[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"        "-oTPCPG-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/PCPG-TP/10006138/PCPG-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/PCPG-TP/10013785/transformed.cor.cli.txt"

nPatients in clinical file=61, in cluster file=160, common to both=57
[1] "Reduce the number of clustering variables from 30 to 28."
[1] 28 57
[1] "AMP PEAK 1(1Q21.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 1(1Q21.3) MUTATED AMP PEAK 1(1Q21.3) WILD-TYPE 
                           7                           50 
  AMP PEAK 1(1Q21.3) MUTATED AMP PEAK 1(1Q21.3) WILD-TYPE 
                           7                           50 
[1] "AMP PEAK 2(4Q25) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 2(4Q25) MUTATED AMP PEAK 2(4Q25) WILD-TYPE 
                         3                         54 
  AMP PEAK 2(4Q25) MUTATED AMP PEAK 2(4Q25) WILD-TYPE 
                         3                         54 
[1] "AMP PEAK 3(4Q31.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 3(4Q31.1) MUTATED AMP PEAK 3(4Q31.1) WILD-TYPE 
                           4                           53 
  AMP PEAK 3(4Q31.1) MUTATED AMP PEAK 3(4Q31.1) WILD-TYPE 
                           4                           53 
[1] "AMP PEAK 4(11P15.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 4(11P15.2) MUTATED AMP PEAK 4(11P15.2) WILD-TYPE 
                            5                            52 
  AMP PEAK 4(11P15.2) MUTATED AMP PEAK 4(11P15.2) WILD-TYPE 
                            5                            52 
[1] "AMP PEAK 5(12Q13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 5(12Q13.3) MUTATED AMP PEAK 5(12Q13.3) WILD-TYPE 
                            8                            49 
  AMP PEAK 5(12Q13.3) MUTATED AMP PEAK 5(12Q13.3) WILD-TYPE 
                            8                            49 
[1] "AMP PEAK 6(14Q24.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 6(14Q24.3) MUTATED AMP PEAK 6(14Q24.3) WILD-TYPE 
                            6                            51 
  AMP PEAK 6(14Q24.3) MUTATED AMP PEAK 6(14Q24.3) WILD-TYPE 
                            6                            51 
[1] "AMP PEAK 7(17Q21.31) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 7(17Q21.31) MUTATED AMP PEAK 7(17Q21.31) WILD-TYPE 
                             4                             53 
  AMP PEAK 7(17Q21.31) MUTATED AMP PEAK 7(17Q21.31) WILD-TYPE 
                             4                             53 
[1] "DEL PEAK  1(1P12) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  1(1P12) MUTATED DEL PEAK  1(1P12) WILD-TYPE 
                         40                          17 
  DEL PEAK  1(1P12) MUTATED DEL PEAK  1(1P12) WILD-TYPE 
                         40                          17 
[1] "DEL PEAK  2(1Q44) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  2(1Q44) MUTATED DEL PEAK  2(1Q44) WILD-TYPE 
                          5                          52 
  DEL PEAK  2(1Q44) MUTATED DEL PEAK  2(1Q44) WILD-TYPE 
                          5                          52 
[1] "DEL PEAK  3(2Q34) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  3(2Q34) MUTATED DEL PEAK  3(2Q34) WILD-TYPE 
                          3                          54 
  DEL PEAK  3(2Q34) MUTATED DEL PEAK  3(2Q34) WILD-TYPE 
                          3                          54 
[1] "DEL PEAK  4(3P24.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  4(3P24.1) MUTATED DEL PEAK  4(3P24.1) WILD-TYPE 
                           25                            32 
  DEL PEAK  4(3P24.1) MUTATED DEL PEAK  4(3P24.1) WILD-TYPE 
                           25                            32 
[1] "DEL PEAK  5(3Q26.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  5(3Q26.1) MUTATED DEL PEAK  5(3Q26.1) WILD-TYPE 
                           41                            16 
  DEL PEAK  5(3Q26.1) MUTATED DEL PEAK  5(3Q26.1) WILD-TYPE 
                           41                            16 
[1] "DEL PEAK  6(4Q22.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                            8                            49 
  DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE 
                            8                            49 
[1] "DEL PEAK  7(4Q35.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE 
                            7                            50 
  DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE 
                            7                            50 
[1] "DEL PEAK  8(5Q15) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  8(5Q15) MUTATED DEL PEAK  8(5Q15) WILD-TYPE 
                          6                          51 
  DEL PEAK  8(5Q15) MUTATED DEL PEAK  8(5Q15) WILD-TYPE 
                          6                          51 
[1] "DEL PEAK  9(6P12.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  9(6P12.3) MUTATED DEL PEAK  9(6P12.3) WILD-TYPE 
                            5                            52 
  DEL PEAK  9(6P12.3) MUTATED DEL PEAK  9(6P12.3) WILD-TYPE 
                            5                            52 
[1] "DEL PEAK 10(6Q16.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 10(6Q16.1) MUTATED DEL PEAK 10(6Q16.1) WILD-TYPE 
                            9                            48 
  DEL PEAK 10(6Q16.1) MUTATED DEL PEAK 10(6Q16.1) WILD-TYPE 
                            9                            48 
[1] "DEL PEAK 12(8P22) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 12(8P22) MUTATED DEL PEAK 12(8P22) WILD-TYPE 
                          8                          49 
  DEL PEAK 12(8P22) MUTATED DEL PEAK 12(8P22) WILD-TYPE 
                          8                          49 
