[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/10013784/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 80 to 43."
[1] 43 57
[1] "1P GAIN MUTATION ANALYSIS"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                3                54 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                3                54 
[1] "1Q GAIN MUTATION ANALYSIS"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
                6                51 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
                6                51 
[1] "5P GAIN MUTATION ANALYSIS"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
                3                54 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
                3                54 
[1] "5Q GAIN MUTATION ANALYSIS"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                3                54 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                3                54 
[1] "7P GAIN MUTATION ANALYSIS"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               11                46 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               11                46 
[1] "7Q GAIN MUTATION ANALYSIS"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
                9                48 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
                9                48 
[1] "8P GAIN MUTATION ANALYSIS"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                5                52 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                5                52 
[1] "8Q GAIN MUTATION ANALYSIS"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
                6                51 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
                6                51 
[1] "10P GAIN MUTATION ANALYSIS"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 5                 52 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 5                 52 
[1] "10Q GAIN MUTATION ANALYSIS"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 5                 52 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 5                 52 
[1] "12P GAIN MUTATION ANALYSIS"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                 4                 53 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                 4                 53 
[1] "12Q GAIN MUTATION ANALYSIS"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 5                 52 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 5                 52 
[1] "13Q GAIN MUTATION ANALYSIS"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 4                 53 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 4                 53 
[1] "18P GAIN MUTATION ANALYSIS"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 3                 54 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 3                 54 
[1] "18Q GAIN MUTATION ANALYSIS"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 5                 52 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 5                 52 
[1] "19P GAIN MUTATION ANALYSIS"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 7                 50 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 7                 50 
[1] "19Q GAIN MUTATION ANALYSIS"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 5                 52 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 5                 52 
[1] "20P GAIN MUTATION ANALYSIS"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                 4                 53 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                 4                 53 
[1] "20Q GAIN MUTATION ANALYSIS"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                 3                 54 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                 3                 54 
[1] "1P LOSS MUTATION ANALYSIS"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               33                24 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               33                24 
[1] "1Q LOSS MUTATION ANALYSIS"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                5                52 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                5                52 
[1] "2P LOSS MUTATION ANALYSIS"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                3                54 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                3                54 
[1] "2Q LOSS MUTATION ANALYSIS"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                3                54 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                3                54 
[1] "3P LOSS MUTATION ANALYSIS"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               28                29 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               28                29 
[1] "3Q LOSS MUTATION ANALYSIS"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               39                18 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               39                18 
[1] "4P LOSS MUTATION ANALYSIS"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                5                52 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                5                52 
[1] "4Q LOSS MUTATION ANALYSIS"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                6                51 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                6                51 
[1] "5P LOSS MUTATION ANALYSIS"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                3                54 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                3                54 
[1] "5Q LOSS MUTATION ANALYSIS"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                4                53 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                4                53 
[1] "6Q LOSS MUTATION ANALYSIS"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
                7                50 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
                7                50 
[1] "8P LOSS MUTATION ANALYSIS"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
                5                52 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
                5                52 
[1] "8Q LOSS MUTATION ANALYSIS"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                3                54 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                3                54 
[1] "9P LOSS MUTATION ANALYSIS"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
