    94
D40V12, multiclass
                           clus
vv                          DEL PEAK 15(9Q22.33) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               26
                           clus
vv                          DEL PEAK 15(9Q22.33) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              4
  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"

Clustering(41) Variable = DEL PEAK 16(10P15.3) MUTATION ANALYSIS
D41V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 16(10P15.3) MUTATED   12  3
  DEL PEAK 16(10P15.3) WILD-TYPE 65 15
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                            15                             80 
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                             3                             15 
$`DEL PEAK 16(10P15.3) MUTATED`
TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP TCGA-FB-A545 TCGA-H6-8124 TCGA-HZ-7289 
         969          440          360          385          392          240 
TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-A6UG 
          11           33         1968         1257         1975         1968 
TCGA-IB-AAUQ TCGA-S4-A8RO TCGA-XD-AAUG 
        1978          197          161 

$`DEL PEAK 16(10P15.3) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABK TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         484          438          319         2172          295          360 
TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T 
         153          586          167            4          449          378 
TCGA-FB-A7DR TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 
         166          233          396           28           20            4 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
           8          840          361            8           19           24 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
          21           28           16            3            5           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A8P1 
         660          491          194           46           13            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7891 TCGA-IB-8126 
         347         1951         1989          724          648           75 
TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF 
         522          329          300         1991          635          248 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
         181            8          290          128          179          188 
TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 
         153          210          179          164          127           35 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
         155          584          110          247          416           95 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUH 
          36           42          397         1955          844          164 
TCGA-YB-A89D TCGA-YY-A8LH 
         160         1834 

  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                            11                              3 
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                          1978                           2172 
  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE 
                           392                            202 
[1] "11.0 - 1978.0 (392.0)" "3.0 - 2172.0 (202.0)" 
[1] "hr=" "1.9"
D41V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 16(10P15.3) MUTATED          0        3         2        18
  DEL PEAK 16(10P15.3) WILD-TYPE        2        4        20        77
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 16(10P15.3) MUTATED           0        2
  DEL PEAK 16(10P15.3) WILD-TYPE         2        2
D41V3, multiclass
           clus
vv          DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             3                              4
  STAGE IIA                            2                             20
  STAGE IIB                           18                             77
  STAGE III                            0                              2
  STAGE IV                             2                              2
[1] 6 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       4    21
  DEL PEAK 16(10P15.3) WILD-TYPE    11    96
D41V4, multiclass
       clus
vv      DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  T1+T2                            4                             11
  T3+T4                           21                             96
[1] 2 2
[1] FALSE
D41V5, binary
                                cls
clus                              0  1
  DEL PEAK 16(10P15.3) MUTATED    5 20
  DEL PEAK 16(10P15.3) WILD-TYPE 26 80
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(10P15.3) MUTATED      5   20
  DEL PEAK 16(10P15.3) WILD-TYPE   26   80
   clus
vv  DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  0                            5                             26
  1                           20                             80
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 16(10P15.3) MUTATED   16  2  7
  DEL PEAK 16(10P15.3) WILD-TYPE 58  2 47
D41V6, multiclass
    clus
vv   DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  M0                           16                             58
  M1                            2                              2
  MX                            7                             47
[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"
D41V7, binary
                                cls
clus                              0  1
  DEL PEAK 16(10P15.3) MUTATED   11 14
  DEL PEAK 16(10P15.3) WILD-TYPE 49 58
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(10P15.3) MUTATED     11   14
  DEL PEAK 16(10P15.3) WILD-TYPE   49   58
        clus
vv       DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  FEMALE                           11                             49
  MALE                             14                             58
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 16(10P15.3) MUTATED                                    21
  DEL PEAK 16(10P15.3) WILD-TYPE                                  92
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 16(10P15.3) MUTATED                                       3
  DEL PEAK 16(10P15.3) WILD-TYPE                                    11
                                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                                        21
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 16(10P15.3) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          92
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        11
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 16(10P15.3) MUTATED   15  8  0  1
  DEL PEAK 16(10P15.3) WILD-TYPE 65 34  2  2
D41V10, multiclass
    clus
vv   DEL PEAK 16(10P15.3) MUTATED DEL PEAK 16(10P15.3) WILD-TYPE
  R0                           15                             65
  R1                            8                             34
  R2                            0                              2
  RX                            1                              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"
D41V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 16(10P15.3) MUTATED       0                         0    24
  DEL PEAK 16(10P15.3) WILD-TYPE     2                         6    96
D41V12, multiclass
                           clus
vv                          DEL PEAK 16(10P15.3) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                               24
                           clus
vv                          DEL PEAK 16(10P15.3) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              6
  WHITE                                                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(42) Variable = DEL PEAK 17(10Q23.33) MUTATION ANALYSIS
D42V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 17(10Q23.33) MUTATED   14  1
  DEL PEAK 17(10Q23.33) WILD-TYPE 63 17
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                             15                              80 
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                              1                              17 
$`DEL PEAK 17(10Q23.33) MUTATED`
TCGA-2J-AABO TCGA-2J-AABP TCGA-FB-A545 TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7918 
         440          360          385          392          240           28 
TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-AAUQ 
          11           33         1968          724         1257         1978 
TCGA-S4-A8RO TCGA-US-A776 TCGA-XD-AAUG 
         197          844          161 

$`DEL PEAK 17(10Q23.33) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         969          484          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM 
         360          153          586          167            4          449 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7922 
         378          166          233          396           20            4 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
           8          840          361            8           19           24 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
          21           28           16            3            5           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A8P1 
         660          491          194           46           13            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 
         347         1951         1989         1975          648           75 
TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF 
         522          329          300         1991          635          248 
TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS 
        1968          181            8          290          128          179 
TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX 
         188          153          210          179          164          127 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
          35          155          584          110          247          416 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-US-A774 TCGA-XD-AAUH 
          95           36           42          397         1955          164 
TCGA-YB-A89D TCGA-YY-A8LH 
         160         1834 

  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                             11                               3 
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                           1978                            2172 
  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE 
                          385.0                           221.5 
[1] "11.0 - 1978.0 (385.0)" "3.0 - 2172.0 (221.5)" 
[1] "hr=" "3.9"
D42V2, continuous
                                 vv
clus                              STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 17(10Q23.33) MUTATED          0        1         2        19
  DEL PEAK 17(10Q23.33) WILD-TYPE        2        6        20        76
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 17(10Q23.33) MUTATED           0        1
  DEL PEAK 17(10Q23.33) WILD-TYPE         2        3
D42V3, multiclass
           clus
vv          DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  STAGE IA                              0                               2
  STAGE IB                              1                               6
  STAGE IIA                             2                              20
  STAGE IIB                            19                              76
  STAGE III                             0                               2
  STAGE IV                              1                               3
[1] 6 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       3    20
  DEL PEAK 17(10Q23.33) WILD-TYPE    12    97
D42V4, multiclass
       clus
vv      DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  T1+T2                             3                              12
  T3+T4                            20                              97
[1] 2 2
[1] FALSE
D42V5, binary
                                 cls
clus                               0  1
  DEL PEAK 17(10Q23.33) MUTATED    3 20
  DEL PEAK 17(10Q23.33) WILD-TYPE 28 80
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(10Q23.33) MUTATED      3   20
  DEL PEAK 17(10Q23.33) WILD-TYPE   28   80
   clus
vv  DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  0                             3                              28
  1                            20                              80
[1] 2 2
[1] FALSE
                                 vv
clus                              M0 M1 MX
  DEL PEAK 17(10Q23.33) MUTATED   15  1  7
  DEL PEAK 17(10Q23.33) WILD-TYPE 59  3 47
D42V6, multiclass
    clus
vv   DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  M0                            15                              59
  M1                             1                               3
  MX                             7                              47
[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"
D42V7, binary
                                 cls
clus                               0  1
  DEL PEAK 17(10Q23.33) MUTATED   10 13
  DEL PEAK 17(10Q23.33) WILD-TYPE 50 59
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(10Q23.33) MUTATED     10   13
  DEL PEAK 17(10Q23.33) WILD-TYPE   50   59
        clus
vv       DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  FEMALE                            10                              50
  MALE                              13                              59
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 17(10Q23.33) MUTATED                                    19
  DEL PEAK 17(10Q23.33) WILD-TYPE                                  94
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 17(10Q23.33) MUTATED                                       2
  DEL PEAK 17(10Q23.33) WILD-TYPE                                    12
                                 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                                         19
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          1
                                                  clus
vv                                                 DEL PEAK 17(10Q23.33) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                           94
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         12
  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
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 17(10Q23.33) MUTATED   14  7  0  1
  DEL PEAK 17(10Q23.33) WILD-TYPE 66 35  2  2
D42V10, multiclass
    clus
vv   DEL PEAK 17(10Q23.33) MUTATED DEL PEAK 17(10Q23.33) WILD-TYPE
  R0                            14                              66
  R1                             7                              35
  R2                             0                               2
  RX                             1                               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"
D42V11, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 17(10Q23.33) MUTATED       1                         0    21
  DEL PEAK 17(10Q23.33) WILD-TYPE     1                         6    99
D42V12, multiclass
                           clus
vv                          DEL PEAK 17(10Q23.33) MUTATED
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             0
  WHITE                                                21
                           clus
vv                          DEL PEAK 17(10Q23.33) WILD-TYPE
  ASIAN                                                   1
  BLACK OR AFRICAN AMERICAN                               6
  WHITE                                                  99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(43) Variable = DEL PEAK 18(11P15.4) MUTATION ANALYSIS
D43V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 18(11P15.4) MUTATED    9  1
  DEL PEAK 18(11P15.4) WILD-TYPE 68 17
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                            10                             85 
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                             1                             17 
$`DEL PEAK 18(11P15.4) MUTATED`
TCGA-F2-A44H TCGA-FB-A545 TCGA-HZ-7918 TCGA-HZ-A4BH TCGA-IB-7652 TCGA-IB-7885 
         586          385           28          194          724         1257 
TCGA-IB-7886 TCGA-IB-8127 TCGA-LB-A7SX TCGA-S4-A8RO 
        1975          522          127          197 

$`DEL PEAK 18(11P15.4) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT 
         969          484          440          360          438          319 
TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A8YN TCGA-FB-A4P5 
        2172          295          360          153          167            4 
TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
         449          378          166          392          233          396 
TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         240           20            4            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK 
           3            5           91          660          491           46 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 
          11           13           33         1968            7          347 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP 
        1951         1989          648           75          329          300 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM 
        1991          635          248         1968          181            8 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU 
         290         1978          128          179          188          153 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
         210          179          164           35          155          584 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
         110          247          416           95           36           42 
TCGA-S4-A8RM TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         397         1955          844          161          164          160 
TCGA-YY-A8LH 
        1834 

  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                            28                              3 
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                          1975                           2172 
  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE 
                         453.5                          240.0 
[1] "28.0 - 1975.0 (453.5)" "3.0 - 2172.0 (240.0)" 
[1] "hr=" "2.1"
D43V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 18(11P15.4) MUTATED          0        0         1        16
  DEL PEAK 18(11P15.4) WILD-TYPE        2        7        21        79
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 18(11P15.4) MUTATED           0        0
  DEL PEAK 18(11P15.4) WILD-TYPE         2        4
D43V3, multiclass
           clus
vv          DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            1                             21
  STAGE IIB                           16                             79
  STAGE III                            0                              2
  STAGE IV                             0                              4
[1] 6 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       0    17
  DEL PEAK 18(11P15.4) WILD-TYPE    15   100
D43V4, multiclass
       clus
vv      DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  T1+T2                            0                             15
  T3+T4                           17                            100
[1] 2 2
[1] FALSE
D43V5, binary
                                cls
clus                              0  1
  DEL PEAK 18(11P15.4) MUTATED    1 16
  DEL PEAK 18(11P15.4) WILD-TYPE 30 84
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(11P15.4) MUTATED      1   16
  DEL PEAK 18(11P15.4) WILD-TYPE   30   84
   clus
vv  DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  0                            1                             30
  1                           16                             84
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 18(11P15.4) MUTATED   12  0  5
  DEL PEAK 18(11P15.4) WILD-TYPE 62  4 49
D43V6, multiclass
    clus
vv   DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  M0                           12                             62
  M1                            0                              4
  MX                            5                             49
[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"
D43V7, binary
                                cls
clus                              0  1
  DEL PEAK 18(11P15.4) MUTATED    9  8
  DEL PEAK 18(11P15.4) WILD-TYPE 51 64
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(11P15.4) MUTATED      9    8
  DEL PEAK 18(11P15.4) WILD-TYPE   51   64
        clus
vv       DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  FEMALE                            9                             51
  MALE                              8                             64
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 18(11P15.4) MUTATED                                    17
  DEL PEAK 18(11P15.4) WILD-TYPE                                  96
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 18(11P15.4) MUTATED                                       0
  DEL PEAK 18(11P15.4) WILD-TYPE                                    14
                                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                                        17
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       0
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         0
                                                  clus
vv                                                 DEL PEAK 18(11P15.4) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          96
  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"
D43V9, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 18(11P15.4) MUTATED    9  7  0  0
  DEL PEAK 18(11P15.4) WILD-TYPE 71 35  2  3
D43V10, multiclass
    clus
vv   DEL PEAK 18(11P15.4) MUTATED DEL PEAK 18(11P15.4) WILD-TYPE
  R0                            9                             71
  R1                            7                             35
  R2                            0                              2
  RX                            0                              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"
D43V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 18(11P15.4) MUTATED       1                         2    13
  DEL PEAK 18(11P15.4) WILD-TYPE     1                         4   107
D43V12, multiclass
                           clus
vv                          DEL PEAK 18(11P15.4) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               13
                           clus
vv                          DEL PEAK 18(11P15.4) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              4
  WHITE                                                107
[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"

Clustering(44) Variable = DEL PEAK 19(12P13.1) MUTATION ANALYSIS
D44V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 19(12P13.1) MUTATED   12  1
  DEL PEAK 19(12P13.1) WILD-TYPE 65 17
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                            13                             82 
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                             1                             17 
$`DEL PEAK 19(12P13.1) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABP TCGA-F2-A8YN TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-8636 
         729          360          167          240           20            5 
TCGA-HZ-A4BH TCGA-IB-7886 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-AAUU TCGA-LB-A7SX 
         194         1975          300          248          153          127 
TCGA-Q3-AA2A 
          95 