[1] "DEL PEAK 13(9P24.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 13(9P24.2) MUTATED DEL PEAK 13(9P24.2) WILD-TYPE 
                            4                            53 
  DEL PEAK 13(9P24.2) MUTATED DEL PEAK 13(9P24.2) WILD-TYPE 
                            4                            53 
[1] "DEL PEAK 14(9Q21.12) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 14(9Q21.12) MUTATED DEL PEAK 14(9Q21.12) WILD-TYPE 
                             6                             51 
  DEL PEAK 14(9Q21.12) MUTATED DEL PEAK 14(9Q21.12) WILD-TYPE 
                             6                             51 
[1] "DEL PEAK 15(11P15.4) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 15(11P15.4) MUTATED DEL PEAK 15(11P15.4) WILD-TYPE 
                            19                             38 
  DEL PEAK 15(11P15.4) MUTATED DEL PEAK 15(11P15.4) WILD-TYPE 
                            19                             38 
[1] "DEL PEAK 16(11Q22.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 16(11Q22.1) MUTATED DEL PEAK 16(11Q22.1) WILD-TYPE 
                            16                             41 
  DEL PEAK 16(11Q22.1) MUTATED DEL PEAK 16(11Q22.1) WILD-TYPE 
                            16                             41 
[1] "DEL PEAK 17(12Q21.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 17(12Q21.33) MUTATED DEL PEAK 17(12Q21.33) WILD-TYPE 
                              4                              53 
  DEL PEAK 17(12Q21.33) MUTATED DEL PEAK 17(12Q21.33) WILD-TYPE 
                              4                              53 
[1] "DEL PEAK 19(16Q21) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 19(16Q21) MUTATED DEL PEAK 19(16Q21) WILD-TYPE 
                           3                           54 
  DEL PEAK 19(16Q21) MUTATED DEL PEAK 19(16Q21) WILD-TYPE 
                           3                           54 
[1] "DEL PEAK 20(17P13.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 20(17P13.2) MUTATED DEL PEAK 20(17P13.2) WILD-TYPE 
                            23                             34 
  DEL PEAK 20(17P13.2) MUTATED DEL PEAK 20(17P13.2) WILD-TYPE 
                            23                             34 
[1] "DEL PEAK 21(17Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE 
                            17                             40 
  DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE 
                            17                             40 
[1] "DEL PEAK 22(22Q13.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 22(22Q13.31) MUTATED DEL PEAK 22(22Q13.31) WILD-TYPE 
                             26                              31 
  DEL PEAK 22(22Q13.31) MUTATED DEL PEAK 22(22Q13.31) WILD-TYPE 
                             26                              31 
[1] "DEL PEAK 23(XP21.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 23(XP21.1) MUTATED DEL PEAK 23(XP21.1) WILD-TYPE 
                           20                            37 
  DEL PEAK 23(XP21.1) MUTATED DEL PEAK 23(XP21.1) WILD-TYPE 
                           20                            37 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "DCCUPLOADDATE"                         
 [6] "GENDER"                                
 [7] "RADIATIONTHERAPY"                      
 [8] "RADIATIONS.RADIATION.REGIMENINDICATION"
 [9] "RACE"                                  
[10] "ETHNICITY"                             
[11] "BATCHNUMBER"                           

Input Data has 11 rows and 57 columns.

[1] "Batch" "11"   
[1] "Last Follow UP"
TCGA-P8-A5KC TCGA-P8-A5KD TCGA-P8-A6RX TCGA-P8-A6RY TCGA-PR-A5PG TCGA-PR-A5PH 
         883           69           29          179         1094          852 
TCGA-QT-A5XJ TCGA-QT-A5XK TCGA-QT-A5XL TCGA-QT-A5XM TCGA-QT-A5XN TCGA-QT-A5XO 
         773          211           55           22          766           70 
TCGA-QT-A5XP TCGA-QT-A69Q TCGA-QT-A7U0 TCGA-RT-A6Y9 TCGA-RT-A6YA TCGA-RT-A6YC 
         134           24           29         2957         1249          246 
TCGA-RW-A67W TCGA-RW-A67X TCGA-RW-A67Y TCGA-RW-A680 TCGA-RW-A681 TCGA-RW-A685 
         604           89          216         1013          724           26 
TCGA-RW-A688 TCGA-RW-A689 TCGA-RW-A68C TCGA-RW-A68D TCGA-RW-A7D0 TCGA-SP-A6QD 
          37          356          191         2214           54         3087 
TCGA-SP-A6QI TCGA-SP-A6QJ TCGA-SP-A6QK TCGA-SQ-A6I4 TCGA-SQ-A6I6 TCGA-SR-A6MP 
        2983          274         3013           43            3         1558 
TCGA-SR-A6MS TCGA-SR-A6MT TCGA-SR-A6MU TCGA-SR-A6MV TCGA-SR-A6MX TCGA-SR-A6MY 
        2222         3247         3362         3269           NA          456 
TCGA-SR-A6MZ TCGA-SR-A6N0 TCGA-TT-A6YJ TCGA-TT-A6YK TCGA-TT-A6YN TCGA-TT-A6YO 
         345         1106          132          765          242          317 
TCGA-TT-A6YP TCGA-W2-A7HA TCGA-W2-A7HD TCGA-W2-A7HE TCGA-W2-A7HF TCGA-W2-A7HH 
         770           36          218          195          137          188 
TCGA-W2-A7UY TCGA-WB-A815 TCGA-XG-A823 
          24          182          210 
Variable 1:'AGE':	nDistinctValues=37,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=TRUE.
Variable 3:'DAYSTODEATH':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=54,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 8:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 9:'RACE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'ETHNICITY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'BATCH.NUMBER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"    "GENDER" "RACE"  
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 57 columns, 0 survival variables, and 3 non-survival variables.