                4                53 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
                4                53 
[1] "9Q LOSS MUTATION ANALYSIS"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
                5                52 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
                5                52 
[1] "11P LOSS MUTATION ANALYSIS"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                16                 41 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                16                 41 
[1] "11Q LOSS MUTATION ANALYSIS"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                16                 41 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                16                 41 
[1] "14Q LOSS MUTATION ANALYSIS"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                10                 47 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                10                 47 
[1] "16P LOSS MUTATION ANALYSIS"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 3                 54 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 3                 54 
[1] "17P LOSS MUTATION ANALYSIS"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                21                 36 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                21                 36 
[1] "17Q LOSS MUTATION ANALYSIS"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 9                 48 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 9                 48 
[1] "21Q LOSS MUTATION ANALYSIS"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                15                 42 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                15                 42 
[1] "22Q LOSS MUTATION ANALYSIS"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                23                 34 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                23                 34 
[1] "XQ LOSS MUTATION ANALYSIS"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               20                37 
  XQ LOSS MUTATED XQ LOSS 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 = 1P GAIN MUTATION ANALYSIS
D1V1, continuous
D1V2, binary
                   cls
clus                 0  1
  1P GAIN MUTATED    1  2
  1P GAIN WILD-TYPE 36 18
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      1    2
  1P GAIN WILD-TYPE   36   18
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  FEMALE               1                36
  MALE                 2                18
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  1P GAIN MUTATED                                  0     0
  1P GAIN WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  1P GAIN MUTATED                           0     2
  1P GAIN WILD-TYPE                         7    43
D1V3, multiclass
[1] "Remove cluster labels:" "1P GAIN MUTATED"       
clus
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                2                53 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QT-A5XJ        TCGA-QT-A5XK 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-QT-A5XL        TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-QT-A5XP        TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RT-A6Y9 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67W        TCGA-RW-A67X 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RW-A67Y        TCGA-RW-A680        TCGA-RW-A685        TCGA-RW-A688 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68C        TCGA-RW-A68D        TCGA-RW-A7D0 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-SP-A6QI        TCGA-SP-A6QJ        TCGA-SP-A6QK        TCGA-SQ-A6I4 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-SQ-A6I6        TCGA-SR-A6MP        TCGA-SR-A6MS        TCGA-SR-A6MT 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-SR-A6MU        TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-SR-A6N0        TCGA-TT-A6YK        TCGA-TT-A6YN        TCGA-TT-A6YO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-TT-A6YP        TCGA-W2-A7HA        TCGA-W2-A7HD        TCGA-W2-A7HE 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-W2-A7HF        TCGA-W2-A7HH        TCGA-W2-A7UY        TCGA-WB-A815 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-XG-A823 
"1P GAIN WILD-TYPE" 

Clustering(2) Variable = 1Q GAIN MUTATION ANALYSIS
D2V1, continuous
D2V2, binary
                   cls
clus                 0  1
  1Q GAIN MUTATED    4  2
  1Q GAIN WILD-TYPE 33 18
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED      4    2
  1Q GAIN WILD-TYPE   33   18
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  FEMALE               4                33
  MALE                 2                18
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  1Q GAIN MUTATED                                  0     0
  1Q GAIN WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  1Q GAIN MUTATED                           0     5
  1Q GAIN WILD-TYPE                         7    40
D2V3, multiclass
                                  clus
vv                                 1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      0                 7
  WHITE                                          5                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(3) Variable = 5P GAIN MUTATION ANALYSIS
D3V1, continuous
D3V2, binary
                   cls
clus                 0  1
  5P GAIN MUTATED    3  0
  5P GAIN WILD-TYPE 34 20
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      3    0
  5P GAIN WILD-TYPE   34   20
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  FEMALE               3                34
  MALE                 0                20
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  5P GAIN MUTATED                                  0     0
  5P GAIN WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  5P GAIN MUTATED                           0     3
  5P GAIN WILD-TYPE                         7    42
D3V3, multiclass
                                  clus
vv                                 5P GAIN MUTATED 5P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      0                 7
  WHITE                                          3                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(4) Variable = 5Q GAIN MUTATION ANALYSIS
D4V1, continuous
D4V2, binary
                   cls
clus                 0  1
  5Q GAIN MUTATED    3  0
  5Q GAIN WILD-TYPE 34 20
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      3    0
  5Q GAIN WILD-TYPE   34   20
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  FEMALE               3                34
