[1] "ofn"        "-oTUCEC-TP"
[1] "opt"                    "-OPAGGREGRATED_CLUSTER"
[1] "tl" ""  
[1] "dx" ""  
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/UCEC-TP/19775642/UCEC-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/UCEC-TP/20144021/UCEC-TP.mergedcluster.txt"

nPatients in clinical file=545, in cluster file=548, common to both=545
[1]  12 545
[1] "MRNA_CNMF"
[1] 3
 1  2  3  4 
14 18 12 10 
 1  2  3  4 
14 18 12 10 
[1] "MRNA_CHIERARCHICAL"
[1] 3
 1  2  3  4  5 
14 10  7  7 16 
 1  2  3  4  5 
14 10  7  7 16 
[1] "CN_CNMF"
[1] 3
  1   2   3   4   5 
168 303  19   9  37 
  1   2   3   4   5 
168 303  19   9  37 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3 
164  91 173 
  1   2   3 
164  91 173 
[1] "RPPA_CNMF"
[1] 3
  1   2   3 
129 150 158 
  1   2   3 
129 150 158 
[1] "RPPA_CHIERARCHICAL"
[1] 3
  1   2   3   4 
110 183  93  51 
  1   2   3   4 
110 183  93  51 
[1] "MRNASEQ_CNMF"
[1] 3
  1   2   3 
233 154 155 
  1   2   3 
233 154 155 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3   4   5   6   7 
124  53  46  64 108  69  78 
  1   2   3   4   5   6   7 
124  53  46  64 108  69  78 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
221 151 163 
  1   2   3 
221 151 163 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3   4 
217  58 143 117 
  1   2   3   4 
217  58 143 117 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
  1   2   3 
170  95 134 
  1   2   3 
170  95 134 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2   3 
143 117 139 
  1   2   3 
143 117 139 
[1] "data2feature, selection=ALL"
 [1] "YEARS_TO_BIRTH"                      
 [2] "VITAL_STATUS"                        
 [3] "DAYS_TO_DEATH"                       
 [4] "DAYS_TO_LAST_FOLLOWUP"               
 [5] "TUMOR_TISSUE_SITE"                   
 [6] "PATHOLOGIC_STAGE"                    
 [7] "PATHOLOGY_T_STAGE"                   
 [8] "PATHOLOGY_N_STAGE"                   
 [9] "PATHOLOGY_M_STAGE"                   
[10] "GENDER"                              
[11] "DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS"
[12] "DAYS_TO_LAST_KNOWN_ALIVE"            
[13] "RADIATION_THERAPY"                   
[14] "HISTOLOGICAL_TYPE"                   
[15] "RESIDUAL_TUMOR"                      
[16] "RACE"                                
[17] "ETHNICITY"                           

Input Data has 17 rows and 545 columns.

