[1] "ofn"        "-oTTHYM-TP"
[1] "opt"       "-OPMUTSIG"
[1] "tl" ""  
[1] "dx" ""  
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/THYM-TP/22541006/THYM-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/THYM-TP/22516313/transformed.cor.cli.txt"

nPatients in clinical file=124, in cluster file=123, common to both=123
[1]  18 123
[1] "AMP PEAK 1(1Q41) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE 
                        28                         95 
  AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE 
                        28                         95 
[1] "AMP PEAK 2(10Q11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE 
                             3                            120 
  AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE 
                             3                            120 
[1] "AMP PEAK 3(12P12.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE 
                            6                           117 
  AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE 
                            6                           117 
[1] "AMP PEAK 4(17Q11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE 
                           10                           113 
  AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE 
                           10                           113 
[1] "AMP PEAK 5(21Q22.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE 
                            3                           120 
  AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE 
                            3                           120 
[1] "AMP PEAK 6(XP11.22) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE 
                            3                           120 
  AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE 
                            3                           120 
[1] "AMP PEAK 7(XQ23) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE 
                         7                        116 
  AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE 
                         7                        116 
[1] "DEL PEAK  1(2Q37.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE 
                            5                           118 
  DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE 
                            5                           118 
[1] "DEL PEAK  2(3P22.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE 
                           14                           109 
  DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE 
                           14                           109 
[1] "DEL PEAK  3(6P25.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE 
                           26                            97 
  DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE 
                           26                            97 
[1] "DEL PEAK  4(6Q21) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE 
                         20                         103 
  DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE 
                         20                         103 
[1] "DEL PEAK  5(7Q36.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE 
                            3                           120 
  DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE 
                            3                           120 
[1] "DEL PEAK  6(9P22.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE 
                            6                           117 
  DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE 
                            6                           117 
[1] "DEL PEAK  7(9P21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE 
                           11                           112 
  DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE 
                           11                           112 
[1] "DEL PEAK  8(10Q26.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE 
                             6                            117 
  DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE 
                             6                            117 
[1] "DEL PEAK  9(19P13.11) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE 
                              5                             118 
  DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE 
                              5                             118 
[1] "DEL PEAK 10(22Q12.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE 
                            19                            104 
  DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE 
                            19                            104 
[1] "DEL PEAK 11(22Q13.32) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE 
                             15                             108 
  DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE 
                             15                             108 
[1] "data2feature, selection=ALL"
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 10 rows and 123 columns.

Variable 1:'CN_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_MATURE_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "## **** detect survival parameters (defined in index such as ind_OS, ind_MFS, ind_RFS, ind_RFS, ind_BCR and ind_d2ssd) *** ##"
[1] "detected survival parameters using [ind_OS, overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_OS, curated_overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_TCGAOS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survivial parameters using [ind_MFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_RFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_BCR]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_Progression]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [index_additional_survival_time]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using condition: [is.null(surv.mat)&&(selection=='SURV')]"
[1] "survival parameters accumulated so far"
NULL
[1] "************ conversion from categorical data to rank data ********** "
[1] "****** SUMMARY ***** "
Output Data has 123 columns, 0 survival variables, and 10 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
CN_CNMF, nv=5, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=8, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=6, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE

Clustering(1) Variable = AMP PEAK 1(1Q41) MUTATION ANALYSIS
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMP PEAK 1(1Q41) MUTATED       14      0      7      4      3
  AMP PEAK 1(1Q41) WILD-TYPE     22     27     12     27      7
D1V1, multiclass
        clus
vv       AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE
  CLUS_1                       14                         22
  CLUS_2                        0                         27
  CLUS_3                        7                         12
  CLUS_4                        4                         27
  CLUS_5                        3                          7
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AMP PEAK 1(1Q41) MUTATED        4      0     14      9      0      0      0
  AMP PEAK 1(1Q41) WILD-TYPE     33     23      5      1     18      8      2
                            vv
clus                         CLUS_8
  AMP PEAK 1(1Q41) MUTATED        1
  AMP PEAK 1(1Q41) WILD-TYPE      5
D1V2, multiclass
        clus
vv       AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE
  CLUS_1                        4                         33
  CLUS_2                        0                         23
  CLUS_3                       14                          5
  CLUS_4                        9                          1
  CLUS_5                        0                         18
  CLUS_6                        0                          8
  CLUS_7                        0                          2
  CLUS_8                        1                          5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3
  AMP PEAK 1(1Q41) MUTATED       14      1      4
  AMP PEAK 1(1Q41) WILD-TYPE     17     24     30
D1V3, multiclass
        clus
vv       AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE
  CLUS_1                       14                         17
  CLUS_2                        1                         24
  CLUS_3                        4                         30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 1(1Q41) MUTATED        0      0      5     14
  AMP PEAK 1(1Q41) WILD-TYPE     16     23     26      6
D1V4, multiclass
        clus
vv       AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE
  CLUS_1                        0                         16
  CLUS_2                        0                         23
  CLUS_3                        5                         26
  CLUS_4                       14                          6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 1(1Q41) MUTATED       18      0      0     10
  AMP PEAK 1(1Q41) WILD-TYPE     27     30     30      4
D1V5, multiclass
        clus
vv       AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE
  CLUS_1                       18                         27
  CLUS_2                        0                         30
  CLUS_3                        0                         30
  CLUS_4                       10                          4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 1(1Q41) MUTATED       20      0      0      8
  AMP PEAK 1(1Q41) WILD-TYPE     27     42     20      2
D1V6, multiclass
        clus
vv       AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE
  CLUS_1                       20                         27
  CLUS_2                        0                         42
  CLUS_3                        0                         20
  CLUS_4                        8                          2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 1(1Q41) MUTATED       24      0      4      0
  AMP PEAK 1(1Q41) WILD-TYPE     32     61      1      1
D1V7, multiclass
        clus
vv       AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE
  CLUS_1                       24                         32
  CLUS_2                        0                         61
  CLUS_3                        4                          1
  CLUS_4                        0                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 1(1Q41) MUTATED       10      0     12      6      0      0
  AMP PEAK 1(1Q41) WILD-TYPE     17     18     16      1     16     27
D1V8, multiclass
        clus
vv       AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE
  CLUS_1                       10                         17
  CLUS_2                        0                         18
  CLUS_3                       12                         16
  CLUS_4                        6                          1
  CLUS_5                        0                         16
  CLUS_6                        0                         27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 1(1Q41) MUTATED        1      0     26      1
  AMP PEAK 1(1Q41) WILD-TYPE     27     51     17      0
D1V9, multiclass
        clus
vv       AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE
  CLUS_1                        1                         27
  CLUS_2                        0                         51
  CLUS_3                       26                         17
  CLUS_4                        1                          0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 1(1Q41) MUTATED        9      0     19      0
  AMP PEAK 1(1Q41) WILD-TYPE     18     33     16     28
D1V10, multiclass
        clus
vv       AMP PEAK 1(1Q41) MUTATED AMP PEAK 1(1Q41) WILD-TYPE
  CLUS_1                        9                         18
  CLUS_2                        0                         33
  CLUS_3                       19                         16
  CLUS_4                        0                         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(2) Variable = AMP PEAK 2(10Q11.21) MUTATION ANALYSIS
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMP PEAK 2(10Q11.21) MUTATED        1      0      2      0      0
  AMP PEAK 2(10Q11.21) WILD-TYPE     35     27     17     31     10
D2V1, multiclass
        clus
vv       AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE
  CLUS_1                            1                             35
  CLUS_2                            0                             27
  CLUS_3                            2                             17
  CLUS_4                            0                             31
  CLUS_5                            0                             10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 2(10Q11.21) MUTATED        0      0      1      1      0      0
  AMP PEAK 2(10Q11.21) WILD-TYPE     37     23     18      9     18      8
                                vv
clus                             CLUS_7 CLUS_8
  AMP PEAK 2(10Q11.21) MUTATED        0      1
  AMP PEAK 2(10Q11.21) WILD-TYPE      2      5
D2V2, multiclass
        clus
vv       AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE
  CLUS_1                            0                             37
  CLUS_2                            0                             23
  CLUS_3                            1                             18
  CLUS_4                            1                              9
  CLUS_5                            0                             18
  CLUS_6                            0                              8
  CLUS_7                            0                              2
  CLUS_8                            1                              5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3
  AMP PEAK 2(10Q11.21) MUTATED        2      0      0
  AMP PEAK 2(10Q11.21) WILD-TYPE     29     25     34
D2V3, multiclass
[1] "Remove cluster labels:"       "AMP PEAK 2(10Q11.21) MUTATED"
clus
  AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE 
                             2                             88 