  MALE                 0                20
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  5Q GAIN MUTATED                                  0     0
  5Q GAIN WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  5Q GAIN MUTATED                           0     3
  5Q GAIN WILD-TYPE                         7    42
D4V3, multiclass
                                  clus
vv                                 5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      0                 7
  WHITE                                          3                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(5) Variable = 7P GAIN MUTATION ANALYSIS
D5V1, continuous
D5V2, binary
                   cls
clus                 0  1
  7P GAIN MUTATED    5  6
  7P GAIN WILD-TYPE 32 14
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED      5    6
  7P GAIN WILD-TYPE   32   14
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  FEMALE               5                32
  MALE                 6                14
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  7P GAIN MUTATED                                  0     0
  7P GAIN WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  7P GAIN MUTATED                           0    11
  7P GAIN WILD-TYPE                         7    34
D5V3, multiclass
                                  clus
vv                                 7P GAIN MUTATED 7P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      0                 7
  WHITE                                         11                34
[1] 4 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 = 7Q GAIN MUTATION ANALYSIS
D6V1, continuous
D6V2, binary
                   cls
clus                 0  1
  7Q GAIN MUTATED    3  6
  7Q GAIN WILD-TYPE 34 14
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED      3    6
  7Q GAIN WILD-TYPE   34   14
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  FEMALE               3                34
  MALE                 6                14
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  7Q GAIN MUTATED                                  0     0
  7Q GAIN WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  7Q GAIN MUTATED                           0     9
  7Q GAIN WILD-TYPE                         7    36
D6V3, multiclass
                                  clus
vv                                 7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      0                 7
  WHITE                                          9                36
[1] 4 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 = 8P GAIN MUTATION ANALYSIS
D7V1, continuous
D7V2, binary
                   cls
clus                 0  1
  8P GAIN MUTATED    4  1
  8P GAIN WILD-TYPE 33 19
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED      4    1
  8P GAIN WILD-TYPE   33   19
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  FEMALE               4                33
  MALE                 1                19
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  8P GAIN MUTATED                                  0     0
  8P GAIN WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  8P GAIN MUTATED                           1     4
  8P GAIN WILD-TYPE                         6    41
D7V3, multiclass
                                  clus
vv                                 8P GAIN MUTATED 8P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      1                 6
  WHITE                                          4                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 = 8Q GAIN MUTATION ANALYSIS
D8V1, continuous
D8V2, binary
                   cls
clus                 0  1
  8Q GAIN MUTATED    4  2
  8Q GAIN WILD-TYPE 33 18
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED      4    2
  8Q GAIN WILD-TYPE   33   18
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  FEMALE               4                33
  MALE                 2                18
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  8Q GAIN MUTATED                                  0     0
  8Q GAIN WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  8Q GAIN MUTATED                           1     5
  8Q GAIN WILD-TYPE                         6    40
D8V3, multiclass
                                  clus
vv                                 8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      1                 6
  WHITE                                          5                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(9) Variable = 10P GAIN MUTATION ANALYSIS
D9V1, continuous
D9V2, binary
                    cls
clus                  0  1
  10P GAIN MUTATED    3  2
  10P GAIN WILD-TYPE 34 18
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P GAIN MUTATED      3    2
  10P GAIN WILD-TYPE   34   18
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  FEMALE                3                 34
  MALE                  2                 18
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  10P GAIN MUTATED                                  0     0
  10P GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  10P GAIN MUTATED                           0     5
  10P GAIN WILD-TYPE                         7    40
D9V3, multiclass
                                  clus
vv                                 10P GAIN MUTATED 10P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           5                 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(10) Variable = 10Q GAIN MUTATION ANALYSIS
D10V1, continuous
D10V2, binary
                    cls
clus                  0  1
  10Q GAIN MUTATED    3  2
  10Q GAIN WILD-TYPE 34 18
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q GAIN MUTATED      3    2
  10Q GAIN WILD-TYPE   34   18
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  FEMALE                3                 34
  MALE                  2                 18
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  10Q GAIN MUTATED                                  0     0
  10Q GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  10Q GAIN MUTATED                           0     5
  10Q GAIN WILD-TYPE                         7    40
D10V3, multiclass
                                  clus
vv                                 10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           5                 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(11) Variable = 12P GAIN MUTATION ANALYSIS
D11V1, continuous
D11V2, binary
                    cls
clus                  0  1
  12P GAIN MUTATED    3  1
  12P GAIN WILD-TYPE 34 19
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P GAIN MUTATED      3    1