[1] "Last Follow UP"
Variable 1:'YEARS_TO_BIRTH':	nDistinctValues=59,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITAL_STATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYS_TO_DEATH':	nDistinctValues=80,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DAYS_?TO', vnms) to deal with survival parameters seperately"
Variable 4:'DAYS_TO_LAST_FOLLOWUP':	nDistinctValues=447,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('FOLLOWUP', vnms) to deal with survival parameters seperately"
Variable 5:'TUMOR_TISSUE_SITE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "TUMOR_TISSUE_SITE excluded in the analysis because there is no case of (both >= 3) in the table below"
              ENDOMETRIAL OTHER  SPECIFY
freq.values   "544"       "1"           
freq.contrast "1"         "544"         
both >= 3     "FALSE"     "FALSE"       
Variable 6:'PATHOLOGIC_STAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "PATHOLOGIC_STAGE is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 7:'PATHOLOGY_T_STAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "PATHOLOGY_T_STAGE is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 8:'PATHOLOGY_N_STAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "PATHOLOGY_N_STAGE is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 9:'PATHOLOGY_M_STAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "PATHOLOGY_M_STAGE is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 10:'GENDER':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "GENDER is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 11:'DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS':	nDistinctValues=18,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DATE', vnms) to deal with survival parameters seperately"
Variable 12:'DAYS_TO_LAST_KNOWN_ALIVE':	nDistinctValues=13,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DAYS_?TO', vnms) to deal with survival parameters seperately"
Variable 13:'RADIATION_THERAPY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'HISTOLOGICAL_TYPE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'RESIDUAL_TUMOR':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'RACE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'ETHNICITY':	nDistinctValues=2,	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"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_OS, curated_overall_survival]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_TCGAOS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survivial parameters using [ind_MFS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_RFS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_BCR]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_Progression]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [index_additional_survival_time]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using condition: [is.null(surv.mat)&&(selection=='SURV')]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "************ conversion from categorical data to rank data ********** "
[1] "****** SUMMARY ***** "
Output Data has 545 columns, 1 survival variables, and 6 non-survival variables.
[1] "* survival variables: "
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "* non-survival variables: "
[1] "YEARS_TO_BIRTH"    "RADIATION_THERAPY" "HISTOLOGICAL_TYPE"
[4] "RESIDUAL_TUMOR"    "RACE"              "ETHNICITY"        
YEARS_TO_BIRTH, nv=59, binary=FALSE, numeric=TRUE
RADIATION_THERAPY, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL_TYPE, nv=3, binary=FALSE, numeric=FALSE
RESIDUAL_TUMOR, nv=4, binary=FALSE, numeric=FALSE
RACE, nv=5, binary=FALSE, numeric=FALSE
ETHNICITY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = MRNA_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 12  2
  subtype2 13  5
  subtype3 11  1
  subtype4  8  2
subtype1 subtype2 subtype3 subtype4 
      14       18       12       10 
subtype1 subtype2 subtype3 subtype4 
       2        5        1        2 
$subtype1
TCGA-A5-A0G2 TCGA-A5-A0G5 TCGA-A5-A0GA TCGA-A5-A0GB TCGA-AP-A051 TCGA-AP-A0LT 
      149.56        37.02        17.85        32.78       129.80        49.22 
TCGA-AX-A05S TCGA-AX-A05Z TCGA-AX-A060 TCGA-AX-A063 TCGA-AX-A064 TCGA-AX-A06F 
       13.58        46.45        35.34        79.46        34.98        51.09 
TCGA-B5-A0JR TCGA-B5-A0JZ 
       56.91        71.44 

$subtype2
TCGA-A5-A0G3 TCGA-A5-A0GH TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A054 TCGA-AP-A056 
       46.95        74.10        21.99       110.63        23.31        86.07 
TCGA-AP-A05A TCGA-AP-A05D TCGA-AP-A05H TCGA-AP-A05J TCGA-AP-A0L8 TCGA-AP-A0L9 
       63.91        57.80        45.53        36.89        48.79       125.42 
TCGA-AP-A0LD TCGA-AX-A06B TCGA-AX-A0IW TCGA-AX-A0J1 TCGA-B5-A0K4 TCGA-BK-A0CC 
      117.99        53.92        37.78        65.88        57.76        10.22 

$subtype3
TCGA-A5-A0GE TCGA-A5-A0GP TCGA-AP-A05P TCGA-AP-A0LH TCGA-AP-A0LJ TCGA-AX-A05T 
      105.37        46.55        20.91        36.36        46.72        33.21 
TCGA-AX-A05U TCGA-AX-A05W TCGA-AX-A05Y TCGA-AX-A06J TCGA-B5-A0K1 TCGA-BK-A0C9 
       29.69        80.55        88.24        30.02        36.49        35.90 

$subtype4
TCGA-A5-A0GM TCGA-A5-A0GU TCGA-AP-A05N TCGA-AP-A0LG TCGA-AP-A0LN TCGA-AP-A0LV 
       60.53        28.27        23.87        66.25        82.52        25.08 
TCGA-AX-A062 TCGA-B5-A0K0 TCGA-BG-A0LW TCGA-BG-A0MI 
       45.99        48.59        18.61        23.47 