                    TCGA-3G-AB0O                     TCGA-3G-AB0Q 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-3G-AB0T                     TCGA-3G-AB14 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-3G-AB19                     TCGA-3Q-A9WF 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-3S-A8YW                     TCGA-3S-AAYX 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-4V-A9QL                     TCGA-4V-A9QN 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-4V-A9QS                     TCGA-4V-A9QW 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-4V-A9QX                     TCGA-4X-A9F9 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-4X-A9FB                     TCGA-4X-A9FC 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-5G-A9ZZ                     TCGA-5K-AAAP 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-5U-AB0E                     TCGA-5U-AB0F 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-5V-A9RR                     TCGA-X7-A8D6 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8D7                     TCGA-X7-A8D9 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8DB                     TCGA-X7-A8DC 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8DD                     TCGA-X7-A8DE 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8DF                     TCGA-X7-A8DG 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8DI                     TCGA-X7-A8DJ 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8M1                     TCGA-X7-A8M3 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8M4                     TCGA-X7-A8M5 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8M6                     TCGA-X7-A8M7 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-A8R8                     TCGA-XM-A8RB 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-A8RC                     TCGA-XM-A8RD 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-A8RE                     TCGA-XM-A8RF 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-A8RG                     TCGA-XM-A8RH 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-A8RI                     TCGA-XM-A8RL 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-AAZ1                     TCGA-XM-AAZ2 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-AAZ3                     TCGA-XU-A92Q 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XU-A92R                     TCGA-XU-A92U 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XU-A92V                     TCGA-XU-A92X 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XU-A92Z                     TCGA-XU-A931 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XU-A932                     TCGA-XU-A936 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XU-AAY0                     TCGA-XU-AAY1 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-YT-A95D                     TCGA-YT-A95E 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-YT-A95F                     TCGA-YT-A95G 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-YT-A95H                     TCGA-ZB-A961 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A962                     TCGA-ZB-A963 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A964                     TCGA-ZB-A965 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A966                     TCGA-ZB-A969 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A96A                     TCGA-ZB-A96B 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A96C                     TCGA-ZB-A96D 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A96I                     TCGA-ZB-A96P 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A96Q                     TCGA-ZB-A96R 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A96V                     TCGA-ZC-AAA7 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZC-AAAA                     TCGA-ZC-AAAF 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZC-AAAH                     TCGA-ZL-A9V6 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 2(10Q11.21) MUTATED        0      1      0      1
  AMP PEAK 2(10Q11.21) WILD-TYPE     16     22     31     19
D2V4, multiclass
[1] "Remove cluster labels:"       "AMP PEAK 2(10Q11.21) MUTATED"
clus
  AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE 
                             2                             88 
                    TCGA-3G-AB0O                     TCGA-3G-AB0Q 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-3G-AB0T                     TCGA-3G-AB14 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-3G-AB19                     TCGA-3Q-A9WF 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-3S-A8YW                     TCGA-3S-AAYX 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-4V-A9QL                     TCGA-4V-A9QN 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-4V-A9QS                     TCGA-4V-A9QW 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-4V-A9QX                     TCGA-4X-A9F9 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-4X-A9FB                     TCGA-4X-A9FC 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-5G-A9ZZ                     TCGA-5K-AAAP 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-5U-AB0E                     TCGA-5U-AB0F 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-5V-A9RR                     TCGA-X7-A8D6 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8D7                     TCGA-X7-A8D9 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8DB                     TCGA-X7-A8DC 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8DD                     TCGA-X7-A8DE 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8DF                     TCGA-X7-A8DG 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8DI                     TCGA-X7-A8DJ 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8M1                     TCGA-X7-A8M3 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8M4                     TCGA-X7-A8M5 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-X7-A8M6                     TCGA-X7-A8M7 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-A8R8                     TCGA-XM-A8RB 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-A8RC                     TCGA-XM-A8RD 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-A8RE                     TCGA-XM-A8RF 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-A8RG                     TCGA-XM-A8RH 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-A8RI                     TCGA-XM-A8RL 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-AAZ1                     TCGA-XM-AAZ2 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XM-AAZ3                     TCGA-XU-A92Q 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XU-A92R                     TCGA-XU-A92U 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XU-A92V                     TCGA-XU-A92X 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XU-A92Z                     TCGA-XU-A931 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XU-A932                     TCGA-XU-A936 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-XU-AAY0                     TCGA-XU-AAY1 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-YT-A95D                     TCGA-YT-A95E 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-YT-A95F                     TCGA-YT-A95G 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-YT-A95H                     TCGA-ZB-A961 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A962                     TCGA-ZB-A963 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A964                     TCGA-ZB-A965 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A966                     TCGA-ZB-A969 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A96A                     TCGA-ZB-A96B 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A96C                     TCGA-ZB-A96D 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A96I                     TCGA-ZB-A96P 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A96Q                     TCGA-ZB-A96R 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZB-A96V                     TCGA-ZC-AAA7 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZC-AAAA                     TCGA-ZC-AAAF 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                    TCGA-ZC-AAAH                     TCGA-ZL-A9V6 
"AMP PEAK 2(10Q11.21) WILD-TYPE" "AMP PEAK 2(10Q11.21) WILD-TYPE" 
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 2(10Q11.21) MUTATED        1      0      0      2
  AMP PEAK 2(10Q11.21) WILD-TYPE     44     30     30     12
D2V5, multiclass
        clus
vv       AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE
  CLUS_1                            1                             44
  CLUS_2                            0                             30
  CLUS_3                            0                             30
  CLUS_4                            2                             12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 2(10Q11.21) MUTATED        1      0      1      1
  AMP PEAK 2(10Q11.21) WILD-TYPE     46     42     19      9
D2V6, multiclass
        clus
vv       AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE
  CLUS_1                            1                             46
  CLUS_2                            0                             42
  CLUS_3                            1                             19
  CLUS_4                            1                              9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 2(10Q11.21) MUTATED        2      1      0      0
  AMP PEAK 2(10Q11.21) WILD-TYPE     54     60      5      1
D2V7, multiclass
        clus
vv       AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE
  CLUS_1                            2                             54
  CLUS_2                            1                             60
  CLUS_3                            0                              5
  CLUS_4                            0                              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 2(10Q11.21) MUTATED        1      0      0      1      1      0
  AMP PEAK 2(10Q11.21) WILD-TYPE     26     18     28      6     15     27
D2V8, multiclass
        clus
vv       AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE
  CLUS_1                            1                             26
  CLUS_2                            0                             18
  CLUS_3                            0                             28
  CLUS_4                            1                              6
  CLUS_5                            1                             15
  CLUS_6                            0                             27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 2(10Q11.21) MUTATED        0      0      3      0
  AMP PEAK 2(10Q11.21) WILD-TYPE     28     51     40      1
D2V9, multiclass
        clus
vv       AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE
  CLUS_1                            0                             28
  CLUS_2                            0                             51
  CLUS_3                            3                             40
  CLUS_4                            0                              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 2(10Q11.21) MUTATED        0      1      2      0
  AMP PEAK 2(10Q11.21) WILD-TYPE     27     32     33     28
D2V10, multiclass
        clus
vv       AMP PEAK 2(10Q11.21) MUTATED AMP PEAK 2(10Q11.21) WILD-TYPE
  CLUS_1                            0                             27
  CLUS_2                            1                             32
  CLUS_3                            2                             33
  CLUS_4                            0                             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(3) Variable = AMP PEAK 3(12P12.3) MUTATION ANALYSIS
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMP PEAK 3(12P12.3) MUTATED        1      0      4      1      0
  AMP PEAK 3(12P12.3) WILD-TYPE     35     27     15     30     10
D3V1, multiclass
        clus
vv       AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE
  CLUS_1                           1                            35
  CLUS_2                           0                            27
  CLUS_3                           4                            15
  CLUS_4                           1                            30
  CLUS_5                           0                            10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 3(12P12.3) MUTATED        0      0      1      4      0      0
  AMP PEAK 3(12P12.3) WILD-TYPE     37     23     18      6     18      8
                               vv
clus                            CLUS_7 CLUS_8
  AMP PEAK 3(12P12.3) MUTATED        0      1
  AMP PEAK 3(12P12.3) WILD-TYPE      2      5
D3V2, multiclass
        clus
vv       AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE
  CLUS_1                           0                            37
  CLUS_2                           0                            23
  CLUS_3                           1                            18
  CLUS_4                           4                             6
  CLUS_5                           0                            18
  CLUS_6                           0                             8
  CLUS_7                           0                             2
  CLUS_8                           1                             5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3
  AMP PEAK 3(12P12.3) MUTATED        2      2      0
  AMP PEAK 3(12P12.3) WILD-TYPE     29     23     34
D3V3, multiclass
        clus
vv       AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE
  CLUS_1                           2                            29
  CLUS_2                           2                            23
  CLUS_3                           0                            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 3(12P12.3) MUTATED        1      0      0      3
  AMP PEAK 3(12P12.3) WILD-TYPE     15     23     31     17
D3V4, multiclass
        clus
vv       AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE
  CLUS_1                           1                            15
  CLUS_2                           0                            23
  CLUS_3                           0                            31
  CLUS_4                           3                            17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 3(12P12.3) MUTATED        1      0      0      5
  AMP PEAK 3(12P12.3) WILD-TYPE     44     30     30      9
D3V5, multiclass
        clus
vv       AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE
  CLUS_1                           1                            44
  CLUS_2                           0                            30
  CLUS_3                           0                            30
  CLUS_4                           5                             9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 3(12P12.3) MUTATED        1      0      1      4
  AMP PEAK 3(12P12.3) WILD-TYPE     46     42     19      6
D3V6, multiclass
        clus
vv       AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE
  CLUS_1                           1                            46
  CLUS_2                           0                            42
  CLUS_3                           1                            19
  CLUS_4                           4                             6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 3(12P12.3) MUTATED        6      0      0      0
  AMP PEAK 3(12P12.3) WILD-TYPE     50     61      5      1
D3V7, multiclass
        clus
vv       AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE
  CLUS_1                           6                            50
  CLUS_2                           0                            61
  CLUS_3                           0                             5
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 3(12P12.3) MUTATED        1      0      2      3      0      0
  AMP PEAK 3(12P12.3) WILD-TYPE     26     18     26      4     16     27
D3V8, multiclass
        clus
vv       AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE
  CLUS_1                           1                            26
  CLUS_2                           0                            18
  CLUS_3                           2                            26
  CLUS_4                           3                             4
  CLUS_5                           0                            16
  CLUS_6                           0                            27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 3(12P12.3) MUTATED        0      0      6      0
  AMP PEAK 3(12P12.3) WILD-TYPE     28     51     37      1
D3V9, multiclass
        clus
vv       AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE
  CLUS_1                           0                            28
  CLUS_2                           0                            51
  CLUS_3                           6                            37
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 3(12P12.3) MUTATED        1      0      5      0
  AMP PEAK 3(12P12.3) WILD-TYPE     26     33     30     28
D3V10, multiclass
        clus
vv       AMP PEAK 3(12P12.3) MUTATED AMP PEAK 3(12P12.3) WILD-TYPE
  CLUS_1                           1                            26
  CLUS_2                           0                            33
  CLUS_3                           5                            30
  CLUS_4                           0                            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(4) Variable = AMP PEAK 4(17Q11.2) MUTATION ANALYSIS
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMP PEAK 4(17Q11.2) MUTATED        0      2      8      0      0
  AMP PEAK 4(17Q11.2) WILD-TYPE     36     25     11     31     10
D4V1, multiclass
        clus
vv       AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE
  CLUS_1                           0                            36
  CLUS_2                           2                            25
  CLUS_3                           8                            11
  CLUS_4                           0                            31
  CLUS_5                           0                            10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 4(17Q11.2) MUTATED        1      3      1      5      0      0
  AMP PEAK 4(17Q11.2) WILD-TYPE     36     20     18      5     18      8
                               vv
clus                            CLUS_7 CLUS_8
  AMP PEAK 4(17Q11.2) MUTATED        0      0
  AMP PEAK 4(17Q11.2) WILD-TYPE      2      6
D4V2, multiclass
        clus
vv       AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE
  CLUS_1                           1                            36
  CLUS_2                           3                            20
  CLUS_3                           1                            18
  CLUS_4                           5                             5
  CLUS_5                           0                            18
  CLUS_6                           0                             8
  CLUS_7                           0                             2
  CLUS_8                           0                             6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3
  AMP PEAK 4(17Q11.2) MUTATED        4      3      0
  AMP PEAK 4(17Q11.2) WILD-TYPE     27     22     34
D4V3, multiclass
        clus
vv       AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE
  CLUS_1                           4                            27
  CLUS_2                           3                            22
  CLUS_3                           0                            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 4(17Q11.2) MUTATED        1      2      0      4
  AMP PEAK 4(17Q11.2) WILD-TYPE     15     21     31     16
D4V4, multiclass
        clus
vv       AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE
  CLUS_1                           1                            15
  CLUS_2                           2                            21
  CLUS_3                           0                            31
  CLUS_4                           4                            16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 4(17Q11.2) MUTATED        2      0      3      5
  AMP PEAK 4(17Q11.2) WILD-TYPE     43     30     27      9
D4V5, multiclass
        clus
vv       AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE
  CLUS_1                           2                            43
  CLUS_2                           0                            30
  CLUS_3                           3                            27
  CLUS_4                           5                             9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 4(17Q11.2) MUTATED        2      0      3      5
  AMP PEAK 4(17Q11.2) WILD-TYPE     45     42     17      5
D4V6, multiclass
        clus
vv       AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE
  CLUS_1                           2                            45
  CLUS_2                           0                            42
  CLUS_3                           3                            17
  CLUS_4                           5                             5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 4(17Q11.2) MUTATED        6      4      0      0
  AMP PEAK 4(17Q11.2) WILD-TYPE     50     57      5      1
D4V7, multiclass
        clus
vv       AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE
  CLUS_1                           6                            50
  CLUS_2                           4                            57
  CLUS_3                           0                             5
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 4(17Q11.2) MUTATED        1      0      2      3      4      0
  AMP PEAK 4(17Q11.2) WILD-TYPE     26     18     26      4     12     27
D4V8, multiclass
        clus
vv       AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE
  CLUS_1                           1                            26
  CLUS_2                           0                            18
  CLUS_3                           2                            26
  CLUS_4                           3                             4
  CLUS_5                           4                            12
  CLUS_6                           0                            27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 4(17Q11.2) MUTATED        0      3      7      0
  AMP PEAK 4(17Q11.2) WILD-TYPE     28     48     36      1
D4V9, multiclass
        clus
vv       AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE
  CLUS_1                           0                            28
  CLUS_2                           3                            48
  CLUS_3                           7                            36
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 4(17Q11.2) MUTATED        1      4      5      0
  AMP PEAK 4(17Q11.2) WILD-TYPE     26     29     30     28
D4V10, multiclass
        clus
vv       AMP PEAK 4(17Q11.2) MUTATED AMP PEAK 4(17Q11.2) WILD-TYPE
  CLUS_1                           1                            26
  CLUS_2                           4                            29
  CLUS_3                           5                            30
  CLUS_4                           0                            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(5) Variable = AMP PEAK 5(21Q22.2) MUTATION ANALYSIS
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMP PEAK 5(21Q22.2) MUTATED        1      0      2      0      0
  AMP PEAK 5(21Q22.2) WILD-TYPE     35     27     17     31     10
D5V1, multiclass
        clus
vv       AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE
  CLUS_1                           1                            35
  CLUS_2                           0                            27
  CLUS_3                           2                            17
  CLUS_4                           0                            31
  CLUS_5                           0                            10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 5(21Q22.2) MUTATED        0      1      1      1      0      0
  AMP PEAK 5(21Q22.2) WILD-TYPE     37     22     18      9     18      8
                               vv
clus                            CLUS_7 CLUS_8
  AMP PEAK 5(21Q22.2) MUTATED        0      0
  AMP PEAK 5(21Q22.2) WILD-TYPE      2      6
D5V2, multiclass
        clus
vv       AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE
  CLUS_1                           0                            37
  CLUS_2                           1                            22
  CLUS_3                           1                            18
  CLUS_4                           1                             9
  CLUS_5                           0                            18
  CLUS_6                           0                             8
  CLUS_7                           0                             2
  CLUS_8                           0                             6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3
  AMP PEAK 5(21Q22.2) MUTATED        2      1      0
  AMP PEAK 5(21Q22.2) WILD-TYPE     29     24     34
D5V3, multiclass
        clus
vv       AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE
  CLUS_1                           2                            29
  CLUS_2                           1                            24
  CLUS_3                           0                            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 5(21Q22.2) MUTATED        0      1      0      2
  AMP PEAK 5(21Q22.2) WILD-TYPE     16     22     31     18
D5V4, multiclass
        clus
vv       AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE
  CLUS_1                           0                            16
  CLUS_2                           1                            22
  CLUS_3                           0                            31
  CLUS_4                           2                            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"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 5(21Q22.2) MUTATED        1      0      1      1
  AMP PEAK 5(21Q22.2) WILD-TYPE     44     30     29     13
D5V5, multiclass
        clus
vv       AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE
  CLUS_1                           1                            44
  CLUS_2                           0                            30
  CLUS_3                           1                            29
  CLUS_4                           1                            13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 5(21Q22.2) MUTATED        1      0      1      1
  AMP PEAK 5(21Q22.2) WILD-TYPE     46     42     19      9
D5V6, multiclass
        clus
vv       AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE
  CLUS_1                           1                            46
  CLUS_2                           0                            42
  CLUS_3                           1                            19
  CLUS_4                           1                             9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 5(21Q22.2) MUTATED        2      1      0      0
  AMP PEAK 5(21Q22.2) WILD-TYPE     54     60      5      1
D5V7, multiclass
        clus
vv       AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE
  CLUS_1                           2                            54
  CLUS_2                           1                            60
  CLUS_3                           0                             5
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 5(21Q22.2) MUTATED        0      0      2      0      1      0
  AMP PEAK 5(21Q22.2) WILD-TYPE     27     18     26      7     15     27
D5V8, multiclass
        clus
vv       AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           0                            18
  CLUS_3                           2                            26
  CLUS_4                           0                             7
  CLUS_5                           1                            15
  CLUS_6                           0                            27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 5(21Q22.2) MUTATED        0      1      2      0
  AMP PEAK 5(21Q22.2) WILD-TYPE     28     50     41      1
D5V9, multiclass
        clus
vv       AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE
  CLUS_1                           0                            28
  CLUS_2                           1                            50
  CLUS_3                           2                            41
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 5(21Q22.2) MUTATED        0      1      2      0
  AMP PEAK 5(21Q22.2) WILD-TYPE     27     32     33     28
D5V10, multiclass
        clus
vv       AMP PEAK 5(21Q22.2) MUTATED AMP PEAK 5(21Q22.2) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           1                            32
  CLUS_3                           2                            33
  CLUS_4                           0                            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(6) Variable = AMP PEAK 6(XP11.22) MUTATION ANALYSIS
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMP PEAK 6(XP11.22) MUTATED        3      0      0      0      0
  AMP PEAK 6(XP11.22) WILD-TYPE     33     27     19     31     10
D6V1, multiclass
        clus
vv       AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE
  CLUS_1                           3                            33
  CLUS_2                           0                            27
  CLUS_3                           0                            19
  CLUS_4                           0                            31
  CLUS_5                           0                            10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 6(XP11.22) MUTATED        1      0      2      0      0      0
  AMP PEAK 6(XP11.22) WILD-TYPE     36     23     17     10     18      8
                               vv
clus                            CLUS_7 CLUS_8
  AMP PEAK 6(XP11.22) MUTATED        0      0
  AMP PEAK 6(XP11.22) WILD-TYPE      2      6
D6V2, multiclass
        clus
vv       AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE
  CLUS_1                           1                            36
  CLUS_2                           0                            23
  CLUS_3                           2                            17
  CLUS_4                           0                            10
  CLUS_5                           0                            18
  CLUS_6                           0                             8
  CLUS_7                           0                             2
  CLUS_8                           0                             6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3
  AMP PEAK 6(XP11.22) MUTATED        1      0      0
  AMP PEAK 6(XP11.22) WILD-TYPE     30     25     34
D6V3, multiclass
[1] "Remove cluster labels:"      "AMP PEAK 6(XP11.22) MUTATED"
clus
  AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE 
                            1                            89 
                   TCGA-3G-AB0O                    TCGA-3G-AB0Q 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-3G-AB0T                    TCGA-3G-AB14 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-3G-AB19                    TCGA-3Q-A9WF 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-3S-A8YW                    TCGA-3S-AAYX 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-4V-A9QL                    TCGA-4V-A9QN 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-4V-A9QS                    TCGA-4V-A9QW 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-4V-A9QX                    TCGA-4X-A9F9 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-4X-A9FB                    TCGA-4X-A9FC 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-5G-A9ZZ                    TCGA-5K-AAAP 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-5U-AB0E                    TCGA-5U-AB0F 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-5V-A9RR                    TCGA-X7-A8D6 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8D7                    TCGA-X7-A8D9 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8DB                    TCGA-X7-A8DC 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8DD                    TCGA-X7-A8DE 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8DF                    TCGA-X7-A8DG 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8DI                    TCGA-X7-A8DJ 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8M0                    TCGA-X7-A8M1 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8M4                    TCGA-X7-A8M5 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8M6                    TCGA-X7-A8M7 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-A8R8                    TCGA-XM-A8RB 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-A8RC                    TCGA-XM-A8RD 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-A8RE                    TCGA-XM-A8RF 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-A8RG                    TCGA-XM-A8RH 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-A8RI                    TCGA-XM-A8RL 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-AAZ1                    TCGA-XM-AAZ2 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-AAZ3                    TCGA-XU-A92Q 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-A92R                    TCGA-XU-A92U 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-A92V                    TCGA-XU-A92X 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-A92Z                    TCGA-XU-A931 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-A932                    TCGA-XU-A933 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-A936                    TCGA-XU-AAY0 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-AAY1                    TCGA-YT-A95D 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-YT-A95E                    TCGA-YT-A95F 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-YT-A95G                    TCGA-YT-A95H 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A961                    TCGA-ZB-A962 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A963                    TCGA-ZB-A964 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A965                    TCGA-ZB-A966 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A969                    TCGA-ZB-A96A 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A96B                    TCGA-ZB-A96C 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A96D                    TCGA-ZB-A96I 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A96P                    TCGA-ZB-A96Q 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A96R                    TCGA-ZB-A96V 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZC-AAA7                    TCGA-ZC-AAAA 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZC-AAAF                    TCGA-ZC-AAAH 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZL-A9V6 