  12P GAIN WILD-TYPE   34   19
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  FEMALE                3                 34
  MALE                  1                 19
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  12P GAIN MUTATED                                  0     0
  12P GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  12P GAIN MUTATED                           0     4
  12P GAIN WILD-TYPE                         7    41
D11V3, multiclass
                                  clus
vv                                 12P GAIN MUTATED 12P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           4                 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(12) Variable = 12Q GAIN MUTATION ANALYSIS
D12V1, continuous
D12V2, binary
                    cls
clus                  0  1
  12Q GAIN MUTATED    4  1
  12Q GAIN WILD-TYPE 33 19
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q GAIN MUTATED      4    1
  12Q GAIN WILD-TYPE   33   19
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  FEMALE                4                 33
  MALE                  1                 19
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  12Q GAIN MUTATED                                  0     0
  12Q GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  12Q GAIN MUTATED                           0     5
  12Q GAIN WILD-TYPE                         7    40
D12V3, multiclass
                                  clus
vv                                 12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           5                 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(13) Variable = 13Q GAIN MUTATION ANALYSIS
D13V1, continuous
D13V2, binary
                    cls
clus                  0  1
  13Q GAIN MUTATED    2  2
  13Q GAIN WILD-TYPE 35 18
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      2    2
  13Q GAIN WILD-TYPE   35   18
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  FEMALE                2                 35
  MALE                  2                 18
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  13Q GAIN MUTATED                                  0     0
  13Q GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  13Q GAIN MUTATED                           0     4
  13Q GAIN WILD-TYPE                         7    41
D13V3, multiclass
                                  clus
vv                                 13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           4                 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(14) Variable = 18P GAIN MUTATION ANALYSIS
D14V1, continuous
D14V2, binary
                    cls
clus                  0  1
  18P GAIN MUTATED    2  1
  18P GAIN WILD-TYPE 35 19
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      2    1
  18P GAIN WILD-TYPE   35   19
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  FEMALE                2                 35
  MALE                  1                 19
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  18P GAIN MUTATED                                  0     0
  18P GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  18P GAIN MUTATED                           0     3
  18P GAIN WILD-TYPE                         7    42
D14V3, multiclass
                                  clus
vv                                 18P GAIN MUTATED 18P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           3                 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(15) Variable = 18Q GAIN MUTATION ANALYSIS
D15V1, continuous
D15V2, binary
                    cls
clus                  0  1
  18Q GAIN MUTATED    4  1
  18Q GAIN WILD-TYPE 33 19
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q GAIN MUTATED      4    1
  18Q GAIN WILD-TYPE   33   19
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  FEMALE                4                 33
  MALE                  1                 19
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  18Q GAIN MUTATED                                  0     0
  18Q GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  18Q GAIN MUTATED                           0     5
  18Q GAIN WILD-TYPE                         7    40
D15V3, multiclass
                                  clus
vv                                 18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           5                 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 = 19P GAIN MUTATION ANALYSIS
D16V1, continuous
D16V2, binary
                    cls
clus                  0  1
  19P GAIN MUTATED    5  2
  19P GAIN WILD-TYPE 32 18
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED      5    2
  19P GAIN WILD-TYPE   32   18
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  FEMALE                5                 32
  MALE                  2                 18
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  19P GAIN MUTATED                                  0     0
  19P GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  19P GAIN MUTATED                           0     7
  19P GAIN WILD-TYPE                         7    38
D16V3, multiclass
                                  clus
vv                                 19P GAIN MUTATED 19P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           7                 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(17) Variable = 19Q GAIN MUTATION ANALYSIS
D17V1, continuous
D17V2, binary
                    cls
clus                  0  1
  19Q GAIN MUTATED    3  2
  19Q GAIN WILD-TYPE 34 18
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      3    2
  19Q GAIN WILD-TYPE   34   18
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  FEMALE                3                 34
  MALE                  2                 18
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  19Q GAIN MUTATED                                  0     0
  19Q GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  19Q GAIN MUTATED                           0     5
  19Q GAIN WILD-TYPE                         7    40
D17V3, multiclass
                                  clus
vv                                 19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           5                 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(18) Variable = 20P GAIN MUTATION ANALYSIS
D18V1, continuous
D18V2, binary
                    cls
clus                  0  1
  20P GAIN MUTATED    2  2
  20P GAIN WILD-TYPE 35 18
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED      2    2
  20P GAIN WILD-TYPE   35   18
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  FEMALE                2                 35
  MALE                  2                 18