subtype1 subtype2 subtype3 subtype4 
   13.58    10.22    20.91    18.61 
subtype1 subtype2 subtype3 subtype4 
  149.56   125.42   105.37    82.52 
subtype1 subtype2 subtype3 subtype4 
  47.835   55.840   36.425   37.130 
[1] "13.6 - 149.6 (47.8)" "10.2 - 125.4 (55.8)" "20.9 - 105.4 (36.4)"
[4] "18.6 - 82.5 (37.1)" 
D1V2, continuous
D1V3, binary
          cls
clus        0  1
  subtype1  7  7
  subtype2 12  6
  subtype3  9  3
  subtype4  9  1
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7    7
  subtype2   12    6
  subtype3    9    3
  subtype4    9    1
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         7       12        9        9
  YES        7        6        3        1
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      12
  subtype2                                       8
  subtype3                                      11
  subtype4                                      10
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             0                                 2
  subtype2                             0                                10
  subtype3                             1                                 0
  subtype4                             0                                 0
D1V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       12        8       11       10
  MIXED SEROUS AND ENDOMETRIOID                  0        0        1        0
  SEROUS ENDOMETRIAL ADENOCARCINOMA              2       10        0        0
[1] 3 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       R0 R1 R2 RX
  subtype1  8  2  1  0
  subtype2 14  1  1  1
  subtype3 11  0  0  0
  subtype4  9  0  0  0
D1V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  R0        8       14       11        9
  R1        2        1        0        0
  R2        1        1        0        0
  RX        0        1        0        0
[1] 4 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     1                         1
  subtype2                                0     0                         4
  subtype3                                1     3                         0
  subtype4                                0     0                         1
          vv
clus       WHITE
  subtype1    10
  subtype2    13
  subtype3     8
  subtype4     9
D1V6, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE        1        0        1        0
  ASIAN                                   1        0        3        0
  BLACK OR AFRICAN AMERICAN               1        4        0        1
  WHITE                                  10       13        8        9
[1] 4 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V7, binary
          cls
clus       0 1
  subtype1 1 6
  subtype2 1 6
  subtype3 0 9
  subtype4 0 3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1    6
  subtype2    1    6
  subtype3    0    9
  subtype4    0    3
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            1        1        0        0
  NOT HISPANIC OR LATINO        6        6        9        3
[1] 2 4
[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 = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1 13  1
  subtype2  6  4
  subtype3  4  3
  subtype4  7  0
  subtype5 14  2
subtype1 subtype2 subtype3 subtype4 subtype5 
      14       10        7        7       16 
subtype1 subtype2 subtype3 subtype4 subtype5 
       1        4        3        0        2 
$subtype1
TCGA-A5-A0G2 TCGA-A5-A0G5 TCGA-A5-A0GH TCGA-A5-A0GM TCGA-AP-A054 TCGA-AP-A056 
      149.56        37.02        74.10        60.53        23.31        86.07 
TCGA-AP-A05P TCGA-AP-A0LD TCGA-AX-A05Y TCGA-AX-A06B TCGA-AX-A06F TCGA-AX-A0J1 
       20.91       117.99        88.24        53.92        51.09        65.88 
TCGA-B5-A0K4 TCGA-BK-A0CC 
       57.76        10.22 

$subtype2
TCGA-A5-A0G3 TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A05A TCGA-AP-A05D TCGA-AP-A05H 
       46.95        21.99       110.63        63.91        57.80        45.53 
TCGA-AP-A05J TCGA-AP-A0L8 TCGA-AP-A0L9 TCGA-AX-A0IW 
       36.89        48.79       125.42        37.78 

$subtype3
TCGA-A5-A0GA TCGA-A5-A0GP TCGA-AP-A0LH TCGA-AX-A05S TCGA-AX-A05W TCGA-AX-A05Z 
       17.85        46.55        36.36        13.58        80.55        46.45 
TCGA-AX-A064 
       34.98 

$subtype4
TCGA-A5-A0GB TCGA-AP-A051 TCGA-AP-A0LT TCGA-AX-A060 TCGA-AX-A063 TCGA-B5-A0JR 
       32.78       129.80        49.22        35.34        79.46        56.91 
TCGA-B5-A0JZ 
       71.44 

$subtype5
TCGA-A5-A0GE TCGA-A5-A0GU TCGA-AP-A05N TCGA-AP-A0LG TCGA-AP-A0LJ TCGA-AP-A0LN 
      105.37        28.27        23.87        66.25        46.72        82.52 
TCGA-AP-A0LV TCGA-AX-A05T TCGA-AX-A05U TCGA-AX-A062 TCGA-AX-A06J TCGA-B5-A0K0 
       25.08        33.21        29.69        45.99        30.02        48.59 
TCGA-B5-A0K1 TCGA-BG-A0LW TCGA-BG-A0MI TCGA-BK-A0C9 
       36.49        18.61        23.47        35.90 