AGE, nv=37, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
RACE, nv=4, binary=FALSE, numeric=FALSE

Clustering(1) Variable = AMP PEAK 1(1Q21.3) MUTATION ANALYSIS
D1V1, continuous
D1V2, binary
                              cls
clus                            0  1
  AMP PEAK 1(1Q21.3) MUTATED    5  2
  AMP PEAK 1(1Q21.3) WILD-TYPE 32 18
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 1(1Q21.3) MUTATED      5    2
  AMP PEAK 1(1Q21.3) WILD-TYPE   32   18
        clus
vv       AMP PEAK 1(1Q21.3) MUTATED AMP PEAK 1(1Q21.3) WILD-TYPE
  FEMALE                          5                           32
  MALE                            2                           18
[1] 2 2
[1] FALSE
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 1(1Q21.3) MUTATED                                  0     0
  AMP PEAK 1(1Q21.3) WILD-TYPE                                1     2
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 1(1Q21.3) MUTATED                           0     6
  AMP PEAK 1(1Q21.3) WILD-TYPE                         7    39
D1V3, multiclass
                                  clus
vv                                 AMP PEAK 1(1Q21.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                     0
  BLACK OR AFRICAN AMERICAN                                 0
  WHITE                                                     6
                                  clus
vv                                 AMP PEAK 1(1Q21.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                       2
  BLACK OR AFRICAN AMERICAN                                   7
  WHITE                                                      39
[1] 4 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(4Q25) MUTATION ANALYSIS
D2V1, continuous
D2V2, binary
                            cls
clus                          0  1
  AMP PEAK 2(4Q25) MUTATED    2  1
  AMP PEAK 2(4Q25) WILD-TYPE 35 19
[1] "tbl2"
                            cls
clus                         [,1] [,2]
  AMP PEAK 2(4Q25) MUTATED      2    1
  AMP PEAK 2(4Q25) WILD-TYPE   35   19
        clus
vv       AMP PEAK 2(4Q25) MUTATED AMP PEAK 2(4Q25) WILD-TYPE
  FEMALE                        2                         35
  MALE                          1                         19
[1] 2 2
[1] FALSE
                            vv
clus                         AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 2(4Q25) MUTATED                                  0     0
  AMP PEAK 2(4Q25) WILD-TYPE                                1     2
                            vv
clus                         BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 2(4Q25) MUTATED                           1     2
  AMP PEAK 2(4Q25) WILD-TYPE                         6    43
D2V3, multiclass
                                  clus
vv                                 AMP PEAK 2(4Q25) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                        0
  ASIAN                                                   0
  BLACK OR AFRICAN AMERICAN                               1
  WHITE                                                   2
                                  clus
vv                                 AMP PEAK 2(4Q25) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                          1
  ASIAN                                                     2
  BLACK OR AFRICAN AMERICAN                                 6
  WHITE                                                    43
[1] 4 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(4Q31.1) MUTATION ANALYSIS
D3V1, continuous
D3V2, binary
                              cls
clus                            0  1
  AMP PEAK 3(4Q31.1) MUTATED    2  2
  AMP PEAK 3(4Q31.1) WILD-TYPE 35 18
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 3(4Q31.1) MUTATED      2    2
  AMP PEAK 3(4Q31.1) WILD-TYPE   35   18
        clus
vv       AMP PEAK 3(4Q31.1) MUTATED AMP PEAK 3(4Q31.1) WILD-TYPE
  FEMALE                          2                           35
  MALE                            2                           18
[1] 2 2
[1] FALSE
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 3(4Q31.1) MUTATED                                  0     0
  AMP PEAK 3(4Q31.1) WILD-TYPE                                1     2
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 3(4Q31.1) MUTATED                           0     4
  AMP PEAK 3(4Q31.1) WILD-TYPE                         7    41
D3V3, multiclass
                                  clus
vv                                 AMP PEAK 3(4Q31.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                     0
  BLACK OR AFRICAN AMERICAN                                 0
  WHITE                                                     4
                                  clus
vv                                 AMP PEAK 3(4Q31.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                       2
  BLACK OR AFRICAN AMERICAN                                   7
  WHITE                                                      41
[1] 4 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(11P15.2) MUTATION ANALYSIS
D4V1, continuous
D4V2, binary
                               cls
clus                             0  1
  AMP PEAK 4(11P15.2) MUTATED    4  1
  AMP PEAK 4(11P15.2) WILD-TYPE 33 19
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 4(11P15.2) MUTATED      4    1
  AMP PEAK 4(11P15.2) WILD-TYPE   33   19
        clus
vv       AMP PEAK 4(11P15.2) MUTATED AMP PEAK 4(11P15.2) WILD-TYPE
  FEMALE                           4                            33
  MALE                             1                            19
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 4(11P15.2) MUTATED                                  0     1
  AMP PEAK 4(11P15.2) WILD-TYPE                                1     1
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 4(11P15.2) MUTATED                           0     4
  AMP PEAK 4(11P15.2) WILD-TYPE                         7    41
D4V3, multiclass
                                  clus
vv                                 AMP PEAK 4(11P15.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      1
  BLACK OR AFRICAN AMERICAN                                  0
  WHITE                                                      4
                                  clus
vv                                 AMP PEAK 4(11P15.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                        1
  BLACK OR AFRICAN AMERICAN                                    7
  WHITE                                                       41
[1] 4 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(12Q13.3) MUTATION ANALYSIS
D5V1, continuous
D5V2, binary
                               cls
clus                             0  1
  AMP PEAK 5(12Q13.3) MUTATED    6  2
  AMP PEAK 5(12Q13.3) WILD-TYPE 31 18
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 5(12Q13.3) MUTATED      6    2
  AMP PEAK 5(12Q13.3) WILD-TYPE   31   18
        clus
vv       AMP PEAK 5(12Q13.3) MUTATED AMP PEAK 5(12Q13.3) WILD-TYPE
  FEMALE                           6                            31
  MALE                             2                            18
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 5(12Q13.3) MUTATED                                  0     1
  AMP PEAK 5(12Q13.3) WILD-TYPE                                1     1
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 5(12Q13.3) MUTATED                           1     6