$`DEL PEAK 19(12P13.1) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI 
        1962           80          676         1960          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         484          440          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
         360          153          586            4          385          449 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 
         378          166          392          233          396           28 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
           4            8          840          361            8           19 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 
          24           21           28           16            3           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q 
         660          491           46           11           13           33 
TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
        1968            7          347         1951         1989          724 
TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SS 
        1257          648           75          522          329         1991 
TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ 
         635         1968          181            8          290         1978 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
         128          179          188          210          179          164 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
          35          155          584          110          247          416 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 
          36           42          397          197         1955          844 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         161          164          160         1834 

  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                             5                              3 
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                          1975                           2172 
  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE 
                         194.0                          292.5 
[1] "5.0 - 1975.0 (194.0)" "3.0 - 2172.0 (292.5)"
[1] "hr=" "1.9"
D44V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 19(12P13.1) MUTATED          0        1         3        13
  DEL PEAK 19(12P13.1) WILD-TYPE        2        6        19        82
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 19(12P13.1) MUTATED           0        1
  DEL PEAK 19(12P13.1) WILD-TYPE         2        3
D44V3, multiclass
           clus
vv          DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             1                              6
  STAGE IIA                            3                             19
  STAGE IIB                           13                             82
  STAGE III                            0                              2
  STAGE IV                             1                              3
[1] 6 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    17
  DEL PEAK 19(12P13.1) WILD-TYPE    14   100
D44V4, multiclass
       clus
vv      DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  T1+T2                            1                             14
  T3+T4                           17                            100
[1] 2 2
[1] FALSE
D44V5, binary
                                cls
clus                              0  1
  DEL PEAK 19(12P13.1) MUTATED    4 14
  DEL PEAK 19(12P13.1) WILD-TYPE 27 86
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(12P13.1) MUTATED      4   14
  DEL PEAK 19(12P13.1) WILD-TYPE   27   86
   clus
vv  DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  0                            4                             27
  1                           14                             86
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 19(12P13.1) MUTATED   12  1  5
  DEL PEAK 19(12P13.1) WILD-TYPE 62  3 49
D44V6, multiclass
    clus
vv   DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  M0                           12                             62
  M1                            1                              3
  MX                            5                             49
[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"
D44V7, binary
                                cls
clus                              0  1
  DEL PEAK 19(12P13.1) MUTATED    5 13
  DEL PEAK 19(12P13.1) WILD-TYPE 55 59
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(12P13.1) MUTATED      5   13
  DEL PEAK 19(12P13.1) WILD-TYPE   55   59
        clus
vv       DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  FEMALE                            5                             55
  MALE                             13                             59
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 19(12P13.1) MUTATED                                    14
  DEL PEAK 19(12P13.1) WILD-TYPE                                  99
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 19(12P13.1) MUTATED                                       3
  DEL PEAK 19(12P13.1) WILD-TYPE                                    11
                                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                                        14
  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                                          99
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        11
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 19(12P13.1) MUTATED    7  9  0  2
  DEL PEAK 19(12P13.1) WILD-TYPE 73 33  2  1
D44V10, multiclass
    clus
vv   DEL PEAK 19(12P13.1) MUTATED DEL PEAK 19(12P13.1) WILD-TYPE
  R0                            7                             73
  R1                            9                             33
  R2                            0                              2
  RX                            2                              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"
D44V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 19(12P13.1) MUTATED       0                         2    16
  DEL PEAK 19(12P13.1) WILD-TYPE     2                         4   104
D44V12, multiclass
                           clus
vv                          DEL PEAK 19(12P13.1) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               16
                           clus
vv                          DEL PEAK 19(12P13.1) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              4
  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"

Clustering(45) Variable = DEL PEAK 20(12Q12) MUTATION ANALYSIS
D45V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 20(12Q12) MUTATED    9  1
  DEL PEAK 20(12Q12) WILD-TYPE 68 17
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                          10                           85 
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                           1                           17 
$`DEL PEAK 20(12Q12) MUTATED`
TCGA-2J-AABH TCGA-2J-AABI TCGA-F2-A8YN TCGA-FB-A545 TCGA-H6-8124 TCGA-HZ-8636 
         677          969          167          385          392            5 
TCGA-HZ-A77O TCGA-IB-7886 TCGA-IB-AAUU TCGA-LB-A7SX 
          11         1975          153          127 

$`DEL PEAK 20(12Q12) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABK 
        1962          729           80          676         1960          484 
TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         440          360          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T 
         360          153          586            4          449          378 
TCGA-FB-A7DR TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 
         166          233          396          240           28           20 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
           4            8          840          361            8           19 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 
          24           21           28           16            3           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q 
         660          491          194           46           13           33 
TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
        1968            7          347         1951         1989          724 
TCGA-IB-7885 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
        1257          648           75          522          329          300 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM 
        1991          635          248         1968          181            8 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV 
         290         1978          128          179          188          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
         179          164           35          155          584          110 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM 
         247          416           95           36           42          397 
TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         197         1955          844          161          164          160 
TCGA-YY-A8LH 
        1834 

  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                           5                            3 
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                        1975                         2172 
  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE 
                         276                          247 
[1] "5.0 - 1975.0 (276.0)" "3.0 - 2172.0 (247.0)"
[1] "hr=" "1.9"
D45V2, continuous
                              vv
clus                           STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK 20(12Q12) MUTATED          0        1         4        10         0
  DEL PEAK 20(12Q12) WILD-TYPE        2        6        18        85         2
                              vv
clus                           STAGE IV
  DEL PEAK 20(12Q12) MUTATED          1
  DEL PEAK 20(12Q12) WILD-TYPE        3
D45V3, multiclass
           clus
vv          DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  STAGE IA                           0                            2
  STAGE IB                           1                            6
  STAGE IIA                          4                           18
  STAGE IIB                         10                           85
  STAGE III                          0                            2
  STAGE IV                           1                            3
[1] 6 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       3    13
  DEL PEAK 20(12Q12) WILD-TYPE    12   104
D45V4, multiclass
       clus
vv      DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  T1+T2                          3                           12
  T3+T4                         13                          104
[1] 2 2
[1] FALSE
D45V5, binary
                              cls
clus                            0  1
  DEL PEAK 20(12Q12) MUTATED    6 10
  DEL PEAK 20(12Q12) WILD-TYPE 25 90
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 20(12Q12) MUTATED      6   10
  DEL PEAK 20(12Q12) WILD-TYPE   25   90
   clus
vv  DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  0                          6                           25
  1                         10                           90
[1] 2 2
[1] FALSE
                              vv
clus                           M0 M1 MX
  DEL PEAK 20(12Q12) MUTATED   13  1  2
  DEL PEAK 20(12Q12) WILD-TYPE 61  3 52
D45V6, multiclass
    clus
vv   DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  M0                         13                           61
  M1                          1                            3
  MX                          2                           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"
D45V7, binary
                              cls
clus                            0  1
  DEL PEAK 20(12Q12) MUTATED    8  8
  DEL PEAK 20(12Q12) WILD-TYPE 52 64
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 20(12Q12) MUTATED      8    8
  DEL PEAK 20(12Q12) WILD-TYPE   52   64
        clus
vv       DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  FEMALE                          8                           52
  MALE                            8                           64
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 20(12Q12) MUTATED                                    13
  DEL PEAK 20(12Q12) WILD-TYPE                                 100
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 20(12Q12) MUTATED                                       3
  DEL PEAK 20(12Q12) WILD-TYPE                                    11
                              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                                      13
  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                                       100
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      11
  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
                              vv
clus                           R0 R1 R2 RX
  DEL PEAK 20(12Q12) MUTATED    9  6  0  0
  DEL PEAK 20(12Q12) WILD-TYPE 71 36  2  3
D45V10, multiclass
    clus
vv   DEL PEAK 20(12Q12) MUTATED DEL PEAK 20(12Q12) WILD-TYPE
  R0                          9                           71
  R1                          6                           36
  R2                          0                            2
  RX                          0                            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"
D45V11, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 20(12Q12) MUTATED       0                         1    15
  DEL PEAK 20(12Q12) WILD-TYPE     2                         5   105
D45V12, multiclass
                           clus
vv                          DEL PEAK 20(12Q12) MUTATED
  ASIAN                                              0
  BLACK OR AFRICAN AMERICAN                          1
  WHITE                                             15
                           clus
vv                          DEL PEAK 20(12Q12) WILD-TYPE
  ASIAN                                                2
  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"

Clustering(46) Variable = DEL PEAK 21(12Q21.33) MUTATION ANALYSIS
D46V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 21(12Q21.33) MUTATED   17  2
  DEL PEAK 21(12Q21.33) WILD-TYPE 60 16
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                             19                              76 
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                              2                              16 
$`DEL PEAK 21(12Q21.33) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABI TCGA-F2-A8YN TCGA-FB-A7DR 
         729           80          677          969          167          166 
TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7922 TCGA-HZ-8636 TCGA-HZ-A77O TCGA-IB-7652 
         392          240            4            5           11          724 
TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SS TCGA-IB-AAUU TCGA-LB-A7SX 
        1257         1975          522         1991          153          127 
TCGA-LB-A8F3 
          35 

$`DEL PEAK 21(12Q21.33) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP 
        1962          676         1960          484          440          360 
TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G 
         438          319         2172          295          360          153 
TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-H6-A45N 
         586            4          385          449          378          233 
TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         396           28           20            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK 
           3           91          660          491          194           46 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 
          13           33         1968            7          347         1951 
TCGA-IB-7651 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5ST 
        1989          648           75          329          300          635 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ 
         248         1968          181            8          290         1978 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 
         128          179          188          210          179          164 
TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A 
         155          584          110          247          416           95 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 
          36           42          397          197         1955          844 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         161          164          160         1834 

  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                              4                               3 
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                           1991                            2172 
  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE 
                          240.0                           247.5 
[1] "4.0 - 1991.0 (240.0)" "3.0 - 2172.0 (247.5)"
[1] "hr=" "2.7"
D46V2, continuous
                                 vv
clus                              STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 21(12Q21.33) MUTATED          0        2         6        19
  DEL PEAK 21(12Q21.33) WILD-TYPE        2        5        16        76
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 21(12Q21.33) MUTATED           0        1
  DEL PEAK 21(12Q21.33) WILD-TYPE         2        3
D46V3, multiclass
           clus
vv          DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  STAGE IA                              0                               2
  STAGE IB                              2                               5
  STAGE IIA                             6                              16
  STAGE IIB                            19                              76
  STAGE III                             0                               2
  STAGE IV                              1                               3
[1] 6 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       4    24
  DEL PEAK 21(12Q21.33) WILD-TYPE    11    93
D46V4, multiclass
       clus
vv      DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  T1+T2                             4                              11
  T3+T4                            24                              93
[1] 2 2
[1] FALSE
D46V5, binary
                                 cls
clus                               0  1
  DEL PEAK 21(12Q21.33) MUTATED    8 19
  DEL PEAK 21(12Q21.33) WILD-TYPE 23 81
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 21(12Q21.33) MUTATED      8   19
  DEL PEAK 21(12Q21.33) WILD-TYPE   23   81
   clus
vv  DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  0                             8                              23
  1                            19                              81
[1] 2 2
[1] FALSE
                                 vv
clus                              M0 M1 MX
  DEL PEAK 21(12Q21.33) MUTATED   19  1  8
  DEL PEAK 21(12Q21.33) WILD-TYPE 55  3 46
D46V6, multiclass
    clus
vv   DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  M0                            19                              55
  M1                             1                               3
  MX                             8                              46
[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"
D46V7, binary
                                 cls
clus                               0  1
  DEL PEAK 21(12Q21.33) MUTATED   12 16
  DEL PEAK 21(12Q21.33) WILD-TYPE 48 56
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 21(12Q21.33) MUTATED     12   16
  DEL PEAK 21(12Q21.33) WILD-TYPE   48   56
        clus
vv       DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  FEMALE                            12                              48
  MALE                              16                              56
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 21(12Q21.33) MUTATED                                    23
  DEL PEAK 21(12Q21.33) WILD-TYPE                                  90
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 21(12Q21.33) MUTATED                                       4
  DEL PEAK 21(12Q21.33) WILD-TYPE                                    10
                                 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                                         23
  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                                           90
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         10
  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
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 21(12Q21.33) MUTATED   17 10  0  1
  DEL PEAK 21(12Q21.33) WILD-TYPE 63 32  2  2
D46V10, multiclass
    clus
vv   DEL PEAK 21(12Q21.33) MUTATED DEL PEAK 21(12Q21.33) WILD-TYPE
  R0                            17                              63
  R1                            10                              32
  R2                             0                               2
  RX                             1                               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"
D46V11, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 21(12Q21.33) MUTATED       2                         3    22
  DEL PEAK 21(12Q21.33) WILD-TYPE     0                         3    98
D46V12, multiclass
                           clus
vv                          DEL PEAK 21(12Q21.33) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             3
  WHITE                                                22
                           clus
vv                          DEL PEAK 21(12Q21.33) WILD-TYPE
  ASIAN                                                   0
  BLACK OR AFRICAN AMERICAN                               3
  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"

Clustering(47) Variable = DEL PEAK 22(12Q24.33) MUTATION ANALYSIS
D47V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 22(12Q24.33) MUTATED   18  2
  DEL PEAK 22(12Q24.33) WILD-TYPE 59 16
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                             20                              75 
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                              2                              16 
$`DEL PEAK 22(12Q24.33) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABH TCGA-2J-AABI TCGA-F2-A8YN TCGA-FB-A7DR 
         729           80          677          969          167          166 
TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7922 TCGA-HZ-7926 TCGA-HZ-A77O TCGA-IB-7652 
         392          240            4            8           11          724 
TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SS TCGA-IB-A7M4 TCGA-IB-AAUU 
        1257         1975          522         1991          181          153 
TCGA-LB-A7SX TCGA-LB-A8F3 
         127           35 