subtype1 subtype2 subtype3 subtype4 subtype5 
   10.22    21.99    13.58    32.78    18.61 
subtype1 subtype2 subtype3 subtype4 subtype5 
  149.56   125.42    80.55   129.80   105.37 
subtype1 subtype2 subtype3 subtype4 subtype5 
  59.145   47.870   36.360   56.910   34.555 
[1] "10.2 - 149.6 (59.1)" "22.0 - 125.4 (47.9)" "13.6 - 80.5 (36.4)" 
[4] "32.8 - 129.8 (56.9)" "18.6 - 105.4 (34.6)"
D2V2, continuous
D2V3, binary
          cls
clus        0  1
  subtype1  9  5
  subtype2  7  3
  subtype3  5  2
  subtype4  3  4
  subtype5 13  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    9    5
  subtype2    7    3
  subtype3    5    2
  subtype4    3    4
  subtype5   13    3
     clus
vv    subtype1 subtype2 subtype3 subtype4 subtype5
  NO         9        7        5        3       13
  YES        5        3        2        4        3
[1] 2 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      11
  subtype2                                       1
  subtype3                                       6
  subtype4                                       7
  subtype5                                      16
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             0                                 3
  subtype2                             0                                 9
  subtype3                             1                                 0
  subtype4                             0                                 0
  subtype5                             0                                 0
D2V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       11        1        6        7
  MIXED SEROUS AND ENDOMETRIOID                  0        0        1        0
  SEROUS ENDOMETRIAL ADENOCARCINOMA              3        9        0        0
                                         clus
vv                                        subtype5
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       16
  MIXED SEROUS AND ENDOMETRIOID                  0
  SEROUS ENDOMETRIAL ADENOCARCINOMA              0
[1] 3 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       R0 R1 R2 RX
  subtype1 11  1  0  1
  subtype2  9  0  1  0
  subtype3  4  1  1  0
  subtype4  4  1  0  0
  subtype5 14  0  0  0
D2V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4 subtype5
  R0       11        9        4        4       14
  R1        1        0        1        1        0
  R2        0        1        1        0        0
  RX        1        0        0        0        0
[1] 4 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     2                         2
  subtype2                                0     0                         3
  subtype3                                0     1                         0
  subtype4                                1     0                         0
  subtype5                                1     1                         1
          vv
clus       WHITE
  subtype1     9
  subtype2     7
  subtype3     5
  subtype4     6
  subtype5    13
D2V6, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4 subtype5
  AMERICAN INDIAN OR ALASKA NATIVE        0        0        0        1        1
  ASIAN                                   2        0        1        0        1
  BLACK OR AFRICAN AMERICAN               2        3        0        0        1
  WHITE                                   9        7        5        6       13
[1] 4 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V7, binary
          cls
clus       0 1
  subtype1 1 9
  subtype2 0 2
  subtype3 1 5
  subtype4 0 2
  subtype5 0 6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1    9
  subtype2    0    2
  subtype3    1    5
  subtype4    0    2
  subtype5    0    6
                        clus
vv                       subtype1 subtype2 subtype3 subtype4 subtype5
  HISPANIC OR LATINO            1        0        1        0        0
  NOT HISPANIC OR LATINO        9        2        5        2        6
[1] 2 5
[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 = CN_CNMF
D3V1, survival
          sevent
clus2        0   1
  subtype1 121  46
  subtype2 278  24
  subtype3  16   3
  subtype4   9   0
  subtype5  29   8
subtype1 subtype2 subtype3 subtype4 subtype5 
     167      302       19        9       37 
subtype1 subtype2 subtype3 subtype4 subtype5 
      46       24        3        0        8 
$subtype1
TCGA-2E-A9G8 TCGA-5B-A90C TCGA-A5-A0G5 TCGA-A5-A0GJ TCGA-A5-A0GR TCGA-A5-A0R6 