  AMP PEAK 5(12Q13.3) WILD-TYPE                         6    39
D5V3, multiclass
                                  clus
vv                                 AMP PEAK 5(12Q13.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      1
  BLACK OR AFRICAN AMERICAN                                  1
  WHITE                                                      6
                                  clus
vv                                 AMP PEAK 5(12Q13.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                        1
  BLACK OR AFRICAN AMERICAN                                    6
  WHITE                                                       39
[1] 4 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(14Q24.3) MUTATION ANALYSIS
D6V1, continuous
D6V2, binary
                               cls
clus                             0  1
  AMP PEAK 6(14Q24.3) MUTATED    4  2
  AMP PEAK 6(14Q24.3) WILD-TYPE 33 18
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 6(14Q24.3) MUTATED      4    2
  AMP PEAK 6(14Q24.3) WILD-TYPE   33   18
        clus
vv       AMP PEAK 6(14Q24.3) MUTATED AMP PEAK 6(14Q24.3) WILD-TYPE
  FEMALE                           4                            33
  MALE                             2                            18
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 6(14Q24.3) MUTATED                                  0     0
  AMP PEAK 6(14Q24.3) WILD-TYPE                                1     2
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 6(14Q24.3) MUTATED                           3     3
  AMP PEAK 6(14Q24.3) WILD-TYPE                         4    42
D6V3, multiclass
                                  clus
vv                                 AMP PEAK 6(14Q24.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      0
  BLACK OR AFRICAN AMERICAN                                  3
  WHITE                                                      3
                                  clus
vv                                 AMP PEAK 6(14Q24.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                        2
  BLACK OR AFRICAN AMERICAN                                    4
  WHITE                                                       42
[1] 4 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(17Q21.31) MUTATION ANALYSIS
D7V1, continuous
D7V2, binary
                                cls
clus                              0  1
  AMP PEAK 7(17Q21.31) MUTATED    1  3
  AMP PEAK 7(17Q21.31) WILD-TYPE 36 17
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 7(17Q21.31) MUTATED      1    3
  AMP PEAK 7(17Q21.31) WILD-TYPE   36   17
        clus
vv       AMP PEAK 7(17Q21.31) MUTATED AMP PEAK 7(17Q21.31) WILD-TYPE
  FEMALE                            1                             36
  MALE                              3                             17
[1] 2 2
[1] FALSE
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 7(17Q21.31) MUTATED                                  0     0
  AMP PEAK 7(17Q21.31) WILD-TYPE                                1     2
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 7(17Q21.31) MUTATED                           0     4
  AMP PEAK 7(17Q21.31) WILD-TYPE                         7    41
D7V3, multiclass
                                  clus
vv                                 AMP PEAK 7(17Q21.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       0
  BLACK OR AFRICAN AMERICAN                                   0
  WHITE                                                       4
                                  clus
vv                                 AMP PEAK 7(17Q21.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                         2
  BLACK OR AFRICAN AMERICAN                                     7
  WHITE                                                        41
[1] 4 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 = DEL PEAK  1(1P12) MUTATION ANALYSIS
D8V1, continuous
D8V2, binary
                             cls
clus                           0  1
  DEL PEAK  1(1P12) MUTATED   29 11
  DEL PEAK  1(1P12) WILD-TYPE  8  9
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  1(1P12) MUTATED     29   11
  DEL PEAK  1(1P12) WILD-TYPE    8    9
        clus
vv       DEL PEAK  1(1P12) MUTATED DEL PEAK  1(1P12) WILD-TYPE
  FEMALE                        29                           8
  MALE                          11                           9
[1] 2 2
[1] FALSE
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  1(1P12) MUTATED                                  1     2
  DEL PEAK  1(1P12) WILD-TYPE                                0     0
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  1(1P12) MUTATED                           5    30
  DEL PEAK  1(1P12) WILD-TYPE                         2    15
D8V3, multiclass
                                  clus
vv                                 DEL PEAK  1(1P12) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         1
  ASIAN                                                    2
  BLACK OR AFRICAN AMERICAN                                5
  WHITE                                                   30
                                  clus
vv                                 DEL PEAK  1(1P12) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      0
  BLACK OR AFRICAN AMERICAN                                  2
  WHITE                                                     15
[1] 4 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 = DEL PEAK  2(1Q44) MUTATION ANALYSIS
D9V1, continuous
D9V2, binary
                             cls
clus                           0  1
  DEL PEAK  2(1Q44) MUTATED    3  2
  DEL PEAK  2(1Q44) WILD-TYPE 34 18
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  2(1Q44) MUTATED      3    2
  DEL PEAK  2(1Q44) WILD-TYPE   34   18
        clus
vv       DEL PEAK  2(1Q44) MUTATED DEL PEAK  2(1Q44) WILD-TYPE
  FEMALE                         3                          34
  MALE                           2                          18
[1] 2 2
[1] FALSE
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  2(1Q44) MUTATED                                  0     0
  DEL PEAK  2(1Q44) WILD-TYPE                                1     2
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  2(1Q44) MUTATED                           0     4
  DEL PEAK  2(1Q44) WILD-TYPE                         7    41
D9V3, multiclass
                                  clus
vv                                 DEL PEAK  2(1Q44) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                    0
  BLACK OR AFRICAN AMERICAN                                0
  WHITE                                                    4
                                  clus
vv                                 DEL PEAK  2(1Q44) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      2
  BLACK OR AFRICAN AMERICAN                                  7
  WHITE                                                     41
[1] 4 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 = DEL PEAK  3(2Q34) MUTATION ANALYSIS
D10V1, continuous
D10V2, binary
                             cls
clus                           0  1
  DEL PEAK  3(2Q34) MUTATED    1  2
  DEL PEAK  3(2Q34) WILD-TYPE 36 18
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  3(2Q34) MUTATED      1    2
  DEL PEAK  3(2Q34) WILD-TYPE   36   18
        clus
vv       DEL PEAK  3(2Q34) MUTATED DEL PEAK  3(2Q34) WILD-TYPE