$`DEL PEAK 22(12Q24.33) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP 
        1962          676         1960          484          440          360 
TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G 
         438          319         2172          295          360          153 
TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-H6-A45N 
         586            4          385          449          378          233 
TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         396           28           20            8          840          361 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
          19           24           21           28           16            3 
TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK 
           5           91          660          491          194           46 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 
          13           33         1968            7          347         1951 
TCGA-IB-7651 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5ST 
        1989          648           75          329          300          635 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR 
         248         1968            8          290         1978          128 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 
         179          188          210          179          164          155 
TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 
         584          110          247          416           95           36 
TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG 
          42          397          197         1955          844          161 
TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         164          160         1834 

  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                              4                               3 
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                           1991                            2172 
  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE 
                          210.5                           248.0 
[1] "4.0 - 1991.0 (210.5)" "3.0 - 2172.0 (248.0)"
[1] "hr=" "2.8"
D47V2, continuous
                                 vv
clus                              STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 22(12Q24.33) MUTATED          0        2         6        19
  DEL PEAK 22(12Q24.33) WILD-TYPE        2        5        16        76
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 22(12Q24.33) MUTATED           0        0
  DEL PEAK 22(12Q24.33) WILD-TYPE         2        4
D47V3, multiclass
           clus
vv          DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  STAGE IA                              0                               2
  STAGE IB                              2                               5
  STAGE IIA                             6                              16
  STAGE IIB                            19                              76
  STAGE III                             0                               2
  STAGE IV                              0                               4
[1] 6 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       4    23
  DEL PEAK 22(12Q24.33) WILD-TYPE    11    94
D47V4, multiclass
       clus
vv      DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  T1+T2                             4                              11
  T3+T4                            23                              94
[1] 2 2
[1] FALSE
D47V5, binary
                                 cls
clus                               0  1
  DEL PEAK 22(12Q24.33) MUTATED    7 19
  DEL PEAK 22(12Q24.33) WILD-TYPE 24 81
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 22(12Q24.33) MUTATED      7   19
  DEL PEAK 22(12Q24.33) WILD-TYPE   24   81
   clus
vv  DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  0                             7                              24
  1                            19                              81
[1] 2 2
[1] FALSE
                                 vv
clus                              M0 M1 MX
  DEL PEAK 22(12Q24.33) MUTATED   18  0  9
  DEL PEAK 22(12Q24.33) WILD-TYPE 56  4 45
D47V6, multiclass
    clus
vv   DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  M0                            18                              56
  M1                             0                               4
  MX                             9                              45
[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"
D47V7, binary
                                 cls
clus                               0  1
  DEL PEAK 22(12Q24.33) MUTATED   11 16
  DEL PEAK 22(12Q24.33) WILD-TYPE 49 56
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 22(12Q24.33) MUTATED     11   16
  DEL PEAK 22(12Q24.33) WILD-TYPE   49   56
        clus
vv       DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  FEMALE                            11                              49
  MALE                              16                              56
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 22(12Q24.33) MUTATED                                    22
  DEL PEAK 22(12Q24.33) WILD-TYPE                                  91
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 22(12Q24.33) MUTATED                                       4
  DEL PEAK 22(12Q24.33) WILD-TYPE                                    10
                                 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                                         22
  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                                           91
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         10
  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
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 22(12Q24.33) MUTATED   16  9  0  2
  DEL PEAK 22(12Q24.33) WILD-TYPE 64 33  2  1
D47V10, multiclass
    clus
vv   DEL PEAK 22(12Q24.33) MUTATED DEL PEAK 22(12Q24.33) WILD-TYPE
  R0                            16                              64
  R1                             9                              33
  R2                             0                               2
  RX                             2                               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"
D47V11, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 22(12Q24.33) MUTATED       2                         4    20
  DEL PEAK 22(12Q24.33) WILD-TYPE     0                         2   100
D47V12, multiclass
                           clus
vv                          DEL PEAK 22(12Q24.33) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                                20
                           clus
vv                          DEL PEAK 22(12Q24.33) WILD-TYPE
  ASIAN                                                   0
  BLACK OR AFRICAN AMERICAN                               2
  WHITE                                                 100
[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"

Clustering(48) Variable = DEL PEAK 23(13Q14.2) MUTATION ANALYSIS
D48V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 23(13Q14.2) MUTATED    9  2
  DEL PEAK 23(13Q14.2) WILD-TYPE 68 16
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                            11                             84 
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                             2                             16 
$`DEL PEAK 23(13Q14.2) MUTATED`
TCGA-2J-AABP TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-8636 TCGA-HZ-A4BK TCGA-IB-7885 
         360          240           28            5           46         1257 
TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SS TCGA-IB-A7M4 TCGA-L1-A7W4 
        1975          522         1991          181          164 

$`DEL PEAK 23(13Q14.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         969          484          440          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 TCGA-H6-A45N 
         385          449          378          166          392          233 
TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         396           20            4            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A77O 
           3           91          660          491          194           11 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 
          13           33         1968            7          347         1951 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SP 
        1989          724          648           75          329          300 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ 
         635          248         1968            8          290         1978 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
         128          179          188          153          210          179 
TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
         127           35          155          584          110          247 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO 
         416           95           36           42          397          197 
TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
        1955          844          161          164          160         1834 

  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                             5                              3 
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                          1991                           2172 
  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE 
                         240.0                          247.5 
[1] "5.0 - 1991.0 (240.0)" "3.0 - 2172.0 (247.5)"
[1] "hr=" "2.2"
D48V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 23(13Q14.2) MUTATED          0        0         0        13
  DEL PEAK 23(13Q14.2) WILD-TYPE        2        7        22        82
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 23(13Q14.2) MUTATED           0        1
  DEL PEAK 23(13Q14.2) WILD-TYPE         2        3
D48V3, multiclass
           clus
vv          DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            0                             22
  STAGE IIB                           13                             82
  STAGE III                            0                              2
  STAGE IV                             1                              3
[1] 6 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    14
  DEL PEAK 23(13Q14.2) WILD-TYPE    15   103
D48V4, multiclass
       clus
vv      DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  T1+T2                            0                             15
  T3+T4                           14                            103
[1] 2 2
[1] FALSE
D48V5, binary
                                cls
clus                              0  1
  DEL PEAK 23(13Q14.2) MUTATED    1 13
  DEL PEAK 23(13Q14.2) WILD-TYPE 30 87
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(13Q14.2) MUTATED      1   13
  DEL PEAK 23(13Q14.2) WILD-TYPE   30   87
   clus
vv  DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  0                            1                             30
  1                           13                             87
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 23(13Q14.2) MUTATED   10  1  3
  DEL PEAK 23(13Q14.2) WILD-TYPE 64  3 51
D48V6, multiclass
    clus
vv   DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  M0                           10                             64
  M1                            1                              3
  MX                            3                             51
[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"
D48V7, binary
                                cls
clus                              0  1
  DEL PEAK 23(13Q14.2) MUTATED    5  9
  DEL PEAK 23(13Q14.2) WILD-TYPE 55 63
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(13Q14.2) MUTATED      5    9
  DEL PEAK 23(13Q14.2) WILD-TYPE   55   63
        clus
vv       DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  FEMALE                            5                             55
  MALE                              9                             63
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 23(13Q14.2) MUTATED                                    11
  DEL PEAK 23(13Q14.2) WILD-TYPE                                 102
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 23(13Q14.2) MUTATED                                       2
  DEL PEAK 23(13Q14.2) WILD-TYPE                                    12
                                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                                        11
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       2
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 23(13Q14.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         102
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        12
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              4
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D48V9, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 23(13Q14.2) MUTATED    7  5  1  1
  DEL PEAK 23(13Q14.2) WILD-TYPE 73 37  1  2
D48V10, multiclass
    clus
vv   DEL PEAK 23(13Q14.2) MUTATED DEL PEAK 23(13Q14.2) WILD-TYPE
  R0                            7                             73
  R1                            5                             37
  R2                            1                              1
  RX                            1                              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"
D48V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 23(13Q14.2) MUTATED       0                         1    13
  DEL PEAK 23(13Q14.2) WILD-TYPE     2                         5   107
D48V12, multiclass
                           clus
vv                          DEL PEAK 23(13Q14.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               13
                           clus
vv                          DEL PEAK 23(13Q14.2) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                107
[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"

Clustering(49) Variable = DEL PEAK 24(14Q11.2) MUTATION ANALYSIS
D49V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 24(14Q11.2) MUTATED    5  0
  DEL PEAK 24(14Q11.2) WILD-TYPE 72 18
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                             5                             90 
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                             0                             18 
$`DEL PEAK 24(14Q11.2) MUTATED`
TCGA-2J-AABI TCGA-FB-A5VM TCGA-FB-A7DR TCGA-LB-A7SX TCGA-LB-A8F3 
         969          449          166          127           35 

$`DEL PEAK 24(14Q11.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         484          440          360          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A545 TCGA-FB-A78T TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 
         385          378          392          233          396          240 
TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
          28           20            4            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH 
           3            5           91          660          491          194 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
          46           11           13           33         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 
         347         1951         1989          724         1257         1975 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS 
         648           75          522          329          300         1991 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
         635          248         1968          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        1978          128          179          188          153          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE 
         179          164          155          584          110          247 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO 
         416           95           36           42          397          197 
TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
        1955          844          161          164          160         1834 

  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                            35                              3 
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                           969                           2172 
  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE 
                         166.0                          247.5 
[1] "35.0 - 969.0 (166.0)" "3.0 - 2172.0 (247.5)"
[1] "hr="     "2.6e+07"
D49V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 24(14Q11.2) MUTATED          0        2         4         4
  DEL PEAK 24(14Q11.2) WILD-TYPE        2        5        18        91
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 24(14Q11.2) MUTATED           0        0
  DEL PEAK 24(14Q11.2) WILD-TYPE         2        4
D49V3, multiclass
           clus
vv          DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             2                              5
  STAGE IIA                            4                             18
  STAGE IIB                            4                             91
  STAGE III                            0                              2
  STAGE IV                             0                              4
[1] 6 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       2     8
  DEL PEAK 24(14Q11.2) WILD-TYPE    13   109
D49V4, multiclass
       clus
vv      DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  T1+T2                            2                             13
  T3+T4                            8                            109
[1] 2 2
[1] FALSE
D49V5, binary
                                cls
clus                              0  1
  DEL PEAK 24(14Q11.2) MUTATED    5  4
  DEL PEAK 24(14Q11.2) WILD-TYPE 26 96
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(14Q11.2) MUTATED      5    4
  DEL PEAK 24(14Q11.2) WILD-TYPE   26   96
   clus
vv  DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  0                            5                             26
  1                            4                             96
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 24(14Q11.2) MUTATED    6  0  4
  DEL PEAK 24(14Q11.2) WILD-TYPE 68  4 50
D49V6, multiclass
    clus
vv   DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  M0                            6                             68
  M1                            0                              4
  MX                            4                             50
[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"
D49V7, binary
                                cls
clus                              0  1
  DEL PEAK 24(14Q11.2) MUTATED    4  6
  DEL PEAK 24(14Q11.2) WILD-TYPE 56 66
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(14Q11.2) MUTATED      4    6
  DEL PEAK 24(14Q11.2) WILD-TYPE   56   66
        clus
vv       DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  FEMALE                            4                             56
  MALE                              6                             66
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 24(14Q11.2) MUTATED                                     8
  DEL PEAK 24(14Q11.2) WILD-TYPE                                 105
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 24(14Q11.2) MUTATED                                       1
  DEL PEAK 24(14Q11.2) WILD-TYPE                                    13
                                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                                         8
  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                                         105
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        13
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                              3
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D49V9, continuous
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 24(14Q11.2) MUTATED    6  4  0  0
  DEL PEAK 24(14Q11.2) WILD-TYPE 74 38  2  3
D49V10, multiclass
    clus
vv   DEL PEAK 24(14Q11.2) MUTATED DEL PEAK 24(14Q11.2) WILD-TYPE
  R0                            6                             74
  R1                            4                             38
  R2                            0                              2
  RX                            0                              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"
D49V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 24(14Q11.2) MUTATED       1                         2     7
  DEL PEAK 24(14Q11.2) WILD-TYPE     1                         4   113
D49V12, multiclass
                           clus
vv                          DEL PEAK 24(14Q11.2) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                                7
                           clus
vv                          DEL PEAK 24(14Q11.2) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              4
  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"

Clustering(50) Variable = DEL PEAK 25(15Q15.1) MUTATION ANALYSIS
D50V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 25(15Q15.1) MUTATED   15  1
  DEL PEAK 25(15Q15.1) WILD-TYPE 62 17
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                            16                             79 
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                             1                             17 
$`DEL PEAK 25(15Q15.1) MUTATED`
TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABP TCGA-2J-AABT TCGA-FB-A545 TCGA-FB-A7DR 
         676          677          360          319          385          166 
TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-A4BK TCGA-IB-7644 TCGA-IB-8127 TCGA-IB-A5SP 
         240           28           46          347          522          300 
TCGA-IB-A7M4 TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-US-A776 
         181          127          584          844 

$`DEL PEAK 25(15Q15.1) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABI TCGA-2J-AABK 
        1962          729           80         1960          969          484 
TCGA-2J-AABO TCGA-2J-AABR TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G 
         440          438         2172          295          360          153 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-H6-8124 
         586          167            4          449          378          392 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 
         233          396           20            4            8          840 
TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 
         361            8           19           24           21           28 
TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H 
          16            3            5           91          660          491 
TCGA-HZ-A4BH TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
         194           11           13           33         1968            7 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 
        1951         1989          724         1257         1975          648 
TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG 
          75          329         1991          635          248         1968 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
           8          290         1978          128          179          188 
TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 
         153          210          179          164           35          155 
TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
         110          247          416           95           36           42 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         397          197         1955          161          164          160 
TCGA-YY-A8LH 
        1834 