       41.06        39.52        37.02        65.75        36.82        37.91 
TCGA-A5-A1OG TCGA-A5-A1OH TCGA-A5-A2K2 TCGA-A5-A2K4 TCGA-A5-A3LP TCGA-A5-A7WK 
       31.99        36.33       118.19        28.64        14.96        18.41 
TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A2QK TCGA-AJ-A2QM TCGA-AJ-A3BD TCGA-AJ-A3BF 
       20.25        14.43         0.39        29.39        34.16         1.12 
TCGA-AJ-A3BI TCGA-AJ-A3EJ TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NF TCGA-AJ-A3NH 
       18.90         1.64        22.26        20.81        21.21        10.19 
TCGA-AJ-A3QS TCGA-AJ-A3TW TCGA-AJ-A6NU TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A05A 
       16.87        16.87        20.78        21.99       110.63        63.91 
TCGA-AP-A05D TCGA-AP-A05H TCGA-AP-A05J TCGA-AP-A0L8 TCGA-AP-A0L9 TCGA-AP-A0LF 
       57.80        45.53        36.89        48.79       125.42        93.99 
TCGA-AP-A0LI TCGA-AP-A1DQ TCGA-AP-A3K1 TCGA-AP-A5FX TCGA-AW-A1PO TCGA-AX-A06B 
       97.71        46.78        21.90        36.13         0.56        53.92 
TCGA-AX-A0IU TCGA-AX-A0IW TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CF 
       28.54        37.78        16.96        13.55        20.28        76.83 
TCGA-AX-A1CP TCGA-AX-A1CR TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 TCGA-AX-A2H8 
       36.39        11.08         4.77        30.12        71.24        61.18 
TCGA-AX-A2HF TCGA-AX-A2HK TCGA-AX-A2IO TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3G1 
       19.36         2.96        64.93         0.56        43.82        20.52 
TCGA-AX-A3G3 TCGA-AX-A3G4 TCGA-AX-A3G6 TCGA-AX-A3G7 TCGA-AX-A3GI TCGA-B5-A0JN 
        1.38         0.30         0.26         0.30         0.39        80.38 
TCGA-B5-A0K3 TCGA-B5-A0K8 TCGA-B5-A0KB TCGA-B5-A11I TCGA-B5-A1MS TCGA-B5-A1MU 
       27.29        27.85        27.09        75.72       102.31        50.89 
TCGA-B5-A1MY TCGA-B5-A1N2 TCGA-B5-A3FD TCGA-B5-A3S1 TCGA-B5-A5OD TCGA-B5-A5OE 
       11.87        12.79        33.11        29.65        34.13        34.95 
TCGA-BG-A0M6 TCGA-BG-A0M8 TCGA-BG-A0YV TCGA-BG-A3PP TCGA-BK-A0CC TCGA-BK-A139 
       22.06        66.41        12.56        22.39        10.22        10.16 
TCGA-BK-A26L TCGA-BS-A0U9 TCGA-BS-A0V8 TCGA-D1-A0ZP TCGA-D1-A0ZZ TCGA-D1-A15V 
       24.13        92.88        83.64        29.95        22.55        39.48 
TCGA-D1-A16G TCGA-D1-A16I TCGA-D1-A16N TCGA-D1-A16S TCGA-D1-A179 TCGA-D1-A17K 
       27.42        11.51        31.07        18.67        14.73        28.08 
TCGA-D1-A1NU TCGA-D1-A1NW TCGA-D1-A1NX TCGA-D1-A1O0 TCGA-D1-A2G7 TCGA-D1-A3DG 
       13.22         0.72        18.25         2.07        58.95         4.27 
TCGA-D1-A3DH TCGA-D1-A3JP TCGA-D1-A3JQ TCGA-DF-A2KR TCGA-DF-A2L0 TCGA-DI-A1NN 
       18.84        16.93        17.29        71.61        25.91        35.38 
TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QU TCGA-DI-A2QY TCGA-E6-A1LZ TCGA-E6-A8L9 
        9.37        12.39        31.10       110.10        79.10        33.30 
TCGA-EO-A1Y5 TCGA-EO-A1Y7 TCGA-EO-A1Y8 TCGA-EO-A2CG TCGA-EO-A2CH TCGA-EO-A3AS 
       10.75        49.15        37.71        51.42        19.40        34.39 
TCGA-EO-A3AZ TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1GC TCGA-EY-A1GJ 
       27.16        26.96        22.26        16.34        54.15        23.90 
TCGA-EY-A1GM TCGA-EY-A1GR TCGA-EY-A1GS TCGA-EY-A1GV TCGA-EY-A1GW TCGA-EY-A210 
       32.71        17.62        22.03        15.81        11.08        12.59 
TCGA-EY-A212 TCGA-EY-A214 TCGA-EY-A2ON TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A3QX 
       10.19        14.40        20.05        29.10        27.35        32.52 
TCGA-EY-A4KR TCGA-EY-A547 TCGA-EY-A54A TCGA-EY-A72D TCGA-FI-A2CY TCGA-FI-A2D2 
       11.38        17.92        14.70         5.88        68.38        39.95 
TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY TCGA-FI-A2F8 TCGA-FI-A2F9 
       96.69        59.01         9.34        28.93        30.67        59.28 
TCGA-FI-A3PV TCGA-FI-A3PX TCGA-H5-A2HR TCGA-JU-AAVI TCGA-K6-A3WQ TCGA-KJ-A3U4 
       41.56        78.38         1.28         7.76        14.04         2.43 
TCGA-KP-A3VZ TCGA-KP-A3W0 TCGA-KP-A3W1 TCGA-KP-A3W3 TCGA-KP-A3W4 TCGA-PG-A5BC 
       23.74        13.28         9.47        26.10        18.21        23.24 
TCGA-PG-A7D5 TCGA-PG-A914 TCGA-PG-A915 TCGA-QS-A8F1 TCGA-SL-A6J9 
       38.70        22.59         8.19         4.44         0.07 