  FEMALE                         1                          36
  MALE                           2                          18
[1] 2 2
[1] FALSE
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  3(2Q34) MUTATED                                  0     0
  DEL PEAK  3(2Q34) WILD-TYPE                                1     2
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  3(2Q34) MUTATED                           1     2
  DEL PEAK  3(2Q34) WILD-TYPE                         6    43
D10V3, multiclass
                                  clus
vv                                 DEL PEAK  3(2Q34) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                    0
  BLACK OR AFRICAN AMERICAN                                1
  WHITE                                                    2
                                  clus
vv                                 DEL PEAK  3(2Q34) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      2
  BLACK OR AFRICAN AMERICAN                                  6
  WHITE                                                     43
[1] 4 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 = DEL PEAK  4(3P24.1) MUTATION ANALYSIS
D11V1, continuous
D11V2, binary
                               cls
clus                             0  1
  DEL PEAK  4(3P24.1) MUTATED   17  8
  DEL PEAK  4(3P24.1) WILD-TYPE 20 12
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(3P24.1) MUTATED     17    8
  DEL PEAK  4(3P24.1) WILD-TYPE   20   12
        clus
vv       DEL PEAK  4(3P24.1) MUTATED DEL PEAK  4(3P24.1) WILD-TYPE
  FEMALE                          17                            20
  MALE                             8                            12
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  4(3P24.1) MUTATED                                  1     1
  DEL PEAK  4(3P24.1) WILD-TYPE                                0     1
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  4(3P24.1) MUTATED                           4    18
  DEL PEAK  4(3P24.1) WILD-TYPE                         3    27
D11V3, multiclass
                                  clus
vv                                 DEL PEAK  4(3P24.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      1
  BLACK OR AFRICAN AMERICAN                                  4
  WHITE                                                     18
                                  clus
vv                                 DEL PEAK  4(3P24.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                        1
  BLACK OR AFRICAN AMERICAN                                    3
  WHITE                                                       27
[1] 4 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 = DEL PEAK  5(3Q26.1) MUTATION ANALYSIS
D12V1, continuous
D12V2, binary
                               cls
clus                             0  1
  DEL PEAK  5(3Q26.1) MUTATED   30 11
  DEL PEAK  5(3Q26.1) WILD-TYPE  7  9
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(3Q26.1) MUTATED     30   11
  DEL PEAK  5(3Q26.1) WILD-TYPE    7    9
        clus
vv       DEL PEAK  5(3Q26.1) MUTATED DEL PEAK  5(3Q26.1) WILD-TYPE
  FEMALE                          30                             7
  MALE                            11                             9
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  5(3Q26.1) MUTATED                                  1     1
  DEL PEAK  5(3Q26.1) WILD-TYPE                                0     1
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  5(3Q26.1) MUTATED                           6    31
  DEL PEAK  5(3Q26.1) WILD-TYPE                         1    14
D12V3, multiclass
                                  clus
vv                                 DEL PEAK  5(3Q26.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      1
  BLACK OR AFRICAN AMERICAN                                  6
  WHITE                                                     31
                                  clus
vv                                 DEL PEAK  5(3Q26.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                        1
  BLACK OR AFRICAN AMERICAN                                    1
  WHITE                                                       14
[1] 4 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 = DEL PEAK  6(4Q22.1) MUTATION ANALYSIS
D13V1, continuous
D13V2, binary
                               cls
clus                             0  1
  DEL PEAK  6(4Q22.1) MUTATED    5  3
  DEL PEAK  6(4Q22.1) WILD-TYPE 32 17
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q22.1) MUTATED      5    3
  DEL PEAK  6(4Q22.1) WILD-TYPE   32   17
        clus
vv       DEL PEAK  6(4Q22.1) MUTATED DEL PEAK  6(4Q22.1) WILD-TYPE
  FEMALE                           5                            32
  MALE                             3                            17
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  6(4Q22.1) MUTATED                                  0     0
  DEL PEAK  6(4Q22.1) WILD-TYPE                                1     2
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  6(4Q22.1) MUTATED                           1     7
  DEL PEAK  6(4Q22.1) WILD-TYPE                         6    38
D13V3, multiclass
                                  clus
vv                                 DEL PEAK  6(4Q22.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      0
  BLACK OR AFRICAN AMERICAN                                  1
  WHITE                                                      7
                                  clus
vv                                 DEL PEAK  6(4Q22.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                        2
  BLACK OR AFRICAN AMERICAN                                    6
  WHITE                                                       38
[1] 4 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 = DEL PEAK  7(4Q35.2) MUTATION ANALYSIS
D14V1, continuous
D14V2, binary
                               cls
clus                             0  1
  DEL PEAK  7(4Q35.2) MUTATED    4  3
  DEL PEAK  7(4Q35.2) WILD-TYPE 33 17
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q35.2) MUTATED      4    3
  DEL PEAK  7(4Q35.2) WILD-TYPE   33   17
        clus
vv       DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE
  FEMALE                           4                            33
  MALE                             3                            17
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  7(4Q35.2) MUTATED                                  0     0
  DEL PEAK  7(4Q35.2) WILD-TYPE                                1     2
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  7(4Q35.2) MUTATED                           1     6
  DEL PEAK  7(4Q35.2) WILD-TYPE                         6    39
D14V3, multiclass
                                  clus
vv                                 DEL PEAK  7(4Q35.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      0
  BLACK OR AFRICAN AMERICAN                                  1
  WHITE                                                      6
                                  clus
vv                                 DEL PEAK  7(4Q35.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                        2
  BLACK OR AFRICAN AMERICAN                                    6
  WHITE                                                       39
[1] 4 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 = DEL PEAK  8(5Q15) MUTATION ANALYSIS