  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                            28                              3 
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                           844                           2172 
  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE 
                           333                            210 
[1] "28.0 - 844.0 (333.0)" "3.0 - 2172.0 (210.0)"
[1] "hr=" "1.9"
D50V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 25(15Q15.1) MUTATED          0        1         9        12
  DEL PEAK 25(15Q15.1) WILD-TYPE        2        6        13        83
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 25(15Q15.1) MUTATED           0        1
  DEL PEAK 25(15Q15.1) WILD-TYPE         2        3
D50V3, multiclass
           clus
vv          DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             1                              6
  STAGE IIA                            9                             13
  STAGE IIB                           12                             83
  STAGE III                            0                              2
  STAGE IV                             1                              3
[1] 6 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       2    21
  DEL PEAK 25(15Q15.1) WILD-TYPE    13    96
D50V4, multiclass
       clus
vv      DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  T1+T2                            2                             13
  T3+T4                           21                             96
[1] 2 2
[1] FALSE
D50V5, binary
                                cls
clus                              0  1
  DEL PEAK 25(15Q15.1) MUTATED    9 13
  DEL PEAK 25(15Q15.1) WILD-TYPE 22 87
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(15Q15.1) MUTATED      9   13
  DEL PEAK 25(15Q15.1) WILD-TYPE   22   87
   clus
vv  DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  0                            9                             22
  1                           13                             87
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 25(15Q15.1) MUTATED   13  1  9
  DEL PEAK 25(15Q15.1) WILD-TYPE 61  3 45
D50V6, multiclass
    clus
vv   DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  M0                           13                             61
  M1                            1                              3
  MX                            9                             45
[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"
D50V7, binary
                                cls
clus                              0  1
  DEL PEAK 25(15Q15.1) MUTATED    6 17
  DEL PEAK 25(15Q15.1) WILD-TYPE 54 55
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(15Q15.1) MUTATED      6   17
  DEL PEAK 25(15Q15.1) WILD-TYPE   54   55
        clus
vv       DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  FEMALE                            6                             54
  MALE                             17                             55
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 25(15Q15.1) MUTATED                                    17
  DEL PEAK 25(15Q15.1) WILD-TYPE                                  96
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 25(15Q15.1) MUTATED                                       3
  DEL PEAK 25(15Q15.1) WILD-TYPE                                    11
                                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                                        17
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            2
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 25(15Q15.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          96
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        11
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 25(15Q15.1) MUTATED   13  7  0  1
  DEL PEAK 25(15Q15.1) WILD-TYPE 67 35  2  2
D50V10, multiclass
    clus
vv   DEL PEAK 25(15Q15.1) MUTATED DEL PEAK 25(15Q15.1) WILD-TYPE
  R0                           13                             67
  R1                            7                             35
  R2                            0                              2
  RX                            1                              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"
D50V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 25(15Q15.1) MUTATED       1                         1    19
  DEL PEAK 25(15Q15.1) WILD-TYPE     1                         5   101
D50V12, multiclass
                           clus
vv                          DEL PEAK 25(15Q15.1) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               19
                           clus
vv                          DEL PEAK 25(15Q15.1) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(51) Variable = DEL PEAK 26(16Q23.1) MUTATION ANALYSIS
D51V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 26(16Q23.1) MUTATED    5  1
  DEL PEAK 26(16Q23.1) WILD-TYPE 72 17
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                             6                             89 
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                             1                             17 
$`DEL PEAK 26(16Q23.1) MUTATED`
TCGA-2J-AABP TCGA-FB-A7DR TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-A8P1 TCGA-IB-AAUQ 
         360          166          240           28            7         1978 

$`DEL PEAK 26(16Q23.1) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY 
         969          484          440          438          319         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 
         295          360          153          586          167            4 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 
         385          449          378          392          233          396 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
          20            4            8          840          361            8 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
          19           24           21           28           16            3 
TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK 
           5           91          660          491          194           46 
TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-IB-7644 TCGA-IB-7649 
          11           13           33         1968          347         1951 
TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 
        1989          724         1257         1975          648           75 
TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF 
         522          329          300         1991          635          248 
TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS 
        1968          181            8          290          128          179 
TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX 
         188          153          210          179          164          127 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
          35          155          584          110          247          416 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 
          95           36           42          397          197         1955 
TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         844          161          164          160         1834 

  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                             7                              3 
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                          1978                           2172 
  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE 
                           203                            248 
[1] "7.0 - 1978.0 (203.0)" "3.0 - 2172.0 (248.0)"
[1] "hr=" "1.6"
D51V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 26(16Q23.1) MUTATED          0        1         1         5
  DEL PEAK 26(16Q23.1) WILD-TYPE        2        6        21        90
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 26(16Q23.1) MUTATED           0        1
  DEL PEAK 26(16Q23.1) WILD-TYPE         2        3
D51V3, multiclass
           clus
vv          DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             1                              6
  STAGE IIA                            1                             21
  STAGE IIB                            5                             90
  STAGE III                            0                              2
  STAGE IV                             1                              3
[1] 6 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     7
  DEL PEAK 26(16Q23.1) WILD-TYPE    14   110
D51V4, multiclass
       clus
vv      DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  T1+T2                            1                             14
  T3+T4                            7                            110
[1] 2 2
[1] FALSE
D51V5, binary
                                cls
clus                              0  1
  DEL PEAK 26(16Q23.1) MUTATED    1  6
  DEL PEAK 26(16Q23.1) WILD-TYPE 30 94
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(16Q23.1) MUTATED      1    6
  DEL PEAK 26(16Q23.1) WILD-TYPE   30   94
   clus
vv  DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  0                            1                             30
  1                            6                             94
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 26(16Q23.1) MUTATED    5  1  2
  DEL PEAK 26(16Q23.1) WILD-TYPE 69  3 52
D51V6, multiclass
    clus
vv   DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  M0                            5                             69
  M1                            1                              3
  MX                            2                             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"
D51V7, binary
                                cls
clus                              0  1
  DEL PEAK 26(16Q23.1) MUTATED    1  7
  DEL PEAK 26(16Q23.1) WILD-TYPE 59 65
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(16Q23.1) MUTATED      1    7
  DEL PEAK 26(16Q23.1) WILD-TYPE   59   65
        clus
vv       DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  FEMALE                            1                             59
  MALE                              7                             65
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 26(16Q23.1) MUTATED                                     5
  DEL PEAK 26(16Q23.1) WILD-TYPE                                 108
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 26(16Q23.1) MUTATED                                       1
  DEL PEAK 26(16Q23.1) WILD-TYPE                                    13
                                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                                         5
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       1
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 26(16Q23.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         108
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        13
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 26(16Q23.1) MUTATED    5  2  0  1
  DEL PEAK 26(16Q23.1) WILD-TYPE 75 40  2  2
D51V10, multiclass
    clus
vv   DEL PEAK 26(16Q23.1) MUTATED DEL PEAK 26(16Q23.1) WILD-TYPE
  R0                            5                             75
  R1                            2                             40
  R2                            0                              2
  RX                            1                              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"
D51V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 26(16Q23.1) MUTATED       1                         0     7
  DEL PEAK 26(16Q23.1) WILD-TYPE     1                         6   113
D51V12, multiclass
                           clus
vv                          DEL PEAK 26(16Q23.1) MUTATED
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            0
  WHITE                                                7
                           clus
vv                          DEL PEAK 26(16Q23.1) WILD-TYPE
  ASIAN                                                  1
  BLACK OR AFRICAN AMERICAN                              6
  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"

Clustering(52) Variable = DEL PEAK 27(17P12) MUTATION ANALYSIS
D52V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 27(17P12) MUTATED   35  6
  DEL PEAK 27(17P12) WILD-TYPE 42 12
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                          41                           54 
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                           6                           12 
$`DEL PEAK 27(17P12) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABK TCGA-2J-AABO 
         729          676          677          969          484          440 
TCGA-2J-AABT TCGA-F2-A44G TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-A78T TCGA-H8-A6C1 
         319          153          167          385          378          396 
TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-8636 
         240           20            4           19           28            5 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-IB-7644 TCGA-IB-7649 
         194           46           11           33          347         1951 
TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A5SS 
         724         1975          648          522          300         1991 
TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUU TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-OE-A75W 
         248          181          153          127          584          110 
TCGA-PZ-A5RE TCGA-Q3-AA2A TCGA-S4-A8RM TCGA-S4-A8RO TCGA-YY-A8LH 
         247           95          397          197         1834 

$`DEL PEAK 27(17P12) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABP TCGA-2J-AABR TCGA-3E-AAAY 
        1962           80         1960          360          438         2172 
TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A7DR 
         295          360          586            4          449          166 
TCGA-H6-8124 TCGA-H6-A45N TCGA-HZ-7918 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         392          233           28            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 
           8           24           21           16            3           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A77P TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7651 
         660          491           13         1968            7         1989 
TCGA-IB-7885 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-AAUM 
        1257           75          329          635         1968            8 
TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV 
         290         1978          128          179          188          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-Q3-A5QY TCGA-RB-A7B8 
         179          164           35          155          416           36 
TCGA-RB-AA9M TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
          42         1955          844          161          164          160 

  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                           4                            3 
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                        1991                         2172 
  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE 
                         300                          199 
[1] "4.0 - 1991.0 (300.0)" "3.0 - 2172.0 (199.0)"
[1] "hr=" "1.2"
D52V2, continuous
                              vv
clus                           STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK 27(17P12) MUTATED          0        2        12        41         1
  DEL PEAK 27(17P12) WILD-TYPE        2        5        10        54         1
                              vv
clus                           STAGE IV
  DEL PEAK 27(17P12) MUTATED          2
  DEL PEAK 27(17P12) WILD-TYPE        2
D52V3, multiclass
           clus
vv          DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  STAGE IA                           0                            2
  STAGE IB                           2                            5
  STAGE IIA                         12                           10
  STAGE IIB                         41                           54
  STAGE III                          1                            1
  STAGE IV                           2                            2
[1] 6 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       4    54
  DEL PEAK 27(17P12) WILD-TYPE    11    63
D52V4, multiclass
       clus
vv      DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  T1+T2                          4                           11
  T3+T4                         54                           63
[1] 2 2
[1] FALSE
D52V5, binary
                              cls
clus                            0  1
  DEL PEAK 27(17P12) MUTATED   15 43
  DEL PEAK 27(17P12) WILD-TYPE 16 57
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 27(17P12) MUTATED     15   43
  DEL PEAK 27(17P12) WILD-TYPE   16   57
   clus
vv  DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  0                         15                           16
  1                         43                           57
[1] 2 2
[1] FALSE
                              vv
clus                           M0 M1 MX
  DEL PEAK 27(17P12) MUTATED   34  2 22
  DEL PEAK 27(17P12) WILD-TYPE 40  2 32
D52V6, multiclass
    clus
vv   DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  M0                         34                           40
  M1                          2                            2
  MX                         22                           32
[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"
D52V7, binary
                              cls
clus                            0  1
  DEL PEAK 27(17P12) MUTATED   28 30
  DEL PEAK 27(17P12) WILD-TYPE 32 42
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 27(17P12) MUTATED     28   30
  DEL PEAK 27(17P12) WILD-TYPE   32   42
        clus
vv       DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  FEMALE                         28                           32
  MALE                           30                           42
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 27(17P12) MUTATED                                    50
  DEL PEAK 27(17P12) WILD-TYPE                                  63
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 27(17P12) MUTATED                                       8
  DEL PEAK 27(17P12) WILD-TYPE                                     6
                              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                                      50
  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                                        63
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       6
  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
                              vv
clus                           R0 R1 R2 RX
  DEL PEAK 27(17P12) MUTATED   30 24  0  2
  DEL PEAK 27(17P12) WILD-TYPE 50 18  2  1
D52V10, multiclass
    clus
vv   DEL PEAK 27(17P12) MUTATED DEL PEAK 27(17P12) WILD-TYPE
  R0                         30                           50
  R1                         24                           18
  R2                          0                            2
  RX                          2                            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"
D52V11, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 27(17P12) MUTATED       1                         3    52
  DEL PEAK 27(17P12) WILD-TYPE     1                         3    68
D52V12, multiclass
                           clus
vv                          DEL PEAK 27(17P12) MUTATED
  ASIAN                                              1
  BLACK OR AFRICAN AMERICAN                          3
  WHITE                                             52
                           clus
vv                          DEL PEAK 27(17P12) WILD-TYPE
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            3
  WHITE                                               68
[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"

Clustering(53) Variable = DEL PEAK 28(17Q22) MUTATION ANALYSIS
D53V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 28(17Q22) MUTATED   21  2
  DEL PEAK 28(17Q22) WILD-TYPE 56 16
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                          23                           72 
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                           2                           16 
$`DEL PEAK 28(17Q22) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABK TCGA-2J-AABP TCGA-F2-A8YN TCGA-FB-A545 
         729          676          484          360          167          385 
TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A77O 
         240           20            4            5          194           11 
TCGA-IB-7644 TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF 
         347          724         1975          522          300          248 
TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-OE-A75W TCGA-YY-A8LH 
         153          164          127          110         1834 

$`DEL PEAK 28(17Q22) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO 
        1962           80         1960          677          969          440 
TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G 
         438          319         2172          295          360          153 
TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 
         586            4          449          378          166          392 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 
         233          396           28            8          840          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 
           8           19           24           21           28           16 
TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A77P 
           3           91          660          491           46           13 
TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 
          33         1968            7         1951         1989         1257 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UG 
         648           75          329         1991          635         1968 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS 
         181            8          290         1978          128          179 
TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
         188          210          179           35          155          584 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM 
         247          416           95           36           42          397 
TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         197         1955          844          161          164          160 