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  20P GAIN MUTATED                                  0     0
  20P GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  20P GAIN MUTATED                           0     4
  20P GAIN WILD-TYPE                         7    41
D18V3, multiclass
                                  clus
vv                                 20P GAIN MUTATED 20P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           4                 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(19) Variable = 20Q GAIN MUTATION ANALYSIS
D19V1, continuous
D19V2, binary
                    cls
clus                  0  1
  20Q GAIN MUTATED    1  2
  20Q GAIN WILD-TYPE 36 18
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED      1    2
  20Q GAIN WILD-TYPE   36   18
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  FEMALE                1                 36
  MALE                  2                 18
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  20Q GAIN MUTATED                                  0     0
  20Q GAIN WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  20Q GAIN MUTATED                           0     3
  20Q GAIN WILD-TYPE                         7    42
D19V3, multiclass
                                  clus
vv                                 20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           3                 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 = 1P LOSS MUTATION ANALYSIS
D20V1, continuous
D20V2, binary
                   cls
clus                 0  1
  1P LOSS MUTATED   23 10
  1P LOSS WILD-TYPE 14 10
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED     23   10
  1P LOSS WILD-TYPE   14   10
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  FEMALE              23                14
  MALE                10                10
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  1P LOSS MUTATED                                  1     1
  1P LOSS WILD-TYPE                                0     1
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  1P LOSS MUTATED                           3    27
  1P LOSS WILD-TYPE                         4    18
D20V3, multiclass
                                  clus
vv                                 1P LOSS MUTATED 1P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               1                 0
  ASIAN                                          1                 1
  BLACK OR AFRICAN AMERICAN                      3                 4
  WHITE                                         27                18
[1] 4 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 = 1Q LOSS MUTATION ANALYSIS
D21V1, continuous
D21V2, binary
                   cls
clus                 0  1
  1Q LOSS MUTATED    3  2
  1Q LOSS WILD-TYPE 34 18
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q LOSS MUTATED      3    2
  1Q LOSS WILD-TYPE   34   18
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  FEMALE               3                34
  MALE                 2                18
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  1Q LOSS MUTATED                                  0     0
  1Q LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  1Q LOSS MUTATED                           1     4
  1Q LOSS WILD-TYPE                         6    41
D21V3, multiclass
                                  clus
vv                                 1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      1                 6
  WHITE                                          4                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(22) Variable = 2P LOSS MUTATION ANALYSIS
D22V1, continuous
D22V2, binary
                   cls
clus                 0  1
  2P LOSS MUTATED    2  1
  2P LOSS WILD-TYPE 35 19
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P LOSS MUTATED      2    1
  2P LOSS WILD-TYPE   35   19
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  FEMALE               2                35
  MALE                 1                19
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  2P LOSS MUTATED                                  0     0
  2P LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  2P LOSS MUTATED                           1     2
  2P LOSS WILD-TYPE                         6    43
D22V3, multiclass
                                  clus
vv                                 2P LOSS MUTATED 2P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      1                 6
  WHITE                                          2                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(23) Variable = 2Q LOSS MUTATION ANALYSIS
D23V1, continuous
D23V2, binary
                   cls
clus                 0  1
  2Q LOSS MUTATED    1  2
  2Q LOSS WILD-TYPE 36 18
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      1    2
  2Q LOSS WILD-TYPE   36   18
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  FEMALE               1                36
  MALE                 2                18
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  2Q LOSS MUTATED                                  0     0
  2Q LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  2Q LOSS MUTATED                           1     2
  2Q LOSS WILD-TYPE                         6    43
D23V3, multiclass
                                  clus
vv                                 2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      1                 6
  WHITE                                          2                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(24) Variable = 3P LOSS MUTATION ANALYSIS
D24V1, continuous
D24V2, binary
                   cls
clus                 0  1
  3P LOSS MUTATED   19  9
  3P LOSS WILD-TYPE 18 11
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P LOSS MUTATED     19    9
  3P LOSS WILD-TYPE   18   11
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  FEMALE              19                18
  MALE                 9                11
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  3P LOSS MUTATED                                  1     0
  3P LOSS WILD-TYPE                                0     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  3P LOSS MUTATED                           5    21
  3P LOSS WILD-TYPE                         2    24
D24V3, multiclass
                                  clus
vv                                 3P LOSS MUTATED 3P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               1                 0
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      5                 2
  WHITE                                         21                24