"AMP PEAK 6(XP11.22) WILD-TYPE" 
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 6(XP11.22) MUTATED        0      0      0      1
  AMP PEAK 6(XP11.22) WILD-TYPE     16     23     31     19
D6V4, multiclass
[1] "Remove cluster labels:"      "AMP PEAK 6(XP11.22) MUTATED"
clus
  AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE 
                            1                            89 
                   TCGA-3G-AB0O                    TCGA-3G-AB0Q 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-3G-AB0T                    TCGA-3G-AB14 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-3G-AB19                    TCGA-3Q-A9WF 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-3S-A8YW                    TCGA-3S-AAYX 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-4V-A9QL                    TCGA-4V-A9QN 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-4V-A9QS                    TCGA-4V-A9QW 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-4V-A9QX                    TCGA-4X-A9F9 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-4X-A9FB                    TCGA-4X-A9FC 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-5G-A9ZZ                    TCGA-5K-AAAP 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-5U-AB0E                    TCGA-5U-AB0F 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-5V-A9RR                    TCGA-X7-A8D6 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8D7                    TCGA-X7-A8D9 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8DB                    TCGA-X7-A8DC 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8DD                    TCGA-X7-A8DE 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8DF                    TCGA-X7-A8DG 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8DI                    TCGA-X7-A8DJ 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8M0                    TCGA-X7-A8M1 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8M4                    TCGA-X7-A8M5 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-X7-A8M6                    TCGA-X7-A8M7 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-A8R8                    TCGA-XM-A8RB 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-A8RC                    TCGA-XM-A8RD 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-A8RE                    TCGA-XM-A8RF 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-A8RG                    TCGA-XM-A8RH 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-A8RI                    TCGA-XM-A8RL 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-AAZ1                    TCGA-XM-AAZ2 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XM-AAZ3                    TCGA-XU-A92Q 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-A92R                    TCGA-XU-A92U 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-A92V                    TCGA-XU-A92X 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-A92Z                    TCGA-XU-A931 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-A932                    TCGA-XU-A933 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-A936                    TCGA-XU-AAY0 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-XU-AAY1                    TCGA-YT-A95D 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-YT-A95E                    TCGA-YT-A95F 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-YT-A95G                    TCGA-YT-A95H 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A961                    TCGA-ZB-A962 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A963                    TCGA-ZB-A964 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A965                    TCGA-ZB-A966 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A969                    TCGA-ZB-A96A 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A96B                    TCGA-ZB-A96C 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A96D                    TCGA-ZB-A96I 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A96P                    TCGA-ZB-A96Q 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZB-A96R                    TCGA-ZB-A96V 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZC-AAA7                    TCGA-ZC-AAAA 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZC-AAAF                    TCGA-ZC-AAAH 
"AMP PEAK 6(XP11.22) WILD-TYPE" "AMP PEAK 6(XP11.22) WILD-TYPE" 
                   TCGA-ZL-A9V6 
"AMP PEAK 6(XP11.22) WILD-TYPE" 
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 6(XP11.22) MUTATED        3      0      0      0
  AMP PEAK 6(XP11.22) WILD-TYPE     42     30     30     14
D6V5, multiclass
        clus
vv       AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE
  CLUS_1                           3                            42
  CLUS_2                           0                            30
  CLUS_3                           0                            30
  CLUS_4                           0                            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"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 6(XP11.22) MUTATED        3      0      0      0
  AMP PEAK 6(XP11.22) WILD-TYPE     44     42     20     10
D6V6, multiclass
        clus
vv       AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE
  CLUS_1                           3                            44
  CLUS_2                           0                            42
  CLUS_3                           0                            20
  CLUS_4                           0                            10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 6(XP11.22) MUTATED        3      0      0      0
  AMP PEAK 6(XP11.22) WILD-TYPE     53     61      5      1
D6V7, multiclass
        clus
vv       AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE
  CLUS_1                           3                            53
  CLUS_2                           0                            61
  CLUS_3                           0                             5
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 6(XP11.22) MUTATED        2      0      1      0      0      0
  AMP PEAK 6(XP11.22) WILD-TYPE     25     18     27      7     16     27
D6V8, multiclass
        clus
vv       AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE
  CLUS_1                           2                            25
  CLUS_2                           0                            18
  CLUS_3                           1                            27
  CLUS_4                           0                             7
  CLUS_5                           0                            16
  CLUS_6                           0                            27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 6(XP11.22) MUTATED        1      0      2      0
  AMP PEAK 6(XP11.22) WILD-TYPE     27     51     41      1
D6V9, multiclass
        clus
vv       AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE
  CLUS_1                           1                            27
  CLUS_2                           0                            51
  CLUS_3                           2                            41
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 6(XP11.22) MUTATED        1      0      2      0
  AMP PEAK 6(XP11.22) WILD-TYPE     26     33     33     28
D6V10, multiclass
        clus
vv       AMP PEAK 6(XP11.22) MUTATED AMP PEAK 6(XP11.22) WILD-TYPE
  CLUS_1                           1                            26
  CLUS_2                           0                            33
  CLUS_3                           2                            33
  CLUS_4                           0                            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(7) Variable = AMP PEAK 7(XQ23) MUTATION ANALYSIS
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AMP PEAK 7(XQ23) MUTATED        7      0      0      0      0
  AMP PEAK 7(XQ23) WILD-TYPE     29     27     19     31     10
D7V1, multiclass
        clus
vv       AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE
  CLUS_1                        7                         29
  CLUS_2                        0                         27
  CLUS_3                        0                         19
  CLUS_4                        0                         31
  CLUS_5                        0                         10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AMP PEAK 7(XQ23) MUTATED        0      0      7      0      0      0      0
  AMP PEAK 7(XQ23) WILD-TYPE     37     23     12     10     18      8      2
                            vv
clus                         CLUS_8
  AMP PEAK 7(XQ23) MUTATED        0
  AMP PEAK 7(XQ23) WILD-TYPE      6
D7V2, multiclass
        clus
vv       AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE
  CLUS_1                        0                         37
  CLUS_2                        0                         23
  CLUS_3                        7                         12
  CLUS_4                        0                         10
  CLUS_5                        0                         18
  CLUS_6                        0                          8
  CLUS_7                        0                          2
  CLUS_8                        0                          6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3
  AMP PEAK 7(XQ23) MUTATED        3      0      2
  AMP PEAK 7(XQ23) WILD-TYPE     28     25     32
D7V3, multiclass
        clus
vv       AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE
  CLUS_1                        3                         28
  CLUS_2                        0                         25
  CLUS_3                        2                         32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 7(XQ23) MUTATED        1      0      1      3
  AMP PEAK 7(XQ23) WILD-TYPE     15     23     30     17
D7V4, multiclass
        clus
vv       AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE
  CLUS_1                        1                         15
  CLUS_2                        0                         23
  CLUS_3                        1                         30
  CLUS_4                        3                         17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 7(XQ23) MUTATED        7      0      0      0
  AMP PEAK 7(XQ23) WILD-TYPE     38     30     30     14
D7V5, multiclass
        clus
vv       AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE
  CLUS_1                        7                         38
  CLUS_2                        0                         30
  CLUS_3                        0                         30
  CLUS_4                        0                         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"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 7(XQ23) MUTATED        7      0      0      0
  AMP PEAK 7(XQ23) WILD-TYPE     40     42     20     10
D7V6, multiclass
        clus
vv       AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE
  CLUS_1                        7                         40
  CLUS_2                        0                         42
  CLUS_3                        0                         20
  CLUS_4                        0                         10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 7(XQ23) MUTATED        5      0      2      0
  AMP PEAK 7(XQ23) WILD-TYPE     51     61      3      1
D7V7, multiclass
        clus
vv       AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE
  CLUS_1                        5                         51
  CLUS_2                        0                         61
  CLUS_3                        2                          3
  CLUS_4                        0                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AMP PEAK 7(XQ23) MUTATED        5      0      2      0      0      0
  AMP PEAK 7(XQ23) WILD-TYPE     22     18     26      7     16     27
D7V8, multiclass
        clus
vv       AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE
  CLUS_1                        5                         22
  CLUS_2                        0                         18
  CLUS_3                        2                         26
  CLUS_4                        0                          7
  CLUS_5                        0                         16
  CLUS_6                        0                         27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 7(XQ23) MUTATED        0      0      7      0
  AMP PEAK 7(XQ23) WILD-TYPE     28     51     36      1
D7V9, multiclass
        clus
vv       AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE
  CLUS_1                        0                         28
  CLUS_2                        0                         51
  CLUS_3                        7                         36
  CLUS_4                        0                          1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                            vv
clus                         CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMP PEAK 7(XQ23) MUTATED        4      0      3      0
  AMP PEAK 7(XQ23) WILD-TYPE     23     33     32     28
D7V10, multiclass
        clus
vv       AMP PEAK 7(XQ23) MUTATED AMP PEAK 7(XQ23) WILD-TYPE
  CLUS_1                        4                         23
  CLUS_2                        0                         33
  CLUS_3                        3                         32
  CLUS_4                        0                         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(8) Variable = DEL PEAK  1(2Q37.1) MUTATION ANALYSIS
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK  1(2Q37.1) MUTATED        2      2      1      0      0
  DEL PEAK  1(2Q37.1) WILD-TYPE     34     25     18     31     10
D8V1, multiclass
        clus
vv       DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE
  CLUS_1                           2                            34
  CLUS_2                           2                            25
  CLUS_3                           1                            18
  CLUS_4                           0                            31
  CLUS_5                           0                            10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  1(2Q37.1) MUTATED        0      2      1      1      1      0
  DEL PEAK  1(2Q37.1) WILD-TYPE     37     21     18      9     17      8
                               vv
clus                            CLUS_7 CLUS_8
  DEL PEAK  1(2Q37.1) MUTATED        0      0
  DEL PEAK  1(2Q37.1) WILD-TYPE      2      6
D8V2, multiclass
        clus
vv       DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE
  CLUS_1                           0                            37
  CLUS_2                           2                            21
  CLUS_3                           1                            18
  CLUS_4                           1                             9