D15V1, continuous
D15V2, binary
                             cls
clus                           0  1
  DEL PEAK  8(5Q15) MUTATED    3  3
  DEL PEAK  8(5Q15) WILD-TYPE 34 17
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  8(5Q15) MUTATED      3    3
  DEL PEAK  8(5Q15) WILD-TYPE   34   17
        clus
vv       DEL PEAK  8(5Q15) MUTATED DEL PEAK  8(5Q15) WILD-TYPE
  FEMALE                         3                          34
  MALE                           3                          17
[1] 2 2
[1] FALSE
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  8(5Q15) MUTATED                                  0     0
  DEL PEAK  8(5Q15) WILD-TYPE                                1     2
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  8(5Q15) MUTATED                           1     5
  DEL PEAK  8(5Q15) WILD-TYPE                         6    40
D15V3, multiclass
                                  clus
vv                                 DEL PEAK  8(5Q15) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                    0
  BLACK OR AFRICAN AMERICAN                                1
  WHITE                                                    5
                                  clus
vv                                 DEL PEAK  8(5Q15) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      2
  BLACK OR AFRICAN AMERICAN                                  6
  WHITE                                                     40
[1] 4 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 = DEL PEAK  9(6P12.3) MUTATION ANALYSIS
D16V1, continuous
D16V2, binary
                               cls
clus                             0  1
  DEL PEAK  9(6P12.3) MUTATED    5  0
  DEL PEAK  9(6P12.3) WILD-TYPE 32 20
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6P12.3) MUTATED      5    0
  DEL PEAK  9(6P12.3) WILD-TYPE   32   20
        clus
vv       DEL PEAK  9(6P12.3) MUTATED DEL PEAK  9(6P12.3) WILD-TYPE
  FEMALE                           5                            32
  MALE                             0                            20
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  9(6P12.3) MUTATED                                  0     0
  DEL PEAK  9(6P12.3) WILD-TYPE                                1     2
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  9(6P12.3) MUTATED                           1     3
  DEL PEAK  9(6P12.3) WILD-TYPE                         6    42
D16V3, multiclass
                                  clus
vv                                 DEL PEAK  9(6P12.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      0
  BLACK OR AFRICAN AMERICAN                                  1
  WHITE                                                      3
                                  clus
vv                                 DEL PEAK  9(6P12.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                        2
  BLACK OR AFRICAN AMERICAN                                    6
  WHITE                                                       42
[1] 4 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 = DEL PEAK 10(6Q16.1) MUTATION ANALYSIS
D17V1, continuous
D17V2, binary
                               cls
clus                             0  1
  DEL PEAK 10(6Q16.1) MUTATED    9  0
  DEL PEAK 10(6Q16.1) WILD-TYPE 28 20
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(6Q16.1) MUTATED      9    0
  DEL PEAK 10(6Q16.1) WILD-TYPE   28   20
        clus
vv       DEL PEAK 10(6Q16.1) MUTATED DEL PEAK 10(6Q16.1) WILD-TYPE
  FEMALE                           9                            28
  MALE                             0                            20
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 10(6Q16.1) MUTATED                                  0     0
  DEL PEAK 10(6Q16.1) WILD-TYPE                                1     2
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 10(6Q16.1) MUTATED                           2     6
  DEL PEAK 10(6Q16.1) WILD-TYPE                         5    39
D17V3, multiclass
                                  clus
vv                                 DEL PEAK 10(6Q16.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      0
  BLACK OR AFRICAN AMERICAN                                  2
  WHITE                                                      6
                                  clus
vv                                 DEL PEAK 10(6Q16.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                        2
  BLACK OR AFRICAN AMERICAN                                    5
  WHITE                                                       39
[1] 4 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 = DEL PEAK 12(8P22) MUTATION ANALYSIS
D18V1, continuous
D18V2, binary
                             cls
clus                           0  1
  DEL PEAK 12(8P22) MUTATED    6  2
  DEL PEAK 12(8P22) WILD-TYPE 31 18
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 12(8P22) MUTATED      6    2
  DEL PEAK 12(8P22) WILD-TYPE   31   18
        clus
vv       DEL PEAK 12(8P22) MUTATED DEL PEAK 12(8P22) WILD-TYPE
  FEMALE                         6                          31
  MALE                           2                          18
[1] 2 2
[1] FALSE
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 12(8P22) MUTATED                                  0     1
  DEL PEAK 12(8P22) WILD-TYPE                                1     1
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 12(8P22) MUTATED                           1     6
  DEL PEAK 12(8P22) WILD-TYPE                         6    39
D18V3, multiclass
                                  clus
vv                                 DEL PEAK 12(8P22) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                    1
  BLACK OR AFRICAN AMERICAN                                1
  WHITE                                                    6
                                  clus
vv                                 DEL PEAK 12(8P22) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      1
  BLACK OR AFRICAN AMERICAN                                  6
  WHITE                                                     39
[1] 4 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 = DEL PEAK 13(9P24.2) MUTATION ANALYSIS
D19V1, continuous
D19V2, binary
                               cls
clus                             0  1
  DEL PEAK 13(9P24.2) MUTATED    4  0
  DEL PEAK 13(9P24.2) WILD-TYPE 33 20
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(9P24.2) MUTATED      4    0
  DEL PEAK 13(9P24.2) WILD-TYPE   33   20
        clus
vv       DEL PEAK 13(9P24.2) MUTATED DEL PEAK 13(9P24.2) WILD-TYPE
  FEMALE                           4                            33
  MALE                             0                            20
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 13(9P24.2) MUTATED                                  0     0
  DEL PEAK 13(9P24.2) WILD-TYPE                                1     2
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 13(9P24.2) MUTATED                           1     3
  DEL PEAK 13(9P24.2) WILD-TYPE                         6    42
D19V3, multiclass
                                  clus
vv                                 DEL PEAK 13(9P24.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      0
  BLACK OR AFRICAN AMERICAN                                  1
  WHITE                                                      3
                                  clus