  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                           4                            3 
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                        1975                         2172 
  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE 
                         248                          240 
[1] "4.0 - 1975.0 (248.0)" "3.0 - 2172.0 (240.0)"
[1] "hr=" "1.6"
D53V2, continuous
                              vv
clus                           STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK 28(17Q22) MUTATED          0        1         6        25         0
  DEL PEAK 28(17Q22) WILD-TYPE        2        6        16        70         2
                              vv
clus                           STAGE IV
  DEL PEAK 28(17Q22) MUTATED          2
  DEL PEAK 28(17Q22) WILD-TYPE        2
D53V3, multiclass
           clus
vv          DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  STAGE IA                           0                            2
  STAGE IB                           1                            6
  STAGE IIA                          6                           16
  STAGE IIB                         25                           70
  STAGE III                          0                            2
  STAGE IV                           2                            2
[1] 6 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       3    31
  DEL PEAK 28(17Q22) WILD-TYPE    12    86
D53V4, multiclass
       clus
vv      DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  T1+T2                          3                           12
  T3+T4                         31                           86
[1] 2 2
[1] FALSE
D53V5, binary
                              cls
clus                            0  1
  DEL PEAK 28(17Q22) MUTATED    8 26
  DEL PEAK 28(17Q22) WILD-TYPE 23 74
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 28(17Q22) MUTATED      8   26
  DEL PEAK 28(17Q22) WILD-TYPE   23   74
   clus
vv  DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  0                          8                           23
  1                         26                           74
[1] 2 2
[1] FALSE
                              vv
clus                           M0 M1 MX
  DEL PEAK 28(17Q22) MUTATED   21  2 11
  DEL PEAK 28(17Q22) WILD-TYPE 53  2 43
D53V6, multiclass
    clus
vv   DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  M0                         21                           53
  M1                          2                            2
  MX                         11                           43
[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"
D53V7, binary
                              cls
clus                            0  1
  DEL PEAK 28(17Q22) MUTATED   16 18
  DEL PEAK 28(17Q22) WILD-TYPE 44 54
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 28(17Q22) MUTATED     16   18
  DEL PEAK 28(17Q22) WILD-TYPE   44   54
        clus
vv       DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  FEMALE                         16                           44
  MALE                           18                           54
[1] 2 2
[1] FALSE
                              vv
clus                           PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 28(17Q22) MUTATED                                    30
  DEL PEAK 28(17Q22) WILD-TYPE                                  83
                              vv
clus                           PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 28(17Q22) MUTATED                                       3
  DEL PEAK 28(17Q22) WILD-TYPE                                    11
                              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                                      30
  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                                        83
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      11
  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
                              vv
clus                           R0 R1 R2 RX
  DEL PEAK 28(17Q22) MUTATED   15 16  1  1
  DEL PEAK 28(17Q22) WILD-TYPE 65 26  1  2
D53V10, multiclass
    clus
vv   DEL PEAK 28(17Q22) MUTATED DEL PEAK 28(17Q22) WILD-TYPE
  R0                         15                           65
  R1                         16                           26
  R2                          1                            1
  RX                          1                            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"
D53V11, continuous
                              vv
clus                           ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 28(17Q22) MUTATED       1                         3    30
  DEL PEAK 28(17Q22) WILD-TYPE     1                         3    90
D53V12, multiclass
                           clus
vv                          DEL PEAK 28(17Q22) MUTATED
  ASIAN                                              1
  BLACK OR AFRICAN AMERICAN                          3
  WHITE                                             30
                           clus
vv                          DEL PEAK 28(17Q22) WILD-TYPE
  ASIAN                                                1
  BLACK OR AFRICAN AMERICAN                            3
  WHITE                                               90
[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"

Clustering(54) Variable = DEL PEAK 29(18P11.31) MUTATION ANALYSIS
D54V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 29(18P11.31) MUTATED   25  7
  DEL PEAK 29(18P11.31) WILD-TYPE 52 11
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                             32                              63 
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                              7                              11 
$`DEL PEAK 29(18P11.31) MUTATED`
TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-A5VM 
         484          360          438          153          586          449 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-A45N TCGA-HZ-7918 TCGA-HZ-7926 TCGA-HZ-8001 
         378          166          233           28            8           19 
TCGA-HZ-8315 TCGA-HZ-A49G TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77P TCGA-HZ-A77Q 
          28          660          194           46           13           33 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-A5SO TCGA-IB-A5SS 
         347         1951         1257         1975          329         1991 
TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-M8-A5N4 TCGA-OE-A75W 
         248          181            8          290          584          110 
TCGA-RB-AA9M TCGA-XD-AAUG 
          42          161 

$`DEL PEAK 29(18P11.31) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         969          440          319         2172          295          360 
TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HZ-7289 
         167            4          385          392          396          240 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-8002 
          20            4            8          840          361           24 
TCGA-HZ-8003 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49H 
          21           16            3            5           91          491 
TCGA-HZ-A77O TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7891 
          11         1968            7         1989          724          648 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A5ST TCGA-IB-A6UG TCGA-IB-AAUQ 
          75          522          300          635         1968         1978 
TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW 
         128          179          188          153          210          179 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-PZ-A5RE TCGA-Q3-A5QY 
         164          127           35          155          247          416 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 
          95           36          397          197         1955          844 
TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         164          160         1834 

  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                              8                               3 
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                           1991                            2172 
  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE 
                          240.5                           247.0 
[1] "8.0 - 1991.0 (240.5)" "3.0 - 2172.0 (247.0)"
[1] "hr=" "1.4"
D54V2, continuous
                                 vv
clus                              STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 29(18P11.31) MUTATED          0        3         7        26
  DEL PEAK 29(18P11.31) WILD-TYPE        2        4        15        69
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 29(18P11.31) MUTATED           1        2
  DEL PEAK 29(18P11.31) WILD-TYPE         1        2
D54V3, multiclass
           clus
vv          DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  STAGE IA                              0                               2
  STAGE IB                              3                               4
  STAGE IIA                             7                              15
  STAGE IIB                            26                              69
  STAGE III                             1                               1
  STAGE IV                              2                               2
[1] 6 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       6    33
  DEL PEAK 29(18P11.31) WILD-TYPE     9    84
D54V4, multiclass
       clus
vv      DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  T1+T2                             6                               9
  T3+T4                            33                              84
[1] 2 2
[1] FALSE
D54V5, binary
                                 cls
clus                               0  1
  DEL PEAK 29(18P11.31) MUTATED   10 28
  DEL PEAK 29(18P11.31) WILD-TYPE 21 72
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 29(18P11.31) MUTATED     10   28
  DEL PEAK 29(18P11.31) WILD-TYPE   21   72
   clus
vv  DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  0                            10                              21
  1                            28                              72
[1] 2 2
[1] FALSE
                                 vv
clus                              M0 M1 MX
  DEL PEAK 29(18P11.31) MUTATED   23  2 14
  DEL PEAK 29(18P11.31) WILD-TYPE 51  2 40
D54V6, multiclass
    clus
vv   DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  M0                            23                              51
  M1                             2                               2
  MX                            14                              40
[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"
D54V7, binary
                                 cls
clus                               0  1
  DEL PEAK 29(18P11.31) MUTATED   17 22
  DEL PEAK 29(18P11.31) WILD-TYPE 43 50
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 29(18P11.31) MUTATED     17   22
  DEL PEAK 29(18P11.31) WILD-TYPE   43   50
        clus
vv       DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  FEMALE                            17                              43
  MALE                              22                              50
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 29(18P11.31) MUTATED                                    33
  DEL PEAK 29(18P11.31) WILD-TYPE                                  80
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 29(18P11.31) MUTATED                                       4
  DEL PEAK 29(18P11.31) WILD-TYPE                                    10
                                 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                                         33
  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                                           80
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         10
  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
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 29(18P11.31) MUTATED   23 13  0  1
  DEL PEAK 29(18P11.31) WILD-TYPE 57 29  2  2
D54V10, multiclass
    clus
vv   DEL PEAK 29(18P11.31) MUTATED DEL PEAK 29(18P11.31) WILD-TYPE
  R0                            23                              57
  R1                            13                              29
  R2                             0                               2
  RX                             1                               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"
D54V11, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 29(18P11.31) MUTATED       1                         1    34
  DEL PEAK 29(18P11.31) WILD-TYPE     1                         5    86
D54V12, multiclass
                           clus
vv                          DEL PEAK 29(18P11.31) MUTATED
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                34
                           clus
vv                          DEL PEAK 29(18P11.31) WILD-TYPE
  ASIAN                                                   1
  BLACK OR AFRICAN AMERICAN                               5
  WHITE                                                  86
[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"

Clustering(55) Variable = DEL PEAK 30(18Q21.2) MUTATION ANALYSIS
D55V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 30(18Q21.2) MUTATED   55 12
  DEL PEAK 30(18Q21.2) WILD-TYPE 22  6
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                            67                             28 
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                            12                              6 
$`DEL PEAK 30(18Q21.2) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI 
         729           80          676         1960          677          969 
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABR TCGA-2J-AABT TCGA-F2-A44G TCGA-F2-A44H 
         484          440          438          319          153          586 
TCGA-F2-A8YN TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-8124 
         167          385          449          378          166          392 
TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7925 
         233          396          240           28           20          361 
TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8315 TCGA-HZ-8636 TCGA-HZ-A49G TCGA-HZ-A4BH 
           8           19           28            5          660          194 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 
          46           11           13           33         1968            7 
TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 
         347         1951          724         1257         1975          648 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A6UF 
          75          522          329          300         1991          248 
TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUU 
        1968          181            8          290         1978          153 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-AA2A 
         164          127          584          110          247           95 
TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 TCGA-XD-AAUG 
          42          397          197         1955          844          161 
TCGA-YB-A89D 
         160 

$`DEL PEAK 30(18Q21.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AABP TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-FB-A4P5 
        1962          360         2172          295          360            4 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8317 
           4            8          840           24           21           16 
TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49H TCGA-IB-7651 TCGA-IB-A5ST TCGA-IB-AAUR 
           3           91          491         1989          635          128 
TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 
         179          188          210          179           35          155 
TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-XD-AAUH TCGA-YY-A8LH 
         416           36          164         1834 

  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                             5                              3 
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                          1991                           2172 
  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE 
                           300                            179 
[1] "5.0 - 1991.0 (300.0)" "3.0 - 2172.0 (179.0)"
[1] "hr=" "1"  
D55V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 30(18Q21.2) MUTATED          0        6        17        63
  DEL PEAK 30(18Q21.2) WILD-TYPE        2        1         5        32
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 30(18Q21.2) MUTATED           2        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 IA                             0                              2
  STAGE IB                             6                              1
  STAGE IIA                           17                              5
  STAGE IIB                           63                             32
  STAGE III                            2                              0
  STAGE IV                             4                              0
[1] 6 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      11    81
  DEL PEAK 30(18Q21.2) WILD-TYPE     4    36
D55V4, multiclass
       clus
vv      DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  T1+T2                           11                              4
  T3+T4                           81                             36
[1] 2 2
[1] FALSE
D55V5, binary
                                cls
clus                              0  1
  DEL PEAK 30(18Q21.2) MUTATED   23 68
  DEL PEAK 30(18Q21.2) WILD-TYPE  8 32
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(18Q21.2) MUTATED     23   68
  DEL PEAK 30(18Q21.2) WILD-TYPE    8   32
   clus
vv  DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  0                           23                              8
  1                           68                             32
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 30(18Q21.2) MUTATED   54  4 34
  DEL PEAK 30(18Q21.2) WILD-TYPE 20  0 20
D55V6, multiclass
    clus
vv   DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  M0                           54                             20
  M1                            4                              0
  MX                           34                             20
[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"
D55V7, binary
                                cls
clus                              0  1
  DEL PEAK 30(18Q21.2) MUTATED   36 56
  DEL PEAK 30(18Q21.2) WILD-TYPE 24 16
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(18Q21.2) MUTATED     36   56
  DEL PEAK 30(18Q21.2) WILD-TYPE   24   16
        clus
vv       DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  FEMALE                           36                             24
  MALE                             56                             16
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 30(18Q21.2) MUTATED                                    80
  DEL PEAK 30(18Q21.2) WILD-TYPE                                  33
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 30(18Q21.2) MUTATED                                      10
  DEL PEAK 30(18Q21.2) WILD-TYPE                                     4
                                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                                        80
  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                                          33
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                         4
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 30(18Q21.2) MUTATED   51 33  1  3
  DEL PEAK 30(18Q21.2) WILD-TYPE 29  9  1  0
D55V10, multiclass
    clus
vv   DEL PEAK 30(18Q21.2) MUTATED DEL PEAK 30(18Q21.2) WILD-TYPE
  R0                           51                             29
  R1                           33                              9
  R2                            1                              1
  RX                            3                              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"
D55V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 30(18Q21.2) MUTATED       2                         3    84
  DEL PEAK 30(18Q21.2) WILD-TYPE     0                         3    36
D55V12, multiclass
                           clus
vv                          DEL PEAK 30(18Q21.2) MUTATED
  ASIAN                                                2
  BLACK OR AFRICAN AMERICAN                            3
  WHITE                                               84
                           clus
vv                          DEL PEAK 30(18Q21.2) WILD-TYPE
  ASIAN                                                  0
  BLACK OR AFRICAN AMERICAN                              3
  WHITE                                                 36
[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"

Clustering(56) Variable = DEL PEAK 31(19P13.3) MUTATION ANALYSIS
D56V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 31(19P13.3) MUTATED   14  3
  DEL PEAK 31(19P13.3) WILD-TYPE 63 15
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                            17                             78 
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                             3                             15 
$`DEL PEAK 31(19P13.3) MUTATED`
TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP TCGA-F2-A8YN TCGA-H6-8124 TCGA-HZ-7922 
         969          440          360          167          392            4 
TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-IB-7885 TCGA-IB-A5SS TCGA-IB-A6UF TCGA-IB-A6UG 
           5          194         1257         1991          248         1968 
TCGA-IB-AAUQ TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-US-A776 
        1978          153          164          127          844 

$`DEL PEAK 31(19P13.3) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABK TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         484          438          319         2172          295          360 
TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
         153          586            4          385          449          378 
TCGA-FB-A7DR TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 
         166          233          396          240           28           20 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
           8          840          361            8           19           24 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G 
          21           28           16            3           91          660 
TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P0 
         491           46           11           13           33         1968 
TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7886 
           7          347         1951         1989          724         1975 
TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP TCGA-IB-A5ST 
         648           75          522          329          300          635 
TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
         181            8          290          128          179          188 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
         210          179           35          155          584          110 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM 
         247          416           95           36           42          397 
TCGA-S4-A8RO TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         197         1955          161          164          160         1834 