  CLUS_5                           1                            17
  CLUS_6                           0                             8
  CLUS_7                           0                             2
  CLUS_8                           0                             6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3
  DEL PEAK  1(2Q37.1) MUTATED        2      2      0
  DEL PEAK  1(2Q37.1) WILD-TYPE     29     23     34
D8V3, multiclass
        clus
vv       DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE
  CLUS_1                           2                            29
  CLUS_2                           2                            23
  CLUS_3                           0                            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  1(2Q37.1) MUTATED        0      3      0      1
  DEL PEAK  1(2Q37.1) WILD-TYPE     16     20     31     19
D8V4, multiclass
        clus
vv       DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE
  CLUS_1                           0                            16
  CLUS_2                           3                            20
  CLUS_3                           0                            31
  CLUS_4                           1                            19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  1(2Q37.1) MUTATED        1      1      2      1
  DEL PEAK  1(2Q37.1) WILD-TYPE     44     29     28     13
D8V5, multiclass
        clus
vv       DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE
  CLUS_1                           1                            44
  CLUS_2                           1                            29
  CLUS_3                           2                            28
  CLUS_4                           1                            13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  1(2Q37.1) MUTATED        1      3      0      1
  DEL PEAK  1(2Q37.1) WILD-TYPE     46     39     20      9
D8V6, multiclass
        clus
vv       DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE
  CLUS_1                           1                            46
  CLUS_2                           3                            39
  CLUS_3                           0                            20
  CLUS_4                           1                             9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  1(2Q37.1) MUTATED        2      3      0      0
  DEL PEAK  1(2Q37.1) WILD-TYPE     54     58      5      1
D8V7, multiclass
        clus
vv       DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE
  CLUS_1                           2                            54
  CLUS_2                           3                            58
  CLUS_3                           0                             5
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  1(2Q37.1) MUTATED        0      3      1      1      0      0
  DEL PEAK  1(2Q37.1) WILD-TYPE     27     15     27      6     16     27
D8V8, multiclass
        clus
vv       DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           3                            15
  CLUS_3                           1                            27
  CLUS_4                           1                             6
  CLUS_5                           0                            16
  CLUS_6                           0                            27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  1(2Q37.1) MUTATED        0      3      2      0
  DEL PEAK  1(2Q37.1) WILD-TYPE     28     48     41      1
D8V9, multiclass
        clus
vv       DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE
  CLUS_1                           0                            28
  CLUS_2                           3                            48
  CLUS_3                           2                            41
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  1(2Q37.1) MUTATED        0      3      2      0
  DEL PEAK  1(2Q37.1) WILD-TYPE     27     30     33     28
D8V10, multiclass
        clus
vv       DEL PEAK  1(2Q37.1) MUTATED DEL PEAK  1(2Q37.1) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           3                            30
  CLUS_3                           2                            33
  CLUS_4                           0                            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(9) Variable = DEL PEAK  2(3P22.2) MUTATION ANALYSIS
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK  2(3P22.2) MUTATED        7      0      5      0      2
  DEL PEAK  2(3P22.2) WILD-TYPE     29     27     14     31      8
D9V1, multiclass
        clus
vv       DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE
  CLUS_1                           7                            29
  CLUS_2                           0                            27
  CLUS_3                           5                            14
  CLUS_4                           0                            31
  CLUS_5                           2                             8
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  2(3P22.2) MUTATED        0      1      9      3      1      0
  DEL PEAK  2(3P22.2) WILD-TYPE     37     22     10      7     17      8
                               vv
clus                            CLUS_7 CLUS_8
  DEL PEAK  2(3P22.2) MUTATED        0      0
  DEL PEAK  2(3P22.2) WILD-TYPE      2      6
D9V2, multiclass
        clus
vv       DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE
  CLUS_1                           0                            37
  CLUS_2                           1                            22
  CLUS_3                           9                            10
  CLUS_4                           3                             7
  CLUS_5                           1                            17
  CLUS_6                           0                             8
  CLUS_7                           0                             2
  CLUS_8                           0                             6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3
  DEL PEAK  2(3P22.2) MUTATED        7      3      1
  DEL PEAK  2(3P22.2) WILD-TYPE     24     22     33
D9V3, multiclass
        clus
vv       DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE
  CLUS_1                           7                            24
  CLUS_2                           3                            22
  CLUS_3                           1                            33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  2(3P22.2) MUTATED        3      0      0      8
  DEL PEAK  2(3P22.2) WILD-TYPE     13     23     31     12
D9V4, multiclass
        clus
vv       DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE
  CLUS_1                           3                            13
  CLUS_2                           0                            23
  CLUS_3                           0                            31
  CLUS_4                           8                            12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  2(3P22.2) MUTATED        9      1      1      3
  DEL PEAK  2(3P22.2) WILD-TYPE     36     29     29     11
D9V5, multiclass
        clus
vv       DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE
  CLUS_1                           9                            36
  CLUS_2                           1                            29
  CLUS_3                           1                            29
  CLUS_4                           3                            11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  2(3P22.2) MUTATED       10      1      1      2
  DEL PEAK  2(3P22.2) WILD-TYPE     37     41     19      8
D9V6, multiclass
        clus
vv       DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE
  CLUS_1                          10                            37
  CLUS_2                           1                            41
  CLUS_3                           1                            19
  CLUS_4                           2                             8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  2(3P22.2) MUTATED       11      2      1      0
  DEL PEAK  2(3P22.2) WILD-TYPE     45     59      4      1
D9V7, multiclass
        clus
vv       DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE
  CLUS_1                          11                            45
  CLUS_2                           2                            59
  CLUS_3                           1                             4
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  2(3P22.2) MUTATED        6      0      4      2      1      1
  DEL PEAK  2(3P22.2) WILD-TYPE     21     18     24      5     15     26
D9V8, multiclass
        clus
vv       DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE
  CLUS_1                           6                            21
  CLUS_2                           0                            18
  CLUS_3                           4                            24
  CLUS_4                           2                             5
  CLUS_5                           1                            15
  CLUS_6                           1                            26
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  2(3P22.2) MUTATED        0      2     12      0
  DEL PEAK  2(3P22.2) WILD-TYPE     28     49     31      1
D9V9, multiclass
        clus
vv       DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE
  CLUS_1                           0                            28
  CLUS_2                           2                            49
  CLUS_3                          12                            31
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  2(3P22.2) MUTATED        6      1      6      1
  DEL PEAK  2(3P22.2) WILD-TYPE     21     32     29     27
D9V10, multiclass
        clus
vv       DEL PEAK  2(3P22.2) MUTATED DEL PEAK  2(3P22.2) WILD-TYPE
  CLUS_1                           6                            21
  CLUS_2                           1                            32
  CLUS_3                           6                            29
  CLUS_4                           1                            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(10) Variable = DEL PEAK  3(6P25.2) MUTATION ANALYSIS
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK  3(6P25.2) MUTATED       14      0      8      3      1
  DEL PEAK  3(6P25.2) WILD-TYPE     22     27     11     28      9
D10V1, multiclass
        clus
vv       DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE
  CLUS_1                          14                            22
  CLUS_2                           0                            27
  CLUS_3                           8                            11
  CLUS_4                           3                            28
  CLUS_5                           1                             9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  3(6P25.2) MUTATED        1      2     13      7      3      0
  DEL PEAK  3(6P25.2) WILD-TYPE     36     21      6      3     15      8
                               vv
clus                            CLUS_7 CLUS_8
  DEL PEAK  3(6P25.2) MUTATED        0      0
  DEL PEAK  3(6P25.2) WILD-TYPE      2      6
D10V2, multiclass
        clus
vv       DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE
  CLUS_1                           1                            36
  CLUS_2                           2                            21
  CLUS_3                          13                             6
  CLUS_4                           7                             3
  CLUS_5                           3                            15
  CLUS_6                           0                             8
  CLUS_7                           0                             2
  CLUS_8                           0                             6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3
  DEL PEAK  3(6P25.2) MUTATED       15      5      1
  DEL PEAK  3(6P25.2) WILD-TYPE     16     20     33
D10V3, multiclass
        clus
vv       DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE
  CLUS_1                          15                            16
  CLUS_2                           5                            20
  CLUS_3                           1                            33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  3(6P25.2) MUTATED        3      4      2     12
  DEL PEAK  3(6P25.2) WILD-TYPE     13     19     29      8
D10V4, multiclass
        clus
vv       DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE
  CLUS_1                           3                            13
  CLUS_2                           4                            19
  CLUS_3                           2                            29
  CLUS_4                          12                             8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  3(6P25.2) MUTATED       14      1      4      6
  DEL PEAK  3(6P25.2) WILD-TYPE     31     29     26      8
D10V5, multiclass
        clus
vv       DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE
  CLUS_1                          14                            31
  CLUS_2                           1                            29
  CLUS_3                           4                            26
  CLUS_4                           6                             8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  3(6P25.2) MUTATED       15      4      0      6
  DEL PEAK  3(6P25.2) WILD-TYPE     32     38     20      4
D10V6, multiclass
        clus
vv       DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE
  CLUS_1                          15                            32
  CLUS_2                           4                            38
  CLUS_3                           0                            20
  CLUS_4                           6                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  3(6P25.2) MUTATED       19      5      2      0
  DEL PEAK  3(6P25.2) WILD-TYPE     37     56      3      1
D10V7, multiclass
        clus
vv       DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE
  CLUS_1                          19                            37
  CLUS_2                           5                            56
  CLUS_3                           2                             3
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  3(6P25.2) MUTATED       10      3      8      3      0      2
  DEL PEAK  3(6P25.2) WILD-TYPE     17     15     20      4     16     25
D10V8, multiclass
        clus
vv       DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE
  CLUS_1                          10                            17
  CLUS_2                           3                            15
  CLUS_3                           8                            20
  CLUS_4                           3                             4
  CLUS_5                           0                            16
  CLUS_6                           2                            25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  3(6P25.2) MUTATED        0      5     21      0
  DEL PEAK  3(6P25.2) WILD-TYPE     28     46     22      1
D10V9, multiclass
        clus
vv       DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE
  CLUS_1                           0                            28
  CLUS_2                           5                            46
  CLUS_3                          21                            22
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  3(6P25.2) MUTATED        9      3     12      2
  DEL PEAK  3(6P25.2) WILD-TYPE     18     30     23     26
D10V10, multiclass
        clus
vv       DEL PEAK  3(6P25.2) MUTATED DEL PEAK  3(6P25.2) WILD-TYPE
  CLUS_1                           9                            18
  CLUS_2                           3                            30
  CLUS_3                          12                            23
  CLUS_4                           2                            26
[1] 4 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(6Q21) MUTATION ANALYSIS
                             vv