[1] 4 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 = 3Q LOSS MUTATION ANALYSIS
D25V1, continuous
D25V2, binary
                   cls
clus                 0  1
  3Q LOSS MUTATED   28 11
  3Q LOSS WILD-TYPE  9  9
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q LOSS MUTATED     28   11
  3Q LOSS WILD-TYPE    9    9
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  FEMALE              28                 9
  MALE                11                 9
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  3Q LOSS MUTATED                                  1     1
  3Q LOSS WILD-TYPE                                0     1
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  3Q LOSS MUTATED                           5    30
  3Q LOSS WILD-TYPE                         2    15
D25V3, multiclass
                                  clus
vv                                 3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               1                 0
  ASIAN                                          1                 1
  BLACK OR AFRICAN AMERICAN                      5                 2
  WHITE                                         30                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(26) Variable = 4P LOSS MUTATION ANALYSIS
D26V1, continuous
D26V2, binary
                   cls
clus                 0  1
  4P LOSS MUTATED    2  3
  4P LOSS WILD-TYPE 35 17
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      2    3
  4P LOSS WILD-TYPE   35   17
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  FEMALE               2                35
  MALE                 3                17
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  4P LOSS MUTATED                                  0     0
  4P LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  4P LOSS MUTATED                           0     5
  4P LOSS WILD-TYPE                         7    40
D26V3, multiclass
                                  clus
vv                                 4P LOSS MUTATED 4P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      0                 7
  WHITE                                          5                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(27) Variable = 4Q LOSS MUTATION ANALYSIS
D27V1, continuous
D27V2, binary
                   cls
clus                 0  1
  4Q LOSS MUTATED    3  3
  4Q LOSS WILD-TYPE 34 17
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      3    3
  4Q LOSS WILD-TYPE   34   17
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  FEMALE               3                34
  MALE                 3                17
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  4Q LOSS MUTATED                                  0     0
  4Q LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  4Q LOSS MUTATED                           0     6
  4Q LOSS WILD-TYPE                         7    39
D27V3, multiclass
                                  clus
vv                                 4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      0                 7
  WHITE                                          6                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(28) Variable = 5P LOSS MUTATION ANALYSIS
D28V1, continuous
D28V2, binary
                   cls
clus                 0  1
  5P LOSS MUTATED    1  2
  5P LOSS WILD-TYPE 36 18
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      1    2
  5P LOSS WILD-TYPE   36   18
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  FEMALE               1                36
  MALE                 2                18
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  5P LOSS MUTATED                                  0     0
  5P LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  5P LOSS MUTATED                           0     3
  5P LOSS WILD-TYPE                         7    42
D28V3, multiclass
                                  clus
vv                                 5P LOSS MUTATED 5P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      0                 7
  WHITE                                          3                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(29) Variable = 5Q LOSS MUTATION ANALYSIS
D29V1, continuous
D29V2, binary
                   cls
clus                 0  1
  5Q LOSS MUTATED    2  2
  5Q LOSS WILD-TYPE 35 18
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      2    2
  5Q LOSS WILD-TYPE   35   18
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  FEMALE               2                35
  MALE                 2                18
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  5Q LOSS MUTATED                                  0     0
  5Q LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  5Q LOSS MUTATED                           1     3
  5Q LOSS WILD-TYPE                         6    42
D29V3, multiclass
                                  clus
vv                                 5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      1                 6
  WHITE                                          3                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(30) Variable = 6Q LOSS MUTATION ANALYSIS
D30V1, continuous
D30V2, binary
                   cls
clus                 0  1
  6Q LOSS MUTATED    7  0
  6Q LOSS WILD-TYPE 30 20
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED      7    0
  6Q LOSS WILD-TYPE   30   20
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  FEMALE               7                30
  MALE                 0                20
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  6Q LOSS MUTATED                                  0     0
  6Q LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  6Q LOSS MUTATED                           1     5
  6Q LOSS WILD-TYPE                         6    40
D30V3, multiclass
                                  clus
vv                                 6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      1                 6
  WHITE                                          5                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(31) Variable = 8P LOSS MUTATION ANALYSIS
D31V1, continuous
D31V2, binary
                   cls
clus                 0  1
  8P LOSS MUTATED    4  1
  8P LOSS WILD-TYPE 33 19
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      4    1
  8P LOSS WILD-TYPE   33   19
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  FEMALE               4                33
  MALE                 1                19
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  8P LOSS MUTATED                                  0     1
  8P LOSS WILD-TYPE                                1     1