  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                             4                              3 
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                          1991                           2172 
  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE 
                         360.0                          236.5 
[1] "4.0 - 1991.0 (360.0)" "3.0 - 2172.0 (236.5)"
[1] "hr=" "2.2"
D56V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 31(19P13.3) MUTATED          0        0         3        20
  DEL PEAK 31(19P13.3) WILD-TYPE        2        7        19        75
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 31(19P13.3) MUTATED           0        1
  DEL PEAK 31(19P13.3) WILD-TYPE         2        3
D56V3, multiclass
           clus
vv          DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            3                             19
  STAGE IIB                           20                             75
  STAGE III                            0                              2
  STAGE IV                             1                              3
[1] 6 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       0    24
  DEL PEAK 31(19P13.3) WILD-TYPE    15    93
D56V4, multiclass
       clus
vv      DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  T1+T2                            0                             15
  T3+T4                           24                             93
[1] 2 2
[1] FALSE
D56V5, binary
                                cls
clus                              0  1
  DEL PEAK 31(19P13.3) MUTATED    4 20
  DEL PEAK 31(19P13.3) WILD-TYPE 27 80
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(19P13.3) MUTATED      4   20
  DEL PEAK 31(19P13.3) WILD-TYPE   27   80
   clus
vv  DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  0                            4                             27
  1                           20                             80
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 31(19P13.3) MUTATED   16  1  7
  DEL PEAK 31(19P13.3) WILD-TYPE 58  3 47
D56V6, multiclass
    clus
vv   DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  M0                           16                             58
  M1                            1                              3
  MX                            7                             47
[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"
D56V7, binary
                                cls
clus                              0  1
  DEL PEAK 31(19P13.3) MUTATED    9 15
  DEL PEAK 31(19P13.3) WILD-TYPE 51 57
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(19P13.3) MUTATED      9   15
  DEL PEAK 31(19P13.3) WILD-TYPE   51   57
        clus
vv       DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  FEMALE                            9                             51
  MALE                             15                             57
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 31(19P13.3) MUTATED                                    20
  DEL PEAK 31(19P13.3) WILD-TYPE                                  93
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 31(19P13.3) MUTATED                                       2
  DEL PEAK 31(19P13.3) WILD-TYPE                                    12
                                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                                        20
  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                                          93
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        12
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 31(19P13.3) MUTATED   13 10  1  0
  DEL PEAK 31(19P13.3) WILD-TYPE 67 32  1  3
D56V10, multiclass
    clus
vv   DEL PEAK 31(19P13.3) MUTATED DEL PEAK 31(19P13.3) WILD-TYPE
  R0                           13                             67
  R1                           10                             32
  R2                            1                              1
  RX                            0                              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"
D56V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 31(19P13.3) MUTATED       0                         1    23
  DEL PEAK 31(19P13.3) WILD-TYPE     2                         5    97
D56V12, multiclass
                           clus
vv                          DEL PEAK 31(19P13.3) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               23
                           clus
vv                          DEL PEAK 31(19P13.3) WILD-TYPE
  ASIAN                                                  2
  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"

Clustering(57) Variable = DEL PEAK 32(19P13.2) MUTATION ANALYSIS
D57V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 32(19P13.2) MUTATED   12  1
  DEL PEAK 32(19P13.2) WILD-TYPE 65 17
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                            13                             82 
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                             1                             17 
$`DEL PEAK 32(19P13.2) MUTATED`
TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABP TCGA-F2-A8YN TCGA-H6-8124 TCGA-HZ-7922 
         969          440          360          167          392            4 
TCGA-IB-7885 TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-LB-A7SX 
        1257          248         1968          153          164          127 
TCGA-US-A776 
         844 

$`DEL PEAK 32(19P13.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABK TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         484          438          319         2172          295          360 
TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM TCGA-FB-A78T 
         153          586            4          385          449          378 
TCGA-FB-A7DR TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 TCGA-HZ-7919 
         166          233          396          240           28           20 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
           8          840          361            8           19           24 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
          21           28           16            3            5           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P 
         660          491          194           46           11           13 
TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 
          33         1968            7          347         1951         1989 
TCGA-IB-7652 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO 
         724         1975          648           75          522          329 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
         300         1991          635          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        1978          128          179          188          210          179 
TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-Q3-A5QY 
          35          155          584          110          247          416 
TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 
          95           36           42          397          197         1955 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         161          164          160         1834 

  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                             4                              3 
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                          1968                           2172 
  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE 
                         360.0                          236.5 
[1] "4.0 - 1968.0 (360.0)" "3.0 - 2172.0 (236.5)"
[1] "hr=" "2.2"
D57V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 32(19P13.2) MUTATED          0        0         3        15
  DEL PEAK 32(19P13.2) WILD-TYPE        2        7        19        80
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 32(19P13.2) MUTATED           0        0
  DEL PEAK 32(19P13.2) WILD-TYPE         2        4
D57V3, multiclass
           clus
vv          DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             0                              7
  STAGE IIA                            3                             19
  STAGE IIB                           15                             80
  STAGE III                            0                              2
  STAGE IV                             0                              4
[1] 6 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    18
  DEL PEAK 32(19P13.2) WILD-TYPE    15    99
D57V4, multiclass
       clus
vv      DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  T1+T2                            0                             15
  T3+T4                           18                             99
[1] 2 2
[1] FALSE
D57V5, binary
                                cls
clus                              0  1
  DEL PEAK 32(19P13.2) MUTATED    3 15
  DEL PEAK 32(19P13.2) WILD-TYPE 28 85
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(19P13.2) MUTATED      3   15
  DEL PEAK 32(19P13.2) WILD-TYPE   28   85
   clus
vv  DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  0                            3                             28
  1                           15                             85
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 32(19P13.2) MUTATED   13  0  5
  DEL PEAK 32(19P13.2) WILD-TYPE 61  4 49
D57V6, multiclass
    clus
vv   DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  M0                           13                             61
  M1                            0                              4
  MX                            5                             49
[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"
D57V7, binary
                                cls
clus                              0  1
  DEL PEAK 32(19P13.2) MUTATED    7 11
  DEL PEAK 32(19P13.2) WILD-TYPE 53 61
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(19P13.2) MUTATED      7   11
  DEL PEAK 32(19P13.2) WILD-TYPE   53   61
        clus
vv       DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  FEMALE                            7                             53
  MALE                             11                             61
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 32(19P13.2) MUTATED                                    15
  DEL PEAK 32(19P13.2) WILD-TYPE                                  98
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 32(19P13.2) MUTATED                                       1
  DEL PEAK 32(19P13.2) WILD-TYPE                                    13
                                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                                        15
  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                                          98
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        13
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 32(19P13.2) MUTATED   10  7  1  0
  DEL PEAK 32(19P13.2) WILD-TYPE 70 35  1  3
D57V10, multiclass
    clus
vv   DEL PEAK 32(19P13.2) MUTATED DEL PEAK 32(19P13.2) WILD-TYPE
  R0                           10                             70
  R1                            7                             35
  R2                            1                              1
  RX                            0                              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"
D57V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 32(19P13.2) MUTATED       0                         1    17
  DEL PEAK 32(19P13.2) WILD-TYPE     2                         5   103
D57V12, multiclass
                           clus
vv                          DEL PEAK 32(19P13.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            1
  WHITE                                               17
                           clus
vv                          DEL PEAK 32(19P13.2) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              5
  WHITE                                                103
[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"

Clustering(58) Variable = DEL PEAK 33(19Q13.33) MUTATION ANALYSIS
D58V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 33(19Q13.33) MUTATED   10  1
  DEL PEAK 33(19Q13.33) WILD-TYPE 67 17
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                             11                              84 
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                              1                              17 
$`DEL PEAK 33(19Q13.33) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABI TCGA-2J-AABO TCGA-FB-A7DR TCGA-HZ-A4BH TCGA-HZ-A8P0 
         729          969          440          166          194         1968 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-A5SS TCGA-IB-AAUU TCGA-US-A776 
         724         1257         1991          153          844 

$`DEL PEAK 33(19Q13.33) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABK 
        1962           80          676         1960          677          484 
TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 
         360          438          319         2172          295          360 
TCGA-F2-A44G TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
         153          586          167            4          385          449 
TCGA-FB-A78T TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 
         378          392          233          396          240           28 
TCGA-HZ-7919 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
          20            4            8          840          361            8 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
          19           24           21           28           16            3 
TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BK TCGA-HZ-A77O 
           5           91          660          491           46           11 
TCGA-HZ-A77P TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 
          13           33            7          347         1951         1989 
TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
        1975          648           75          522          329          300 
TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
         635          248         1968          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        1978          128          179          188          210          179 
TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-OE-A75W 
         164          127           35          155          584          110 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM 
         247          416           95           36           42          397 
TCGA-S4-A8RO TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D TCGA-YY-A8LH 
         197         1955          161          164          160         1834 

  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                            153                               3 
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                           1991                            2172 
  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE 
                          729.0                           221.5 
[1] "153.0 - 1991.0 (729.0)" "3.0 - 2172.0 (221.5)"  
[1] "hr=" "5"  
D58V2, continuous
                                 vv
clus                              STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 33(19Q13.33) MUTATED          0        0         3        15
  DEL PEAK 33(19Q13.33) WILD-TYPE        2        7        19        80
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 33(19Q13.33) MUTATED           0        0
  DEL PEAK 33(19Q13.33) WILD-TYPE         2        4
D58V3, multiclass
           clus
vv          DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  STAGE IA                              0                               2
  STAGE IB                              0                               7
  STAGE IIA                             3                              19
  STAGE IIB                            15                              80
  STAGE III                             0                               2
  STAGE IV                              0                               4
[1] 6 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       1    17
  DEL PEAK 33(19Q13.33) WILD-TYPE    14   100
D58V4, multiclass
       clus
vv      DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  T1+T2                             1                              14
  T3+T4                            17                             100
[1] 2 2
[1] FALSE
D58V5, binary
                                 cls
clus                               0  1
  DEL PEAK 33(19Q13.33) MUTATED    2 15
  DEL PEAK 33(19Q13.33) WILD-TYPE 29 85
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 33(19Q13.33) MUTATED      2   15
  DEL PEAK 33(19Q13.33) WILD-TYPE   29   85
   clus
vv  DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  0                             2                              29
  1                            15                              85
[1] 2 2
[1] FALSE
                                 vv
clus                              M0 M1 MX
  DEL PEAK 33(19Q13.33) MUTATED   11  0  7
  DEL PEAK 33(19Q13.33) WILD-TYPE 63  4 47
D58V6, multiclass
    clus
vv   DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  M0                            11                              63
  M1                             0                               4
  MX                             7                              47
[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"
D58V7, binary
                                 cls
clus                               0  1
  DEL PEAK 33(19Q13.33) MUTATED    4 14
  DEL PEAK 33(19Q13.33) WILD-TYPE 56 58
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 33(19Q13.33) MUTATED      4   14
  DEL PEAK 33(19Q13.33) WILD-TYPE   56   58
        clus
vv       DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  FEMALE                             4                              56
  MALE                              14                              58
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 33(19Q13.33) MUTATED                                    14
  DEL PEAK 33(19Q13.33) WILD-TYPE                                  99
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 33(19Q13.33) MUTATED                                       2
  DEL PEAK 33(19Q13.33) WILD-TYPE                                    12
                                 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                                         14
  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                                           99
  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"
D58V9, continuous
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 33(19Q13.33) MUTATED   13  5  0  0
  DEL PEAK 33(19Q13.33) WILD-TYPE 67 37  2  3
D58V10, multiclass
    clus
vv   DEL PEAK 33(19Q13.33) MUTATED DEL PEAK 33(19Q13.33) WILD-TYPE
  R0                            13                              67
  R1                             5                              37
  R2                             0                               2
  RX                             0                               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"
D58V11, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 33(19Q13.33) MUTATED       2                         1    15
  DEL PEAK 33(19Q13.33) WILD-TYPE     0                         5   105
D58V12, multiclass
                           clus
vv                          DEL PEAK 33(19Q13.33) MUTATED
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                15
                           clus
vv                          DEL PEAK 33(19Q13.33) WILD-TYPE
  ASIAN                                                   0
  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"

Clustering(59) Variable = DEL PEAK 34(21Q11.2) MUTATION ANALYSIS
D59V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 34(21Q11.2) MUTATED   27  6
  DEL PEAK 34(21Q11.2) WILD-TYPE 50 12
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                            33                             62 
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                             6                             12 
$`DEL PEAK 34(21Q11.2) MUTATED`
TCGA-2J-AABK TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABT TCGA-F2-A8YN TCGA-FB-A545 
         484          440          360          319          167          385 
TCGA-FB-A78T TCGA-H6-8124 TCGA-H8-A6C1 TCGA-HZ-7918 TCGA-HZ-7919 TCGA-HZ-7922 
         378          392          396           28           20            4 
TCGA-HZ-8636 TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-IB-7644 
           5          194           46           11           33          347 
TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-A5SP TCGA-IB-A5SS 
        1951         1989         1257         1975          300         1991 
TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-AAUP TCGA-IB-AAUU TCGA-LB-A7SX TCGA-OE-A75W 
         248         1968          290          153          127          110 
TCGA-Q3-AA2A TCGA-YB-A89D TCGA-YY-A8LH 
          95          160         1834 

$`DEL PEAK 34(21Q11.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH 
        1962          729           80          676         1960          677 
TCGA-2J-AABI TCGA-2J-AABR TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G 
         969          438         2172          295          360          153 
TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A5VM TCGA-FB-A7DR TCGA-H6-A45N TCGA-HZ-7289 
         586            4          449          166          233          240 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
           8          840          361            8           19           24 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 TCGA-HZ-A49G 
          21           28           16            3           91          660 
TCGA-HZ-A49H TCGA-HZ-A77P TCGA-HZ-A8P0 TCGA-HZ-A8P1 TCGA-IB-7652 TCGA-IB-7891 
         491           13         1968            7          724          648 
TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5ST TCGA-IB-A7M4 TCGA-IB-AAUM 
          75          522          329          635          181            8 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUV TCGA-IB-AAUW 
        1978          128          179          188          210          179 
TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY 
         164           35          155          584          247          416 
TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-US-A776 
          36           42          397          197         1955          844 
TCGA-XD-AAUG TCGA-XD-AAUH 
         161          164 