clus                          CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK  4(6Q21) MUTATED       11      0      8      1      0
  DEL PEAK  4(6Q21) WILD-TYPE     25     27     11     30     10
D11V1, multiclass
        clus
vv       DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE
  CLUS_1                        11                          25
  CLUS_2                         0                          27
  CLUS_3                         8                          11
  CLUS_4                         1                          30
  CLUS_5                         0                          10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                          CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DEL PEAK  4(6Q21) MUTATED        1      0     12      6      0      0      0
  DEL PEAK  4(6Q21) WILD-TYPE     36     23      7      4     18      8      2
                             vv
clus                          CLUS_8
  DEL PEAK  4(6Q21) MUTATED        1
  DEL PEAK  4(6Q21) WILD-TYPE      5
D11V2, multiclass
        clus
vv       DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE
  CLUS_1                         1                          36
  CLUS_2                         0                          23
  CLUS_3                        12                           7
  CLUS_4                         6                           4
  CLUS_5                         0                          18
  CLUS_6                         0                           8
  CLUS_7                         0                           2
  CLUS_8                         1                           5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                          CLUS_1 CLUS_2 CLUS_3
  DEL PEAK  4(6Q21) MUTATED       12      2      1
  DEL PEAK  4(6Q21) WILD-TYPE     19     23     33
D11V3, multiclass
        clus
vv       DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE
  CLUS_1                        12                          19
  CLUS_2                         2                          23
  CLUS_3                         1                          33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                          CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  4(6Q21) MUTATED        2      1      1     11
  DEL PEAK  4(6Q21) WILD-TYPE     14     22     30      9
D11V4, multiclass
        clus
vv       DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE
  CLUS_1                         2                          14
  CLUS_2                         1                          22
  CLUS_3                         1                          30
  CLUS_4                        11                           9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                          CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  4(6Q21) MUTATED       13      0      0      7
  DEL PEAK  4(6Q21) WILD-TYPE     32     30     30      7
D11V5, multiclass
        clus
vv       DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE
  CLUS_1                        13                          32
  CLUS_2                         0                          30
  CLUS_3                         0                          30
  CLUS_4                         7                           7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                          CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  4(6Q21) MUTATED       14      0      1      5
  DEL PEAK  4(6Q21) WILD-TYPE     33     42     19      5
D11V6, multiclass
        clus
vv       DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE
  CLUS_1                        14                          33
  CLUS_2                         0                          42
  CLUS_3                         1                          19
  CLUS_4                         5                           5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                          CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  4(6Q21) MUTATED       17      1      2      0
  DEL PEAK  4(6Q21) WILD-TYPE     39     60      3      1
D11V7, multiclass
        clus
vv       DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE
  CLUS_1                        17                          39
  CLUS_2                         1                          60
  CLUS_3                         2                           3
  CLUS_4                         0                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                          CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  4(6Q21) MUTATED        9      0      7      3      1      0
  DEL PEAK  4(6Q21) WILD-TYPE     18     18     21      4     15     27
D11V8, multiclass
        clus
vv       DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE
  CLUS_1                         9                          18
  CLUS_2                         0                          18
  CLUS_3                         7                          21
  CLUS_4                         3                           4
  CLUS_5                         1                          15
  CLUS_6                         0                          27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                          CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  4(6Q21) MUTATED        0      0     20      0
  DEL PEAK  4(6Q21) WILD-TYPE     28     51     23      1
D11V9, multiclass
        clus
vv       DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE
  CLUS_1                         0                          28
  CLUS_2                         0                          51
  CLUS_3                        20                          23
  CLUS_4                         0                           1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                          CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  4(6Q21) MUTATED        8      1     11      0
  DEL PEAK  4(6Q21) WILD-TYPE     19     32     24     28
D11V10, multiclass
        clus
vv       DEL PEAK  4(6Q21) MUTATED DEL PEAK  4(6Q21) WILD-TYPE
  CLUS_1                         8                          19
  CLUS_2                         1                          32
  CLUS_3                        11                          24
  CLUS_4                         0                          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(12) Variable = DEL PEAK  5(7Q36.3) MUTATION ANALYSIS
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK  5(7Q36.3) MUTATED        0      0      3      0      0
  DEL PEAK  5(7Q36.3) WILD-TYPE     36     27     16     31     10
D12V1, multiclass
        clus
vv       DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE
  CLUS_1                           0                            36
  CLUS_2                           0                            27
  CLUS_3                           3                            16
  CLUS_4                           0                            31
  CLUS_5                           0                            10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  5(7Q36.3) MUTATED        0      0      0      2      0      0
  DEL PEAK  5(7Q36.3) WILD-TYPE     37     23     19      8     18      8
                               vv
clus                            CLUS_7 CLUS_8
  DEL PEAK  5(7Q36.3) MUTATED        0      1
  DEL PEAK  5(7Q36.3) WILD-TYPE      2      5
D12V2, multiclass
        clus
vv       DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE
  CLUS_1                           0                            37
  CLUS_2                           0                            23
  CLUS_3                           0                            19
  CLUS_4                           2                             8
  CLUS_5                           0                            18
  CLUS_6                           0                             8
  CLUS_7                           0                             2
  CLUS_8                           1                             5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3
  DEL PEAK  5(7Q36.3) MUTATED        2      1      0
  DEL PEAK  5(7Q36.3) WILD-TYPE     29     24     34
D12V3, multiclass
        clus
vv       DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE
  CLUS_1                           2                            29
  CLUS_2                           1                            24
  CLUS_3                           0                            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  5(7Q36.3) MUTATED        0      1      0      2
  DEL PEAK  5(7Q36.3) WILD-TYPE     16     22     31     18
D12V4, multiclass
        clus
vv       DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE
  CLUS_1                           0                            16
  CLUS_2                           1                            22
  CLUS_3                           0                            31
  CLUS_4                           2                            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"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  5(7Q36.3) MUTATED        0      0      0      3
  DEL PEAK  5(7Q36.3) WILD-TYPE     45     30     30     11
D12V5, multiclass
        clus
vv       DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE
  CLUS_1                           0                            45
  CLUS_2                           0                            30
  CLUS_3                           0                            30
  CLUS_4                           3                            11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  5(7Q36.3) MUTATED        0      0      1      2
  DEL PEAK  5(7Q36.3) WILD-TYPE     47     42     19      8
D12V6, multiclass
        clus
vv       DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE
  CLUS_1                           0                            47
  CLUS_2                           0                            42
  CLUS_3                           1                            19
  CLUS_4                           2                             8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  5(7Q36.3) MUTATED        2      1      0      0
  DEL PEAK  5(7Q36.3) WILD-TYPE     54     60      5      1
D12V7, multiclass
        clus
vv       DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE
  CLUS_1                           2                            54
  CLUS_2                           1                            60
  CLUS_3                           0                             5
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  5(7Q36.3) MUTATED        0      0      1      1      1      0
  DEL PEAK  5(7Q36.3) WILD-TYPE     27     18     27      6     15     27
D12V8, multiclass
        clus
vv       DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           0                            18
  CLUS_3                           1                            27
  CLUS_4                           1                             6
  CLUS_5                           1                            15
  CLUS_6                           0                            27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  5(7Q36.3) MUTATED        0      0      3      0
  DEL PEAK  5(7Q36.3) WILD-TYPE     28     51     40      1
D12V9, multiclass
        clus
vv       DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE
  CLUS_1                           0                            28
  CLUS_2                           0                            51
  CLUS_3                           3                            40
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  5(7Q36.3) MUTATED        0      1      2      0
  DEL PEAK  5(7Q36.3) WILD-TYPE     27     32     33     28
D12V10, multiclass
        clus
vv       DEL PEAK  5(7Q36.3) MUTATED DEL PEAK  5(7Q36.3) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           1                            32
  CLUS_3                           2                            33
  CLUS_4                           0                            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(13) Variable = DEL PEAK  6(9P22.1) MUTATION ANALYSIS
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK  6(9P22.1) MUTATED        0      0      6      0      0
  DEL PEAK  6(9P22.1) WILD-TYPE     36     27     13     31     10
D13V1, multiclass
        clus
vv       DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE
  CLUS_1                           0                            36
  CLUS_2                           0                            27
  CLUS_3                           6                            13
  CLUS_4                           0                            31
  CLUS_5                           0                            10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  6(9P22.1) MUTATED        0      3      0      3      0      0
  DEL PEAK  6(9P22.1) WILD-TYPE     37     20     19      7     18      8
                               vv
clus                            CLUS_7 CLUS_8
  DEL PEAK  6(9P22.1) MUTATED        0      0
  DEL PEAK  6(9P22.1) WILD-TYPE      2      6
D13V2, multiclass
        clus
vv       DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE
  CLUS_1                           0                            37
  CLUS_2                           3                            20
  CLUS_3                           0                            19
  CLUS_4                           3                             7
  CLUS_5                           0                            18
  CLUS_6                           0                             8
  CLUS_7                           0                             2
  CLUS_8                           0                             6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3
  DEL PEAK  6(9P22.1) MUTATED        1      3      0
  DEL PEAK  6(9P22.1) WILD-TYPE     30     22     34
D13V3, multiclass
        clus
vv       DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE
  CLUS_1                           1                            30
  CLUS_2                           3                            22
  CLUS_3                           0                            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  6(9P22.1) MUTATED        0      2      0      2
  DEL PEAK  6(9P22.1) WILD-TYPE     16     21     31     18
D13V4, multiclass
        clus
vv       DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE
  CLUS_1                           0                            16
  CLUS_2                           2                            21
  CLUS_3                           0                            31
  CLUS_4                           2                            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"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  6(9P22.1) MUTATED        0      0      3      3
  DEL PEAK  6(9P22.1) WILD-TYPE     45     30     27     11
D13V5, multiclass
        clus
vv       DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE
  CLUS_1                           0                            45
  CLUS_2                           0                            30
  CLUS_3                           3                            27
  CLUS_4                           3                            11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  6(9P22.1) MUTATED        0      0      3      3
  DEL PEAK  6(9P22.1) WILD-TYPE     47     42     17      7
D13V6, multiclass
        clus
vv       DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE
  CLUS_1                           0                            47
  CLUS_2                           0                            42
  CLUS_3                           3                            17
  CLUS_4                           3                             7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  6(9P22.1) MUTATED        3      3      0      0
  DEL PEAK  6(9P22.1) WILD-TYPE     53     58      5      1
D13V7, multiclass
        clus
vv       DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE
  CLUS_1                           3                            53