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  8P LOSS MUTATED                           0     4
  8P LOSS WILD-TYPE                         7    41
D31V3, multiclass
                                  clus
vv                                 8P LOSS MUTATED 8P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                 1
  BLACK OR AFRICAN AMERICAN                      0                 7
  WHITE                                          4                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(32) Variable = 8Q LOSS MUTATION ANALYSIS
D32V1, continuous
D32V2, binary
                   cls
clus                 0  1
  8Q LOSS MUTATED    2  1
  8Q LOSS WILD-TYPE 35 19
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q LOSS MUTATED      2    1
  8Q LOSS WILD-TYPE   35   19
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  FEMALE               2                35
  MALE                 1                19
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  8Q LOSS MUTATED                                  0     0
  8Q LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  8Q LOSS MUTATED                           0     3
  8Q LOSS WILD-TYPE                         7    42
D32V3, multiclass
                                  clus
vv                                 8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      0                 7
  WHITE                                          3                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(33) Variable = 9P LOSS MUTATION ANALYSIS
D33V1, continuous
D33V2, binary
                   cls
clus                 0  1
  9P LOSS MUTATED    4  0
  9P LOSS WILD-TYPE 33 20
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED      4    0
  9P LOSS WILD-TYPE   33   20
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  FEMALE               4                33
  MALE                 0                20
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  9P LOSS MUTATED                                  0     0
  9P LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  9P LOSS MUTATED                           1     3
  9P LOSS WILD-TYPE                         6    42
D33V3, multiclass
                                  clus
vv                                 9P LOSS MUTATED 9P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      1                 6
  WHITE                                          3                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(34) Variable = 9Q LOSS MUTATION ANALYSIS
D34V1, continuous
D34V2, binary
                   cls
clus                 0  1
  9Q LOSS MUTATED    5  0
  9Q LOSS WILD-TYPE 32 20
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED      5    0
  9Q LOSS WILD-TYPE   32   20
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  FEMALE               5                32
  MALE                 0                20
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  9Q LOSS MUTATED                                  0     0
  9Q LOSS WILD-TYPE                                1     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  9Q LOSS MUTATED                           2     3
  9Q LOSS WILD-TYPE                         5    42
D34V3, multiclass
                                  clus
vv                                 9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      2                 5
  WHITE                                          3                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(35) Variable = 11P LOSS MUTATION ANALYSIS
D35V1, continuous
D35V2, binary
                    cls
clus                  0  1
  11P LOSS MUTATED    8  8
  11P LOSS WILD-TYPE 29 12
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED      8    8
  11P LOSS WILD-TYPE   29   12
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  FEMALE                8                 29
  MALE                  8                 12
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  11P LOSS MUTATED                                  0     0
  11P LOSS WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  11P LOSS MUTATED                           0    15
  11P LOSS WILD-TYPE                         7    30
D35V3, multiclass
                                  clus
vv                                 11P LOSS MUTATED 11P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                          15                 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(36) Variable = 11Q LOSS MUTATION ANALYSIS
D36V1, continuous
D36V2, binary
                    cls
clus                  0  1
  11Q LOSS MUTATED    8  8
  11Q LOSS WILD-TYPE 29 12
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED      8    8
  11Q LOSS WILD-TYPE   29   12
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  FEMALE                8                 29
  MALE                  8                 12
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  11Q LOSS MUTATED                                  0     0
  11Q LOSS WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  11Q LOSS MUTATED                           1    15
  11Q LOSS WILD-TYPE                         6    30
D36V3, multiclass
                                  clus
vv                                 11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       1                  6
  WHITE                                          15                 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(37) Variable = 14Q LOSS MUTATION ANALYSIS
D37V1, continuous
D37V2, binary
                    cls
clus                  0  1
  14Q LOSS MUTATED    5  5
  14Q LOSS WILD-TYPE 32 15
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED      5    5
  14Q LOSS WILD-TYPE   32   15
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  FEMALE                5                 32
  MALE                  5                 15
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  14Q LOSS MUTATED                                  0     0
  14Q LOSS WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  14Q LOSS MUTATED                           1     9
  14Q LOSS WILD-TYPE                         6    36
D37V3, multiclass
                                  clus
vv                                 14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       1                  6
  WHITE                                           9                 36
[1] 4 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 = 16P LOSS MUTATION ANALYSIS
D38V1, continuous
D38V2, binary
                    cls
clus                  0  1
  16P LOSS MUTATED    1  2
  16P LOSS WILD-TYPE 36 18