vv                                 DEL PEAK 13(9P24.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                        2
  BLACK OR AFRICAN AMERICAN                                    6
  WHITE                                                       42
[1] 4 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 = DEL PEAK 14(9Q21.12) MUTATION ANALYSIS
D20V1, continuous
D20V2, binary
                                cls
clus                              0  1
  DEL PEAK 14(9Q21.12) MUTATED    6  0
  DEL PEAK 14(9Q21.12) WILD-TYPE 31 20
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 14(9Q21.12) MUTATED      6    0
  DEL PEAK 14(9Q21.12) WILD-TYPE   31   20
        clus
vv       DEL PEAK 14(9Q21.12) MUTATED DEL PEAK 14(9Q21.12) WILD-TYPE
  FEMALE                            6                             31
  MALE                              0                             20
[1] 2 2
[1] FALSE
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 14(9Q21.12) MUTATED                                  0     0
  DEL PEAK 14(9Q21.12) WILD-TYPE                                1     2
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 14(9Q21.12) MUTATED                           2     4
  DEL PEAK 14(9Q21.12) WILD-TYPE                         5    41
D20V3, multiclass
                                  clus
vv                                 DEL PEAK 14(9Q21.12) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       0
  BLACK OR AFRICAN AMERICAN                                   2
  WHITE                                                       4
                                  clus
vv                                 DEL PEAK 14(9Q21.12) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                         2
  BLACK OR AFRICAN AMERICAN                                     5
  WHITE                                                        41
[1] 4 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 = DEL PEAK 15(11P15.4) MUTATION ANALYSIS
D21V1, continuous
D21V2, binary
                                cls
clus                              0  1
  DEL PEAK 15(11P15.4) MUTATED   10  9
  DEL PEAK 15(11P15.4) WILD-TYPE 27 11
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(11P15.4) MUTATED     10    9
  DEL PEAK 15(11P15.4) WILD-TYPE   27   11
        clus
vv       DEL PEAK 15(11P15.4) MUTATED DEL PEAK 15(11P15.4) WILD-TYPE
  FEMALE                           10                             27
  MALE                              9                             11
[1] 2 2
[1] FALSE
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 15(11P15.4) MUTATED                                  0     1
  DEL PEAK 15(11P15.4) WILD-TYPE                                1     1
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 15(11P15.4) MUTATED                           1    16
  DEL PEAK 15(11P15.4) WILD-TYPE                         6    29
D21V3, multiclass
                                  clus
vv                                 DEL PEAK 15(11P15.4) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       1
  BLACK OR AFRICAN AMERICAN                                   1
  WHITE                                                      16
                                  clus
vv                                 DEL PEAK 15(11P15.4) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                         1
  BLACK OR AFRICAN AMERICAN                                     6
  WHITE                                                        29
[1] 4 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 = DEL PEAK 16(11Q22.1) MUTATION ANALYSIS
D22V1, continuous
D22V2, binary
                                cls
clus                              0  1
  DEL PEAK 16(11Q22.1) MUTATED    8  8
  DEL PEAK 16(11Q22.1) WILD-TYPE 29 12
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(11Q22.1) MUTATED      8    8
  DEL PEAK 16(11Q22.1) WILD-TYPE   29   12
        clus
vv       DEL PEAK 16(11Q22.1) MUTATED DEL PEAK 16(11Q22.1) WILD-TYPE
  FEMALE                            8                             29
  MALE                              8                             12
[1] 2 2
[1] FALSE
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 16(11Q22.1) MUTATED                                  0     0
  DEL PEAK 16(11Q22.1) WILD-TYPE                                1     2
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 16(11Q22.1) MUTATED                           1    15
  DEL PEAK 16(11Q22.1) WILD-TYPE                         6    30
D22V3, multiclass
                                  clus
vv                                 DEL PEAK 16(11Q22.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       0
  BLACK OR AFRICAN AMERICAN                                   1
  WHITE                                                      15
                                  clus
vv                                 DEL PEAK 16(11Q22.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                         2
  BLACK OR AFRICAN AMERICAN                                     6
  WHITE                                                        30
[1] 4 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 = DEL PEAK 17(12Q21.33) MUTATION ANALYSIS
D23V1, continuous
D23V2, binary
                                 cls
clus                               0  1
  DEL PEAK 17(12Q21.33) MUTATED    3  1
  DEL PEAK 17(12Q21.33) WILD-TYPE 34 19
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(12Q21.33) MUTATED      3    1
  DEL PEAK 17(12Q21.33) WILD-TYPE   34   19
        clus
vv       DEL PEAK 17(12Q21.33) MUTATED DEL PEAK 17(12Q21.33) WILD-TYPE
  FEMALE                             3                              34
  MALE                               1                              19
[1] 2 2
[1] FALSE
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 17(12Q21.33) MUTATED                                  0     0
  DEL PEAK 17(12Q21.33) WILD-TYPE                                1     2
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 17(12Q21.33) MUTATED                           0     3
  DEL PEAK 17(12Q21.33) WILD-TYPE                         7    42
D23V3, multiclass
                                  clus
vv                                 DEL PEAK 17(12Q21.33) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                        0
  BLACK OR AFRICAN AMERICAN                                    0
  WHITE                                                        3
                                  clus
vv                                 DEL PEAK 17(12Q21.33) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                          2
  BLACK OR AFRICAN AMERICAN                                      7
  WHITE                                                         42
[1] 4 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 = DEL PEAK 19(16Q21) MUTATION ANALYSIS
D24V1, continuous
D24V2, binary
                              cls
clus                            0  1
  DEL PEAK 19(16Q21) MUTATED    2  1
  DEL PEAK 19(16Q21) WILD-TYPE 35 19
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 19(16Q21) MUTATED      2    1
  DEL PEAK 19(16Q21) WILD-TYPE   35   19
        clus
vv       DEL PEAK 19(16Q21) MUTATED DEL PEAK 19(16Q21) WILD-TYPE
  FEMALE                          2                           35
  MALE                            1                           19
[1] 2 2
[1] FALSE
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 19(16Q21) MUTATED                                  0     0