  CLUS_2                           3                            58
  CLUS_3                           0                             5
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  6(9P22.1) MUTATED        0      0      1      2      3      0
  DEL PEAK  6(9P22.1) WILD-TYPE     27     18     27      5     13     27
D13V8, multiclass
        clus
vv       DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           0                            18
  CLUS_3                           1                            27
  CLUS_4                           2                             5
  CLUS_5                           3                            13
  CLUS_6                           0                            27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  6(9P22.1) MUTATED        0      3      3      0
  DEL PEAK  6(9P22.1) WILD-TYPE     28     48     40      1
D13V9, multiclass
        clus
vv       DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE
  CLUS_1                           0                            28
  CLUS_2                           3                            48
  CLUS_3                           3                            40
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  6(9P22.1) MUTATED        0      3      3      0
  DEL PEAK  6(9P22.1) WILD-TYPE     27     30     32     28
D13V10, multiclass
        clus
vv       DEL PEAK  6(9P22.1) MUTATED DEL PEAK  6(9P22.1) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           3                            30
  CLUS_3                           3                            32
  CLUS_4                           0                            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(14) Variable = DEL PEAK  7(9P21.3) MUTATION ANALYSIS
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK  7(9P21.3) MUTATED        1      0      7      2      1
  DEL PEAK  7(9P21.3) WILD-TYPE     35     27     12     29      9
D14V1, multiclass
        clus
vv       DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE
  CLUS_1                           1                            35
  CLUS_2                           0                            27
  CLUS_3                           7                            12
  CLUS_4                           2                            29
  CLUS_5                           1                             9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  7(9P21.3) MUTATED        0      3      1      6      1      0
  DEL PEAK  7(9P21.3) WILD-TYPE     37     20     18      4     17      8
                               vv
clus                            CLUS_7 CLUS_8
  DEL PEAK  7(9P21.3) MUTATED        0      0
  DEL PEAK  7(9P21.3) WILD-TYPE      2      6
D14V2, multiclass
        clus
vv       DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE
  CLUS_1                           0                            37
  CLUS_2                           3                            20
  CLUS_3                           1                            18
  CLUS_4                           6                             4
  CLUS_5                           1                            17
  CLUS_6                           0                             8
  CLUS_7                           0                             2
  CLUS_8                           0                             6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3
  DEL PEAK  7(9P21.3) MUTATED        4      4      1
  DEL PEAK  7(9P21.3) WILD-TYPE     27     21     33
D14V3, multiclass
        clus
vv       DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE
  CLUS_1                           4                            27
  CLUS_2                           4                            21
  CLUS_3                           1                            33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  7(9P21.3) MUTATED        0      3      0      6
  DEL PEAK  7(9P21.3) WILD-TYPE     16     20     31     14
D14V4, multiclass
        clus
vv       DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE
  CLUS_1                           0                            16
  CLUS_2                           3                            20
  CLUS_3                           0                            31
  CLUS_4                           6                            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"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  7(9P21.3) MUTATED        1      0      3      6
  DEL PEAK  7(9P21.3) WILD-TYPE     44     30     27      8
D14V5, multiclass
        clus
vv       DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE
  CLUS_1                           1                            44
  CLUS_2                           0                            30
  CLUS_3                           3                            27
  CLUS_4                           6                             8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  7(9P21.3) MUTATED        1      0      3      6
  DEL PEAK  7(9P21.3) WILD-TYPE     46     42     17      4
D14V6, multiclass
        clus
vv       DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE
  CLUS_1                           1                            46
  CLUS_2                           0                            42
  CLUS_3                           3                            17
  CLUS_4                           6                             4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  7(9P21.3) MUTATED        7      4      0      0
  DEL PEAK  7(9P21.3) WILD-TYPE     49     57      5      1
D14V7, multiclass
        clus
vv       DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE
  CLUS_1                           7                            49
  CLUS_2                           4                            57
  CLUS_3                           0                             5
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  7(9P21.3) MUTATED        0      0      3      4      3      1
  DEL PEAK  7(9P21.3) WILD-TYPE     27     18     25      3     13     26
D14V8, multiclass
        clus
vv       DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           0                            18
  CLUS_3                           3                            25
  CLUS_4                           4                             3
  CLUS_5                           3                            13
  CLUS_6                           1                            26
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  7(9P21.3) MUTATED        0      4      7      0
  DEL PEAK  7(9P21.3) WILD-TYPE     28     47     36      1
D14V9, multiclass
        clus
vv       DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE
  CLUS_1                           0                            28
  CLUS_2                           4                            47
  CLUS_3                           7                            36
  CLUS_4                           0                             1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  7(9P21.3) MUTATED        0      3      7      1
  DEL PEAK  7(9P21.3) WILD-TYPE     27     30     28     27
D14V10, multiclass
        clus
vv       DEL PEAK  7(9P21.3) MUTATED DEL PEAK  7(9P21.3) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           3                            30
  CLUS_3                           7                            28
  CLUS_4                           1                            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(15) Variable = DEL PEAK  8(10Q26.3) MUTATION ANALYSIS
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK  8(10Q26.3) MUTATED        3      1      2      0      0
  DEL PEAK  8(10Q26.3) WILD-TYPE     33     26     17     31     10
D15V1, multiclass
        clus
vv       DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE
  CLUS_1                            3                             33
  CLUS_2                            1                             26
  CLUS_3                            2                             17
  CLUS_4                            0                             31
  CLUS_5                            0                             10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  8(10Q26.3) MUTATED        0      3      1      1      0      0
  DEL PEAK  8(10Q26.3) WILD-TYPE     37     20     18      9     18      8
                                vv
clus                             CLUS_7 CLUS_8
  DEL PEAK  8(10Q26.3) MUTATED        0      1
  DEL PEAK  8(10Q26.3) WILD-TYPE      2      5
D15V2, multiclass
        clus
vv       DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE
  CLUS_1                            0                             37
  CLUS_2                            3                             20
  CLUS_3                            1                             18
  CLUS_4                            1                              9
  CLUS_5                            0                             18
  CLUS_6                            0                              8
  CLUS_7                            0                              2
  CLUS_8                            1                              5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3
  DEL PEAK  8(10Q26.3) MUTATED        3      2      0
  DEL PEAK  8(10Q26.3) WILD-TYPE     28     23     34
D15V3, multiclass
        clus
vv       DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE
  CLUS_1                            3                             28
  CLUS_2                            2                             23
  CLUS_3                            0                             34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  8(10Q26.3) MUTATED        0      4      0      1
  DEL PEAK  8(10Q26.3) WILD-TYPE     16     19     31     19
D15V4, multiclass
        clus
vv       DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE
  CLUS_1                            0                             16
  CLUS_2                            4                             19
  CLUS_3                            0                             31
  CLUS_4                            1                             19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  8(10Q26.3) MUTATED        1      0      3      2
  DEL PEAK  8(10Q26.3) WILD-TYPE     44     30     27     12
D15V5, multiclass
        clus
vv       DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE
  CLUS_1                            1                             44
  CLUS_2                            0                             30
  CLUS_3                            3                             27
  CLUS_4                            2                             12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  8(10Q26.3) MUTATED        2      1      3      0
  DEL PEAK  8(10Q26.3) WILD-TYPE     45     41     17     10
D15V6, multiclass
        clus
vv       DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE
  CLUS_1                            2                             45
  CLUS_2                            1                             41
  CLUS_3                            3                             17
  CLUS_4                            0                             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  8(10Q26.3) MUTATED        1      4      1      0
  DEL PEAK  8(10Q26.3) WILD-TYPE     55     57      4      1
D15V7, multiclass
        clus
vv       DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE
  CLUS_1                            1                             55
  CLUS_2                            4                             57
  CLUS_3                            1                              4
  CLUS_4                            0                              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  8(10Q26.3) MUTATED        2      1      0      0      3      0
  DEL PEAK  8(10Q26.3) WILD-TYPE     25     17     28      7     13     27
D15V8, multiclass
        clus
vv       DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE
  CLUS_1                            2                             25
  CLUS_2                            1                             17
  CLUS_3                            0                             28
  CLUS_4                            0                              7
  CLUS_5                            3                             13
  CLUS_6                            0                             27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  8(10Q26.3) MUTATED        0      3      3      0
  DEL PEAK  8(10Q26.3) WILD-TYPE     28     48     40      1
D15V9, multiclass
        clus
vv       DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE
  CLUS_1                            0                             28
  CLUS_2                            3                             48
  CLUS_3                            3                             40
  CLUS_4                            0                              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  8(10Q26.3) MUTATED        2      4      0      0
  DEL PEAK  8(10Q26.3) WILD-TYPE     25     29     35     28
D15V10, multiclass
        clus
vv       DEL PEAK  8(10Q26.3) MUTATED DEL PEAK  8(10Q26.3) WILD-TYPE
  CLUS_1                            2                             25
  CLUS_2                            4                             29
  CLUS_3                            0                             35
  CLUS_4                            0                             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(16) Variable = DEL PEAK  9(19P13.11) MUTATION ANALYSIS
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK  9(19P13.11) MUTATED        0      0      5      0      0
  DEL PEAK  9(19P13.11) WILD-TYPE     36     27     14     31     10
D16V1, multiclass
        clus
vv       DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE
  CLUS_1                             0                              36
  CLUS_2                             0                              27
  CLUS_3                             5                              14
  CLUS_4                             0                              31
  CLUS_5                             0                              10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  9(19P13.11) MUTATED        0      2      0      3      0      0
  DEL PEAK  9(19P13.11) WILD-TYPE     37     21     19      7     18      8
                                 vv
clus                              CLUS_7 CLUS_8
  DEL PEAK  9(19P13.11) MUTATED        0      0
  DEL PEAK  9(19P13.11) WILD-TYPE      2      6
D16V2, multiclass
        clus
vv       DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE
  CLUS_1                             0                              37
  CLUS_2                             2                              21
  CLUS_3                             0                              19
  CLUS_4                             3                               7
  CLUS_5                             0                              18
  CLUS_6                             0                               8
  CLUS_7                             0                               2
  CLUS_8                             0                               6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3
  DEL PEAK  9(19P13.11) MUTATED        1      2      0
  DEL PEAK  9(19P13.11) WILD-TYPE     30     23     34
D16V3, multiclass
        clus
vv       DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE
  CLUS_1                             1                              30
  CLUS_2                             2                              23
  CLUS_3                             0                              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  9(19P13.11) MUTATED        0      1      0      2
  DEL PEAK  9(19P13.11) WILD-TYPE     16     22     31     18
D16V4, multiclass
        clus
vv       DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE
  CLUS_1                             0                              16
  CLUS_2                             1                              22
  CLUS_3                             0                              31
  CLUS_4                             2                              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"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  9(19P13.11) MUTATED        0      0      2      3
  DEL PEAK  9(19P13.11) WILD-TYPE     45     30     28     11
D16V5, multiclass
        clus
vv       DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE
  CLUS_1                             0                              45
  CLUS_2                             0                              30
  CLUS_3                             2                              28
  CLUS_4                             3                              11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  9(19P13.11) MUTATED        0      0      2      3
  DEL PEAK  9(19P13.11) WILD-TYPE     47     42     18      7
D16V6, multiclass
        clus
vv       DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE
  CLUS_1                             0                              47
  CLUS_2                             0                              42
  CLUS_3                             2                              18
  CLUS_4                             3                               7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  9(19P13.11) MUTATED        3      2      0      0
  DEL PEAK  9(19P13.11) WILD-TYPE     53     59      5      1
D16V7, multiclass
        clus
vv       DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE
  CLUS_1                             3                              53
  CLUS_2                             2                              59
  CLUS_3                             0                               5
  CLUS_4                             0                               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK  9(19P13.11) MUTATED        0      0      1      2      2      0
  DEL PEAK  9(19P13.11) WILD-TYPE     27     18     27      5     14     27
D16V8, multiclass
        clus
vv       DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE
  CLUS_1                             0                              27
  CLUS_2                             0                              18
  CLUS_3                             1                              27
  CLUS_4                             2                               5
  CLUS_5                             2                              14
  CLUS_6                             0                              27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  9(19P13.11) MUTATED        0      2      3      0
  DEL PEAK  9(19P13.11) WILD-TYPE     28     49     40      1
D16V9, multiclass
        clus
vv       DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE
  CLUS_1                             0                              28
  CLUS_2                             2                              49
  CLUS_3                             3                              40
  CLUS_4                             0                               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK  9(19P13.11) MUTATED        0      2      3      0
  DEL PEAK  9(19P13.11) WILD-TYPE     27     31     32     28
D16V10, multiclass
        clus
vv       DEL PEAK  9(19P13.11) MUTATED DEL PEAK  9(19P13.11) WILD-TYPE
  CLUS_1                             0                              27
  CLUS_2                             2                              31
  CLUS_3                             3                              32
  CLUS_4                             0                              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(17) Variable = DEL PEAK 10(22Q12.1) MUTATION ANALYSIS
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK 10(22Q12.1) MUTATED        4      5     10      0      0
  DEL PEAK 10(22Q12.1) WILD-TYPE     32     22      9     31     10
D17V1, multiclass
        clus
vv       DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE
  CLUS_1                            4                             32
  CLUS_2                            5                             22
  CLUS_3                           10                              9
  CLUS_4                            0                             31
  CLUS_5                            0                             10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK 10(22Q12.1) MUTATED        1      5      2      3      5      2
  DEL PEAK 10(22Q12.1) WILD-TYPE     36     18     17      7     13      6
                                vv
clus                             CLUS_7 CLUS_8
  DEL PEAK 10(22Q12.1) MUTATED        1      0
  DEL PEAK 10(22Q12.1) WILD-TYPE      1      6
D17V2, multiclass
        clus
vv       DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE
  CLUS_1                            1                             36
  CLUS_2                            5                             18
  CLUS_3                            2                             17
  CLUS_4                            3                              7
  CLUS_5                            5                             13
  CLUS_6                            2                              6
  CLUS_7                            1                              1
  CLUS_8                            0                              6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3
  DEL PEAK 10(22Q12.1) MUTATED        5      8      1
  DEL PEAK 10(22Q12.1) WILD-TYPE     26     17     33
D17V3, multiclass
        clus
vv       DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE
  CLUS_1                            5                             26
  CLUS_2                            8                             17
  CLUS_3                            1                             33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 10(22Q12.1) MUTATED        4      6      1      3
  DEL PEAK 10(22Q12.1) WILD-TYPE     12     17     30     17
D17V4, multiclass
        clus
vv       DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE
  CLUS_1                            4                             12
  CLUS_2                            6                             17
  CLUS_3                            1                             30
  CLUS_4                            3                             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 10(22Q12.1) MUTATED        2      5      8      4
  DEL PEAK 10(22Q12.1) WILD-TYPE     43     25     22     10
D17V5, multiclass
        clus
vv       DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE
  CLUS_1                            2                             43
  CLUS_2                            5                             25
  CLUS_3                            8                             22
  CLUS_4                            4                             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 10(22Q12.1) MUTATED        3      9      4      3
  DEL PEAK 10(22Q12.1) WILD-TYPE     44     33     16      7
D17V6, multiclass
        clus
vv       DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE
  CLUS_1                            3                             44
  CLUS_2                            9                             33
  CLUS_3                            4                             16
  CLUS_4                            3                              7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 10(22Q12.1) MUTATED        8     11      0      0
  DEL PEAK 10(22Q12.1) WILD-TYPE     48     50      5      1
D17V7, multiclass
        clus
vv       DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE
  CLUS_1                            8                             48
  CLUS_2                           11                             50
  CLUS_3                            0                              5
  CLUS_4                            0                              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK 10(22Q12.1) MUTATED        3      5      3      2      3      3
  DEL PEAK 10(22Q12.1) WILD-TYPE     24     13     25      5     13     24
D17V8, multiclass
        clus
vv       DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE
  CLUS_1                            3                             24
  CLUS_2                            5                             13
  CLUS_3                            3                             25
  CLUS_4                            2                              5
  CLUS_5                            3                             13
  CLUS_6                            3                             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 10(22Q12.1) MUTATED        0     10      9      0
  DEL PEAK 10(22Q12.1) WILD-TYPE     28     41     34      1
D17V9, multiclass
        clus
vv       DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE
  CLUS_1                            0                             28
  CLUS_2                           10                             41
  CLUS_3                            9                             34
  CLUS_4                            0                              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 10(22Q12.1) MUTATED        3      8      5      3
  DEL PEAK 10(22Q12.1) WILD-TYPE     24     25     30     25
D17V10, multiclass
        clus
vv       DEL PEAK 10(22Q12.1) MUTATED DEL PEAK 10(22Q12.1) WILD-TYPE
  CLUS_1                            3                             24
  CLUS_2                            8                             25
  CLUS_3                            5                             30
  CLUS_4                            3                             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(18) Variable = DEL PEAK 11(22Q13.32) MUTATION ANALYSIS
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEL PEAK 11(22Q13.32) MUTATED        2      2     11      0      0
  DEL PEAK 11(22Q13.32) WILD-TYPE     34     25      8     31     10
D18V1, multiclass
        clus
vv       DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE
  CLUS_1                             2                              34
  CLUS_2                             2                              25
  CLUS_3                            11                               8
  CLUS_4                             0                              31
  CLUS_5                             0                              10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK 11(22Q13.32) MUTATED        1      3      2      4      2      2
  DEL PEAK 11(22Q13.32) WILD-TYPE     36     20     17      6     16      6
                                 vv
clus                              CLUS_7 CLUS_8
  DEL PEAK 11(22Q13.32) MUTATED        1      0
  DEL PEAK 11(22Q13.32) WILD-TYPE      1      6
D18V2, multiclass
        clus
vv       DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE
  CLUS_1                             1                              36
  CLUS_2                             3                              20
  CLUS_3                             2                              17
  CLUS_4                             4                               6
  CLUS_5                             2                              16
  CLUS_6                             2                               6
  CLUS_7                             1                               1
  CLUS_8                             0                               6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3
  DEL PEAK 11(22Q13.32) MUTATED        4      6      1
  DEL PEAK 11(22Q13.32) WILD-TYPE     27     19     33
D18V3, multiclass
        clus
vv       DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE
  CLUS_1                             4                              27
  CLUS_2                             6                              19
  CLUS_3                             1                              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 11(22Q13.32) MUTATED        4      2      1      4
  DEL PEAK 11(22Q13.32) WILD-TYPE     12     21     30     16
D18V4, multiclass
        clus
vv       DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE
  CLUS_1                             4                              12
  CLUS_2                             2                              21
  CLUS_3                             1                              30
  CLUS_4                             4                              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 11(22Q13.32) MUTATED        2      4      5      4
  DEL PEAK 11(22Q13.32) WILD-TYPE     43     26     25     10
D18V5, multiclass
        clus
vv       DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE
  CLUS_1                             2                              43
  CLUS_2                             4                              26
  CLUS_3                             5                              25
  CLUS_4                             4                              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 11(22Q13.32) MUTATED        3      4      4      4
  DEL PEAK 11(22Q13.32) WILD-TYPE     44     38     16      6
D18V6, multiclass
        clus
vv       DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE
  CLUS_1                             3                              44
  CLUS_2                             4                              38
  CLUS_3                             4                              16
  CLUS_4                             4                               6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 11(22Q13.32) MUTATED        9      6      0      0
  DEL PEAK 11(22Q13.32) WILD-TYPE     47     55      5      1
D18V7, multiclass
        clus
vv       DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE
  CLUS_1                             9                              47
  CLUS_2                             6                              55
  CLUS_3                             0                               5
  CLUS_4                             0                               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEL PEAK 11(22Q13.32) MUTATED        4      0      3      2      3      3
  DEL PEAK 11(22Q13.32) WILD-TYPE     23     18     25      5     13     24
D18V8, multiclass
        clus
vv       DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE
  CLUS_1                             4                              23
  CLUS_2                             0                              18
  CLUS_3                             3                              25
  CLUS_4                             2                               5
  CLUS_5                             3                              13
  CLUS_6                             3                              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 11(22Q13.32) MUTATED        0      5     10      0
  DEL PEAK 11(22Q13.32) WILD-TYPE     28     46     33      1
D18V9, multiclass
        clus
vv       DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE
  CLUS_1                             0                              28
  CLUS_2                             5                              46
  CLUS_3                            10                              33
  CLUS_4                             0                               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEL PEAK 11(22Q13.32) MUTATED        4      3      5      3
  DEL PEAK 11(22Q13.32) WILD-TYPE     23     30     30     25
D18V10, multiclass
        clus
vv       DEL PEAK 11(22Q13.32) MUTATED DEL PEAK 11(22Q13.32) WILD-TYPE
  CLUS_1                             4                              23
  CLUS_2                             3                              30
  CLUS_3                             5                              30
  CLUS_4                             3                              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"