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P LOSS MUTATED      1    2
  16P LOSS WILD-TYPE   36   18
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  FEMALE                1                 36
  MALE                  2                 18
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  16P LOSS MUTATED                                  0     0
  16P LOSS WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  16P LOSS MUTATED                           0     3
  16P LOSS WILD-TYPE                         7    42
D38V3, multiclass
                                  clus
vv                                 16P LOSS MUTATED 16P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       0                  7
  WHITE                                           3                 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(39) Variable = 17P LOSS MUTATION ANALYSIS
D39V1, continuous
D39V2, binary
                    cls
clus                  0  1
  17P LOSS MUTATED   13  8
  17P LOSS WILD-TYPE 24 12
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED     13    8
  17P LOSS WILD-TYPE   24   12
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  FEMALE               13                 24
  MALE                  8                 12
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  17P LOSS MUTATED                                  1     0
  17P LOSS WILD-TYPE                                0     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  17P LOSS MUTATED                           1    17
  17P LOSS WILD-TYPE                         6    28
D39V3, multiclass
                                  clus
vv                                 17P LOSS MUTATED 17P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                1                  0
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       1                  6
  WHITE                                          17                 28
[1] 4 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 = 17Q LOSS MUTATION ANALYSIS
D40V1, continuous
D40V2, binary
                    cls
clus                  0  1
  17Q LOSS MUTATED    5  4
  17Q LOSS WILD-TYPE 32 16
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q LOSS MUTATED      5    4
  17Q LOSS WILD-TYPE   32   16
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  FEMALE                5                 32
  MALE                  4                 16
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  17Q LOSS MUTATED                                  0     0
  17Q LOSS WILD-TYPE                                1     2
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  17Q LOSS MUTATED                           1     8
  17Q LOSS WILD-TYPE                         6    37
D40V3, multiclass
                                  clus
vv                                 17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  2
  BLACK OR AFRICAN AMERICAN                       1                  6
  WHITE                                           8                 37
[1] 4 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 = 21Q LOSS MUTATION ANALYSIS
D41V1, continuous
D41V2, binary
                    cls
clus                  0  1
  21Q LOSS MUTATED   11  4
  21Q LOSS WILD-TYPE 26 16
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED     11    4
  21Q LOSS WILD-TYPE   26   16
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  FEMALE               11                 26
  MALE                  4                 16
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  21Q LOSS MUTATED                                  1     1
  21Q LOSS WILD-TYPE                                0     1
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  21Q LOSS MUTATED                           2    11
  21Q LOSS WILD-TYPE                         5    34
D41V3, multiclass
                                  clus
vv                                 21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                1                  0
  ASIAN                                           1                  1
  BLACK OR AFRICAN AMERICAN                       2                  5
  WHITE                                          11                 34
[1] 4 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 = 22Q LOSS MUTATION ANALYSIS
D42V1, continuous
D42V2, binary
                    cls
clus                  0  1
  22Q LOSS MUTATED   16  7
  22Q LOSS WILD-TYPE 21 13
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q LOSS MUTATED     16    7
  22Q LOSS WILD-TYPE   21   13
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  FEMALE               16                 21
  MALE                  7                 13
[1] 2 2
[1] FALSE
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  22Q LOSS MUTATED                                  1     1
  22Q LOSS WILD-TYPE                                0     1
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  22Q LOSS MUTATED                           4    17
  22Q LOSS WILD-TYPE                         3    28
D42V3, multiclass
                                  clus
vv                                 22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                1                  0
  ASIAN                                           1                  1
  BLACK OR AFRICAN AMERICAN                       4                  3
  WHITE                                          17                 28
[1] 4 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 = XQ LOSS MUTATION ANALYSIS
D43V1, continuous
D43V2, binary
                   cls
clus                 0  1
  XQ LOSS MUTATED   15  5
  XQ LOSS WILD-TYPE 22 15
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ LOSS MUTATED     15    5
  XQ LOSS WILD-TYPE   22   15
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  FEMALE              15                22
  MALE                 5                15
[1] 2 2
[1] FALSE
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  XQ LOSS MUTATED                                  1     0
  XQ LOSS WILD-TYPE                                0     2
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  XQ LOSS MUTATED                           5    13
  XQ LOSS WILD-TYPE                         2    32
D43V3, multiclass
                                  clus
vv                                 XQ LOSS MUTATED XQ LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               1                 0
  ASIAN                                          0                 2
  BLACK OR AFRICAN AMERICAN                      5                 2
  WHITE                                         13                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"