  DEL PEAK 19(16Q21) WILD-TYPE                                1     2
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 19(16Q21) MUTATED                           1     2
  DEL PEAK 19(16Q21) WILD-TYPE                         6    43
D24V3, multiclass
                                  clus
vv                                 DEL PEAK 19(16Q21) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                     0
  BLACK OR AFRICAN AMERICAN                                 1
  WHITE                                                     2
                                  clus
vv                                 DEL PEAK 19(16Q21) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                       2
  BLACK OR AFRICAN AMERICAN                                   6
  WHITE                                                      43
[1] 4 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 = DEL PEAK 20(17P13.2) MUTATION ANALYSIS
D25V1, continuous
D25V2, binary
                                cls
clus                              0  1
  DEL PEAK 20(17P13.2) MUTATED   15  8
  DEL PEAK 20(17P13.2) WILD-TYPE 22 12
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 20(17P13.2) MUTATED     15    8
  DEL PEAK 20(17P13.2) WILD-TYPE   22   12
        clus
vv       DEL PEAK 20(17P13.2) MUTATED DEL PEAK 20(17P13.2) WILD-TYPE
  FEMALE                           15                             22
  MALE                              8                             12
[1] 2 2
[1] FALSE
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 20(17P13.2) MUTATED                                  1     0
  DEL PEAK 20(17P13.2) WILD-TYPE                                0     2
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 20(17P13.2) MUTATED                           2    18
  DEL PEAK 20(17P13.2) WILD-TYPE                         5    27
D25V3, multiclass
                                  clus
vv                                 DEL PEAK 20(17P13.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                       0
  BLACK OR AFRICAN AMERICAN                                   2
  WHITE                                                      18
                                  clus
vv                                 DEL PEAK 20(17P13.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                         2
  BLACK OR AFRICAN AMERICAN                                     5
  WHITE                                                        27
[1] 4 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 21(17Q11.2) MUTATION ANALYSIS
D26V1, continuous
D26V2, binary
                                cls
clus                              0  1
  DEL PEAK 21(17Q11.2) MUTATED   12  5
  DEL PEAK 21(17Q11.2) WILD-TYPE 25 15
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(17Q11.2) MUTATED     12    5
  DEL PEAK 21(17Q11.2) WILD-TYPE   25   15
        clus
vv       DEL PEAK 21(17Q11.2) MUTATED DEL PEAK 21(17Q11.2) WILD-TYPE
  FEMALE                           12                             25
  MALE                              5                             15
[1] 2 2
[1] FALSE
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 21(17Q11.2) MUTATED                                  0     0
  DEL PEAK 21(17Q11.2) WILD-TYPE                                1     2
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 21(17Q11.2) MUTATED                           2    14
  DEL PEAK 21(17Q11.2) WILD-TYPE                         5    31
D26V3, multiclass
                                  clus
vv                                 DEL PEAK 21(17Q11.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       0
  BLACK OR AFRICAN AMERICAN                                   2
  WHITE                                                      14
                                  clus
vv                                 DEL PEAK 21(17Q11.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                         2
  BLACK OR AFRICAN AMERICAN                                     5
  WHITE                                                        31
[1] 4 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 22(22Q13.31) MUTATION ANALYSIS
D27V1, continuous
D27V2, binary
                                 cls
clus                               0  1
  DEL PEAK 22(22Q13.31) MUTATED   17  9
  DEL PEAK 22(22Q13.31) WILD-TYPE 20 11
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 22(22Q13.31) MUTATED     17    9
  DEL PEAK 22(22Q13.31) WILD-TYPE   20   11
        clus
vv       DEL PEAK 22(22Q13.31) MUTATED DEL PEAK 22(22Q13.31) WILD-TYPE
  FEMALE                            17                              20
  MALE                               9                              11
[1] 2 2
[1] FALSE
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 22(22Q13.31) MUTATED                                  1     1
  DEL PEAK 22(22Q13.31) WILD-TYPE                                0     1
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 22(22Q13.31) MUTATED                           4    20
  DEL PEAK 22(22Q13.31) WILD-TYPE                         3    25
D27V3, multiclass
                                  clus
vv                                 DEL PEAK 22(22Q13.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                        1
  BLACK OR AFRICAN AMERICAN                                    4
  WHITE                                                       20
                                  clus
vv                                 DEL PEAK 22(22Q13.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               0
  ASIAN                                                          1
  BLACK OR AFRICAN AMERICAN                                      3
  WHITE                                                         25
[1] 4 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 23(XP21.1) MUTATION ANALYSIS
D28V1, continuous
D28V2, binary
                               cls
clus                             0  1
  DEL PEAK 23(XP21.1) MUTATED   15  5
  DEL PEAK 23(XP21.1) WILD-TYPE 22 15
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 23(XP21.1) MUTATED     15    5
  DEL PEAK 23(XP21.1) WILD-TYPE   22   15
        clus
vv       DEL PEAK 23(XP21.1) MUTATED DEL PEAK 23(XP21.1) WILD-TYPE
  FEMALE                          15                            22
  MALE                             5                            15
[1] 2 2
[1] FALSE
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 23(XP21.1) MUTATED                                  1     0
  DEL PEAK 23(XP21.1) WILD-TYPE                                0     2
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 23(XP21.1) MUTATED                           5    13
  DEL PEAK 23(XP21.1) WILD-TYPE                         2    32
D28V3, multiclass
                                  clus
vv                                 DEL PEAK 23(XP21.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      0
  BLACK OR AFRICAN AMERICAN                                  5
  WHITE                                                     13
                                  clus
vv                                 DEL PEAK 23(XP21.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                        2
  BLACK OR AFRICAN AMERICAN                                    2
  WHITE                                                       32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