  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                             4                              3 
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                          1991                           2172 
  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE 
                         300.0                          221.5 
[1] "4.0 - 1991.0 (300.0)" "3.0 - 2172.0 (221.5)"
[1] "hr=" "1.6"
D59V2, continuous
                                vv
clus                             STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 34(21Q11.2) MUTATED          0        1         5        36
  DEL PEAK 34(21Q11.2) WILD-TYPE        2        6        17        59
                                vv
clus                             STAGE III STAGE IV
  DEL PEAK 34(21Q11.2) MUTATED           0        2
  DEL PEAK 34(21Q11.2) WILD-TYPE         2        2
D59V3, multiclass
           clus
vv          DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  STAGE IA                             0                              2
  STAGE IB                             1                              6
  STAGE IIA                            5                             17
  STAGE IIB                           36                             59
  STAGE III                            0                              2
  STAGE IV                             2                              2
[1] 6 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       1    43
  DEL PEAK 34(21Q11.2) WILD-TYPE    14    74
D59V4, multiclass
       clus
vv      DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  T1+T2                            1                             14
  T3+T4                           43                             74
[1] 2 2
[1] FALSE
D59V5, binary
                                cls
clus                              0  1
  DEL PEAK 34(21Q11.2) MUTATED    6 38
  DEL PEAK 34(21Q11.2) WILD-TYPE 25 62
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(21Q11.2) MUTATED      6   38
  DEL PEAK 34(21Q11.2) WILD-TYPE   25   62
   clus
vv  DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  0                            6                             25
  1                           38                             62
[1] 2 2
[1] FALSE
                                vv
clus                             M0 M1 MX
  DEL PEAK 34(21Q11.2) MUTATED   26  2 16
  DEL PEAK 34(21Q11.2) WILD-TYPE 48  2 38
D59V6, multiclass
    clus
vv   DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  M0                           26                             48
  M1                            2                              2
  MX                           16                             38
[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"
D59V7, binary
                                cls
clus                              0  1
  DEL PEAK 34(21Q11.2) MUTATED   22 22
  DEL PEAK 34(21Q11.2) WILD-TYPE 38 50
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(21Q11.2) MUTATED     22   22
  DEL PEAK 34(21Q11.2) WILD-TYPE   38   50
        clus
vv       DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  FEMALE                           22                             38
  MALE                             22                             50
[1] 2 2
[1] FALSE
                                vv
clus                             PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 34(21Q11.2) MUTATED                                    40
  DEL PEAK 34(21Q11.2) WILD-TYPE                                  73
                                vv
clus                             PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 34(21Q11.2) MUTATED                                       3
  DEL PEAK 34(21Q11.2) WILD-TYPE                                    11
                                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                                        40
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                            0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                         1
                                                  clus
vv                                                 DEL PEAK 34(21Q11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                          73
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        11
  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
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 34(21Q11.2) MUTATED   23 19  0  1
  DEL PEAK 34(21Q11.2) WILD-TYPE 57 23  2  2
D59V10, multiclass
    clus
vv   DEL PEAK 34(21Q11.2) MUTATED DEL PEAK 34(21Q11.2) WILD-TYPE
  R0                           23                             57
  R1                           19                             23
  R2                            0                              2
  RX                            1                              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"
D59V11, continuous
                                vv
clus                             ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 34(21Q11.2) MUTATED       0                         2    41
  DEL PEAK 34(21Q11.2) WILD-TYPE     2                         4    79
D59V12, multiclass
                           clus
vv                          DEL PEAK 34(21Q11.2) MUTATED
  ASIAN                                                0
  BLACK OR AFRICAN AMERICAN                            2
  WHITE                                               41
                           clus
vv                          DEL PEAK 34(21Q11.2) WILD-TYPE
  ASIAN                                                  2
  BLACK OR AFRICAN AMERICAN                              4
  WHITE                                                 79
[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"

Clustering(60) Variable = DEL PEAK 35(22Q13.31) MUTATION ANALYSIS
D60V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 35(22Q13.31) MUTATED   27  5
  DEL PEAK 35(22Q13.31) WILD-TYPE 50 13
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                             32                              63 
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                              5                              13 
$`DEL PEAK 35(22Q13.31) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-2J-AABT 
          80         1960          677          969          440          319 
TCGA-F2-A44H TCGA-F2-A8YN TCGA-FB-A78T TCGA-FB-A7DR TCGA-HZ-7919 TCGA-HZ-8636 
         586          167          378          166           20            5 
TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 
         194           46           11           33            7          347 
TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A6UG 
        1975          648          522          300          248         1968 
TCGA-IB-A7M4 TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-RB-AA9M 
         181          153          164          110          247           42 
TCGA-YB-A89D TCGA-YY-A8LH 
         160         1834 

$`DEL PEAK 35(22Q13.31) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR 
        1962          729          676          484          360          438 
TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-FB-A4P5 TCGA-FB-A545 
        2172          295          360          153            4          385 
TCGA-FB-A5VM TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7918 
         449          392          233          396          240           28 
TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 
           4            8          840          361            8           19 
TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8638 
          24           21           28           16            3           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A77P TCGA-HZ-A8P0 TCGA-IB-7649 TCGA-IB-7651 
         660          491           13         1968         1951         1989 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SS TCGA-IB-A5ST 
         724         1257           75          329         1991          635 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
           8          290         1978          128          179          188 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
         210          179          127           35          155          584 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 
         416           95           36          397          197         1955 
TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH 
         844          161          164 

  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                              5                               3 
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                           1975                            2172 
  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE 
                          220.5                           290.0 
[1] "5.0 - 1975.0 (220.5)" "3.0 - 2172.0 (290.0)"
[1] "hr=" "1.2"
D60V2, continuous
                                 vv
clus                              STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 35(22Q13.31) MUTATED          0        1         8        32
  DEL PEAK 35(22Q13.31) WILD-TYPE        2        6        14        63
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 35(22Q13.31) MUTATED           0        2
  DEL PEAK 35(22Q13.31) WILD-TYPE         2        2
D60V3, multiclass
           clus
vv          DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  STAGE IA                              0                               2
  STAGE IB                              1                               6
  STAGE IIA                             8                              14
  STAGE IIB                            32                              63
  STAGE III                             0                               2
  STAGE IV                              2                               2
[1] 6 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       4    39
  DEL PEAK 35(22Q13.31) WILD-TYPE    11    78
D60V4, multiclass
       clus
vv      DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  T1+T2                             4                              11
  T3+T4                            39                              78
[1] 2 2
[1] FALSE
D60V5, binary
                                 cls
clus                               0  1
  DEL PEAK 35(22Q13.31) MUTATED    9 33
  DEL PEAK 35(22Q13.31) WILD-TYPE 22 67
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 35(22Q13.31) MUTATED      9   33
  DEL PEAK 35(22Q13.31) WILD-TYPE   22   67
   clus
vv  DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  0                             9                              22
  1                            33                              67
[1] 2 2
[1] FALSE
                                 vv
clus                              M0 M1 MX
  DEL PEAK 35(22Q13.31) MUTATED   25  2 16
  DEL PEAK 35(22Q13.31) WILD-TYPE 49  2 38
D60V6, multiclass
    clus
vv   DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  M0                            25                              49
  M1                             2                               2
  MX                            16                              38
[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"
D60V7, binary
                                 cls
clus                               0  1
  DEL PEAK 35(22Q13.31) MUTATED   16 27
  DEL PEAK 35(22Q13.31) WILD-TYPE 44 45
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 35(22Q13.31) MUTATED     16   27
  DEL PEAK 35(22Q13.31) WILD-TYPE   44   45
        clus
vv       DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  FEMALE                            16                              44
  MALE                              27                              45
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 35(22Q13.31) MUTATED                                    37
  DEL PEAK 35(22Q13.31) WILD-TYPE                                  76
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 35(22Q13.31) MUTATED                                       5
  DEL PEAK 35(22Q13.31) WILD-TYPE                                     9
                                 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                                         37
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 DEL PEAK 35(22Q13.31) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                           76
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                          9
  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
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 35(22Q13.31) MUTATED   25 16  1  0
  DEL PEAK 35(22Q13.31) WILD-TYPE 55 26  1  3
D60V10, multiclass
    clus
vv   DEL PEAK 35(22Q13.31) MUTATED DEL PEAK 35(22Q13.31) WILD-TYPE
  R0                            25                              55
  R1                            16                              26
  R2                             1                               1
  RX                             0                               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"
D60V11, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 35(22Q13.31) MUTATED       1                         1    41
  DEL PEAK 35(22Q13.31) WILD-TYPE     1                         5    79
D60V12, multiclass
                           clus
vv                          DEL PEAK 35(22Q13.31) MUTATED
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                41
                           clus
vv                          DEL PEAK 35(22Q13.31) WILD-TYPE
  ASIAN                                                   1
  BLACK OR AFRICAN AMERICAN                               5
  WHITE                                                  79
[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"

Clustering(61) Variable = DEL PEAK 36(22Q13.32) MUTATION ANALYSIS
D61V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 36(22Q13.32) MUTATED   26  6
  DEL PEAK 36(22Q13.32) WILD-TYPE 51 12
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                             32                              63 
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                              6                              12 
$`DEL PEAK 36(22Q13.32) MUTATED`
TCGA-2J-AAB8 TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABI TCGA-2J-AABO TCGA-F2-A44H 
          80         1960          677          969          440          586 
TCGA-F2-A8YN TCGA-FB-A78T TCGA-FB-A7DR TCGA-HZ-7919 TCGA-HZ-8636 TCGA-HZ-A4BH 
         167          378          166           20            5          194 
TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77Q TCGA-HZ-A8P1 TCGA-IB-7644 TCGA-IB-7649 
          46           11           33            7          347         1951 
TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8127 TCGA-IB-A5SP TCGA-IB-A6UF TCGA-IB-A6UG 
        1975          648          522          300          248         1968 
TCGA-IB-A7M4 TCGA-IB-AAUU TCGA-L1-A7W4 TCGA-OE-A75W TCGA-PZ-A5RE TCGA-RB-AA9M 
         181          153          164          110          247           42 
TCGA-YB-A89D TCGA-YY-A8LH 
         160         1834 

$`DEL PEAK 36(22Q13.32) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB4 TCGA-2J-AABE TCGA-2J-AABK TCGA-2J-AABP TCGA-2J-AABR 
        1962          729          676          484          360          438 
TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 TCGA-F2-7273 TCGA-F2-A44G TCGA-FB-A4P5 
         319         2172          295          360          153            4 
TCGA-FB-A545 TCGA-FB-A5VM TCGA-H6-8124 TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 
         385          449          392          233          396          240 
TCGA-HZ-7918 TCGA-HZ-7922 TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 
          28            4            8          840          361            8 
TCGA-HZ-8001 TCGA-HZ-8002 TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 
          19           24           21           28           16            3 
TCGA-HZ-8638 TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A77P TCGA-HZ-A8P0 TCGA-IB-7651 
          91          660          491           13         1968         1989 
TCGA-IB-7652 TCGA-IB-7885 TCGA-IB-8126 TCGA-IB-A5SO TCGA-IB-A5SS TCGA-IB-A5ST 
         724         1257           75          329         1991          635 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
           8          290         1978          128          179          188 
TCGA-IB-AAUV TCGA-IB-AAUW TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
         210          179          127           35          155          584 
TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 
         416           95           36          397          197         1955 
TCGA-US-A776 TCGA-XD-AAUG TCGA-XD-AAUH 
         844          161          164 

  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                              5                               3 
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                           1975                            2172 
  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE 
                          220.5                           290.0 
[1] "5.0 - 1975.0 (220.5)" "3.0 - 2172.0 (290.0)"
[1] "hr=" "1.5"
D61V2, continuous
                                 vv
clus                              STAGE IA STAGE IB STAGE IIA STAGE IIB
  DEL PEAK 36(22Q13.32) MUTATED          0        1         8        31
  DEL PEAK 36(22Q13.32) WILD-TYPE        2        6        14        64
                                 vv
clus                              STAGE III STAGE IV
  DEL PEAK 36(22Q13.32) MUTATED           0        2
  DEL PEAK 36(22Q13.32) WILD-TYPE         2        2
D61V3, multiclass
           clus
vv          DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  STAGE IA                              0                               2
  STAGE IB                              1                               6
  STAGE IIA                             8                              14
  STAGE IIB                            31                              64
  STAGE III                             0                               2
  STAGE IV                              2                               2
[1] 6 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       4    38
  DEL PEAK 36(22Q13.32) WILD-TYPE    11    79
D61V4, multiclass
       clus
vv      DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  T1+T2                             4                              11
  T3+T4                            38                              79
[1] 2 2
[1] FALSE
D61V5, binary
                                 cls
clus                               0  1
  DEL PEAK 36(22Q13.32) MUTATED    9 32
  DEL PEAK 36(22Q13.32) WILD-TYPE 22 68
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 36(22Q13.32) MUTATED      9   32
  DEL PEAK 36(22Q13.32) WILD-TYPE   22   68
   clus
vv  DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  0                             9                              22
  1                            32                              68
[1] 2 2
[1] FALSE
                                 vv
clus                              M0 M1 MX
  DEL PEAK 36(22Q13.32) MUTATED   25  2 15
  DEL PEAK 36(22Q13.32) WILD-TYPE 49  2 39
D61V6, multiclass
    clus
vv   DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  M0                            25                              49
  M1                             2                               2
  MX                            15                              39
[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"
D61V7, binary
                                 cls
clus                               0  1
  DEL PEAK 36(22Q13.32) MUTATED   15 27
  DEL PEAK 36(22Q13.32) WILD-TYPE 45 45
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 36(22Q13.32) MUTATED     15   27
  DEL PEAK 36(22Q13.32) WILD-TYPE   45   45
        clus
vv       DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  FEMALE                            15                              45
  MALE                              27                              45
[1] 2 2
[1] FALSE
                                 vv
clus                              PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 36(22Q13.32) MUTATED                                    36
  DEL PEAK 36(22Q13.32) WILD-TYPE                                  77
                                 vv
clus                              PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 36(22Q13.32) MUTATED                                       5
  DEL PEAK 36(22Q13.32) WILD-TYPE                                     9
                                 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                                         36
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                        5
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                             1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                          0
                                                  clus
vv                                                 DEL PEAK 36(22Q13.32) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                           77
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                          9
  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
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 36(22Q13.32) MUTATED   23 17  1  0
  DEL PEAK 36(22Q13.32) WILD-TYPE 57 25  1  3
D61V10, multiclass
    clus
vv   DEL PEAK 36(22Q13.32) MUTATED DEL PEAK 36(22Q13.32) WILD-TYPE
  R0                            23                              57
  R1                            17                              25
  R2                             1                               1
  RX                             0                               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"
D61V11, continuous
                                 vv
clus                              ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 36(22Q13.32) MUTATED       1                         1    39
  DEL PEAK 36(22Q13.32) WILD-TYPE     1                         5    81
D61V12, multiclass
                           clus
vv                          DEL PEAK 36(22Q13.32) MUTATED
  ASIAN                                                 1
  BLACK OR AFRICAN AMERICAN                             1
  WHITE                                                39
                           clus
vv                          DEL PEAK 36(22Q13.32) WILD-TYPE
  ASIAN                                                   1
  BLACK OR AFRICAN AMERICAN                               5
  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"

Clustering(62) Variable = DEL PEAK 37(XP21.1) MUTATION ANALYSIS
D62V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 37(XP21.1) MUTATED   12  2
  DEL PEAK 37(XP21.1) WILD-TYPE 65 16
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                           14                            81 
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                            2                            16 
$`DEL PEAK 37(XP21.1) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABI TCGA-F2-A8YN TCGA-FB-A78T TCGA-H6-8124 TCGA-HZ-7918 
         729          969          167          378          392           28 
TCGA-HZ-8001 TCGA-HZ-A8P1 TCGA-IB-A6UG TCGA-OE-A75W TCGA-Q3-AA2A TCGA-S4-A8RO 
          19            7         1968          110           95          197 
TCGA-US-A774 TCGA-YY-A8LH 
        1955         1834 

$`DEL PEAK 37(XP21.1) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABK 
        1962           80          676         1960          677          484 
TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         440          360          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
         360          153          586            4          385          449 
TCGA-FB-A7DR TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7289 TCGA-HZ-7919 TCGA-HZ-7922 
         166          233          396          240           20            4 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8002 TCGA-HZ-8003 
           8          840          361            8           24           21 
TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 TCGA-HZ-A49G 
          28           16            3            5           91          660 
TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P TCGA-HZ-A77Q 
         491          194           46           11           13           33 
TCGA-HZ-A8P0 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 TCGA-IB-7885 
        1968          347         1951         1989          724         1257 
TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO TCGA-IB-A5SP 
        1975          648           75          522          329          300 
TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A7M4 TCGA-IB-AAUM TCGA-IB-AAUP 
        1991          635          248          181            8          290 
TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT TCGA-IB-AAUU TCGA-IB-AAUV 
        1978          128          179          188          153          210 
TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A7SX TCGA-LB-A8F3 TCGA-LB-A9Q5 TCGA-M8-A5N4 
         179          164          127           35          155          584 
TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-RB-A7B8 TCGA-RB-AA9M TCGA-S4-A8RM TCGA-US-A776 
         247          416           36           42          397          844 
TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         161          164          160 

  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                            7                             3 
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                         1968                          2172 
  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE 
                        287.5                         247.0 
[1] "7.0 - 1968.0 (287.5)" "3.0 - 2172.0 (247.0)"
[1] "hr=" "1.1"
D62V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK 37(XP21.1) MUTATED          0        3         4        13         1
  DEL PEAK 37(XP21.1) WILD-TYPE        2        4        18        82         1
                               vv
clus                            STAGE IV
  DEL PEAK 37(XP21.1) MUTATED          0
  DEL PEAK 37(XP21.1) WILD-TYPE        4
D62V3, multiclass
           clus
vv          DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            3                             4
  STAGE IIA                           4                            18
  STAGE IIB                          13                            82
  STAGE III                           1                             1
  STAGE IV                            0                             4
[1] 6 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       3    18
  DEL PEAK 37(XP21.1) WILD-TYPE    12    99
D62V4, multiclass
       clus
vv      DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  T1+T2                           3                            12
  T3+T4                          18                            99
[1] 2 2
[1] FALSE
D62V5, binary
                               cls
clus                             0  1
  DEL PEAK 37(XP21.1) MUTATED    7 14
  DEL PEAK 37(XP21.1) WILD-TYPE 24 86
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 37(XP21.1) MUTATED      7   14
  DEL PEAK 37(XP21.1) WILD-TYPE   24   86
   clus
vv  DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  0                           7                            24
  1                          14                            86
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK 37(XP21.1) MUTATED   11  0 10
  DEL PEAK 37(XP21.1) WILD-TYPE 63  4 44
D62V6, multiclass
    clus
vv   DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  M0                          11                            63
  M1                           0                             4
  MX                          10                            44
[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"
D62V7, binary
                               cls
clus                             0  1
  DEL PEAK 37(XP21.1) MUTATED    9 12
  DEL PEAK 37(XP21.1) WILD-TYPE 51 60
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 37(XP21.1) MUTATED      9   12
  DEL PEAK 37(XP21.1) WILD-TYPE   51   60
        clus
vv       DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  FEMALE                           9                            51
  MALE                            12                            60
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 37(XP21.1) MUTATED                                    18
  DEL PEAK 37(XP21.1) WILD-TYPE                                  95
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 37(XP21.1) MUTATED                                       3
  DEL PEAK 37(XP21.1) WILD-TYPE                                    11
                               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                                       18
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      3
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           0
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 37(XP21.1) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                         95
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       11
  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
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 37(XP21.1) MUTATED   16  4  0  1
  DEL PEAK 37(XP21.1) WILD-TYPE 64 38  2  2
D62V10, multiclass
    clus
vv   DEL PEAK 37(XP21.1) MUTATED DEL PEAK 37(XP21.1) WILD-TYPE
  R0                          16                            64
  R1                           4                            38
  R2                           0                             2
  RX                           1                             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"
D62V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 37(XP21.1) MUTATED       0                         0    21
  DEL PEAK 37(XP21.1) WILD-TYPE     2                         6    99
D62V12, multiclass
                           clus
vv                          DEL PEAK 37(XP21.1) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           0
  WHITE                                              21
                           clus
vv                          DEL PEAK 37(XP21.1) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             6
  WHITE                                                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(63) Variable = DEL PEAK 38(XQ11.2) MUTATION ANALYSIS
D63V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 38(XQ11.2) MUTATED   11  0
  DEL PEAK 38(XQ11.2) WILD-TYPE 66 18
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                           11                            84 
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                            0                            18 
$`DEL PEAK 38(XQ11.2) MUTATED`
TCGA-2J-AAB4 TCGA-2J-AABI TCGA-F2-A8YN TCGA-H6-8124 TCGA-HZ-7289 TCGA-HZ-7918 
         729          969          167          392          240           28 
TCGA-HZ-A8P1 TCGA-LB-A7SX TCGA-OE-A75W TCGA-US-A776 TCGA-YY-A8LH 
           7          127          110          844         1834 

$`DEL PEAK 38(XQ11.2) WILD-TYPE`
TCGA-2J-AAB1 TCGA-2J-AAB8 TCGA-2J-AABE TCGA-2J-AABF TCGA-2J-AABH TCGA-2J-AABK 
        1962           80          676         1960          677          484 
TCGA-2J-AABO TCGA-2J-AABP TCGA-2J-AABR TCGA-2J-AABT TCGA-3E-AAAY TCGA-F2-6880 
         440          360          438          319         2172          295 
TCGA-F2-7273 TCGA-F2-A44G TCGA-F2-A44H TCGA-FB-A4P5 TCGA-FB-A545 TCGA-FB-A5VM 
         360          153          586            4          385          449 
TCGA-FB-A78T TCGA-FB-A7DR TCGA-H6-A45N TCGA-H8-A6C1 TCGA-HZ-7919 TCGA-HZ-7922 
         378          166          233          396           20            4 
TCGA-HZ-7923 TCGA-HZ-7924 TCGA-HZ-7925 TCGA-HZ-7926 TCGA-HZ-8001 TCGA-HZ-8002 
           8          840          361            8           19           24 
TCGA-HZ-8003 TCGA-HZ-8315 TCGA-HZ-8317 TCGA-HZ-8519 TCGA-HZ-8636 TCGA-HZ-8638 
          21           28           16            3            5           91 
TCGA-HZ-A49G TCGA-HZ-A49H TCGA-HZ-A4BH TCGA-HZ-A4BK TCGA-HZ-A77O TCGA-HZ-A77P 
         660          491          194           46           11           13 
TCGA-HZ-A77Q TCGA-HZ-A8P0 TCGA-IB-7644 TCGA-IB-7649 TCGA-IB-7651 TCGA-IB-7652 
          33         1968          347         1951         1989          724 
TCGA-IB-7885 TCGA-IB-7886 TCGA-IB-7891 TCGA-IB-8126 TCGA-IB-8127 TCGA-IB-A5SO 
        1257         1975          648           75          522          329 
TCGA-IB-A5SP TCGA-IB-A5SS TCGA-IB-A5ST TCGA-IB-A6UF TCGA-IB-A6UG TCGA-IB-A7M4 
         300         1991          635          248         1968          181 
TCGA-IB-AAUM TCGA-IB-AAUP TCGA-IB-AAUQ TCGA-IB-AAUR TCGA-IB-AAUS TCGA-IB-AAUT 
           8          290         1978          128          179          188 
TCGA-IB-AAUU TCGA-IB-AAUV TCGA-IB-AAUW TCGA-L1-A7W4 TCGA-LB-A8F3 TCGA-LB-A9Q5 
         153          210          179          164           35          155 
TCGA-M8-A5N4 TCGA-PZ-A5RE TCGA-Q3-A5QY TCGA-Q3-AA2A TCGA-RB-A7B8 TCGA-RB-AA9M 
         584          247          416           95           36           42 
TCGA-S4-A8RM TCGA-S4-A8RO TCGA-US-A774 TCGA-XD-AAUG TCGA-XD-AAUH TCGA-YB-A89D 
         397          197         1955          161          164          160 

  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                            7                             3 
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                         1834                          2172 
  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE 
                        240.0                         247.5 
[1] "7.0 - 1834.0 (240.0)" "3.0 - 2172.0 (247.5)"
[1] "hr="   "8e+07"
D63V2, continuous
                               vv
clus                            STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE III
  DEL PEAK 38(XQ11.2) MUTATED          0        2         4        10         0
  DEL PEAK 38(XQ11.2) WILD-TYPE        2        5        18        85         2
                               vv
clus                            STAGE IV
  DEL PEAK 38(XQ11.2) MUTATED          0
  DEL PEAK 38(XQ11.2) WILD-TYPE        4
D63V3, multiclass
           clus
vv          DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  STAGE IA                            0                             2
  STAGE IB                            2                             5
  STAGE IIA                           4                            18
  STAGE IIB                          10                            85
  STAGE III                           0                             2
  STAGE IV                            0                             4
[1] 6 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       3    13
  DEL PEAK 38(XQ11.2) WILD-TYPE    12   104
D63V4, multiclass
       clus
vv      DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  T1+T2                           3                            12
  T3+T4                          13                           104
[1] 2 2
[1] FALSE
D63V5, binary
                               cls
clus                             0  1
  DEL PEAK 38(XQ11.2) MUTATED    6 10
  DEL PEAK 38(XQ11.2) WILD-TYPE 25 90
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 38(XQ11.2) MUTATED      6   10
  DEL PEAK 38(XQ11.2) WILD-TYPE   25   90
   clus
vv  DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  0                           6                            25
  1                          10                            90
[1] 2 2
[1] FALSE
                               vv
clus                            M0 M1 MX
  DEL PEAK 38(XQ11.2) MUTATED   11  0  5
  DEL PEAK 38(XQ11.2) WILD-TYPE 63  4 49
D63V6, multiclass
    clus
vv   DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  M0                          11                            63
  M1                           0                             4
  MX                           5                            49
[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"
D63V7, binary
                               cls
clus                             0  1
  DEL PEAK 38(XQ11.2) MUTATED    5 11
  DEL PEAK 38(XQ11.2) WILD-TYPE 55 61
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 38(XQ11.2) MUTATED      5   11
  DEL PEAK 38(XQ11.2) WILD-TYPE   55   61
        clus
vv       DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  FEMALE                           5                            55
  MALE                            11                            61
[1] 2 2
[1] FALSE
                               vv
clus                            PANCREAS-ADENOCARCINOMA DUCTAL TYPE
  DEL PEAK 38(XQ11.2) MUTATED                                    11
  DEL PEAK 38(XQ11.2) WILD-TYPE                                 102
                               vv
clus                            PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE
  DEL PEAK 38(XQ11.2) MUTATED                                       4
  DEL PEAK 38(XQ11.2) WILD-TYPE                                    10
                               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                                       11
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                      4
  PANCREAS-COLLOID (MUCINOUS NON-CYSTIC) CARCINOMA                           1
  PANCREAS-UNDIFFERENTIATED CARCINOMA                                        0
                                                  clus
vv                                                 DEL PEAK 38(XQ11.2) WILD-TYPE
  PANCREAS-ADENOCARCINOMA DUCTAL TYPE                                        102
  PANCREAS-ADENOCARCINOMA-OTHER SUBTYPE                                       10
  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
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 38(XQ11.2) MUTATED   11  4  0  1
  DEL PEAK 38(XQ11.2) WILD-TYPE 69 38  2  2
D63V10, multiclass
    clus
vv   DEL PEAK 38(XQ11.2) MUTATED DEL PEAK 38(XQ11.2) WILD-TYPE
  R0                          11                            69
  R1                           4                            38
  R2                           0                             2
  RX                           1                             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"
D63V11, continuous
                               vv
clus                            ASIAN BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 38(XQ11.2) MUTATED       0                         2    14
  DEL PEAK 38(XQ11.2) WILD-TYPE     2                         4   106
D63V12, multiclass
                           clus
vv                          DEL PEAK 38(XQ11.2) MUTATED
  ASIAN                                               0
  BLACK OR AFRICAN AMERICAN                           2
  WHITE                                              14
                           clus
vv                          DEL PEAK 38(XQ11.2) WILD-TYPE
  ASIAN                                                 2
  BLACK OR AFRICAN AMERICAN                             4
  WHITE                                               106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