$subtype2
TCGA-4E-A92E TCGA-5S-A9Q8 TCGA-A5-A0G1 TCGA-A5-A0G9 TCGA-A5-A0GA TCGA-A5-A0GB 
        0.43        10.29       106.88        83.51        17.85        32.78 
TCGA-A5-A0GD TCGA-A5-A0GE TCGA-A5-A0GG TCGA-A5-A0GH TCGA-A5-A0GI TCGA-A5-A0GM 
      112.54       105.37       123.68        74.10        88.18        60.53 
TCGA-A5-A0GP TCGA-A5-A0GQ TCGA-A5-A0GU TCGA-A5-A0GW TCGA-A5-A0GX TCGA-A5-A0R8 
       46.55        73.87        28.27        23.21        68.65        19.59 
TCGA-A5-A0R9 TCGA-A5-A0RA TCGA-A5-A0VP TCGA-A5-A0VQ TCGA-A5-A1OF TCGA-A5-A1OJ 
       24.62        29.06        42.35        15.95        31.99        33.07 
TCGA-A5-A1OK TCGA-A5-A2K5 TCGA-A5-A2K7 TCGA-A5-A7WJ TCGA-A5-AB3J TCGA-AJ-A23O 
       30.15        24.72        34.95        11.21        16.83        10.26 
TCGA-AJ-A2QL TCGA-AJ-A2QO TCGA-AJ-A3BG TCGA-AJ-A3EK TCGA-AJ-A3EL TCGA-AJ-A3NC 
       19.79        34.36        18.08        14.66        22.49        36.99 
TCGA-AJ-A3NE TCGA-AJ-A3OJ TCGA-AJ-A3OK TCGA-AJ-A5DV TCGA-AJ-A5DW TCGA-AJ-A8CT 
       20.65        15.35        15.95        22.32        12.82         2.70 
TCGA-AJ-A8CV TCGA-AP-A051 TCGA-AP-A054 TCGA-AP-A056 TCGA-AP-A059 TCGA-AP-A05N 
       35.11       129.80        23.31        86.07        48.03        23.87 
TCGA-AP-A05O TCGA-AP-A05P TCGA-AP-A0LD TCGA-AP-A0LE TCGA-AP-A0LG TCGA-AP-A0LH 
       12.62        20.91       117.99       110.37        66.25        36.36 
TCGA-AP-A0LJ TCGA-AP-A0LL TCGA-AP-A0LM TCGA-AP-A0LN TCGA-AP-A0LP TCGA-AP-A0LQ 
       46.72        83.97        27.12        82.52        61.64        80.78 
TCGA-AP-A0LS TCGA-AP-A0LT TCGA-AP-A0LV TCGA-AP-A1DH TCGA-AP-A1DK TCGA-AP-A1DM 
       95.47        49.22        25.08        71.67        90.97        55.89 
TCGA-AP-A1DP TCGA-AP-A1DR TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AP-A1E3 
       35.54        49.15         6.71        60.23        45.86        27.85 
TCGA-AP-A1E4 TCGA-AX-A05S TCGA-AX-A05T TCGA-AX-A05U TCGA-AX-A05Y TCGA-AX-A05Z 
       16.24        13.58        33.21        29.69        88.24        46.45 
TCGA-AX-A060 TCGA-AX-A062 TCGA-AX-A063 TCGA-AX-A064 TCGA-AX-A06D TCGA-AX-A06F 
       35.34        45.99        79.46        34.98        12.26        51.09 
TCGA-AX-A06H TCGA-AX-A06J TCGA-AX-A06L TCGA-AX-A0IS TCGA-AX-A0IZ TCGA-AX-A0J0 
       27.39        30.02        60.66        35.01        43.82        40.11 
TCGA-AX-A0J1 TCGA-AX-A1C4 TCGA-AX-A1C5 TCGA-AX-A1C9 TCGA-AX-A1CC TCGA-AX-A1CE 
       65.88        13.28        19.20        15.25        12.43        20.05 
TCGA-AX-A1CI TCGA-AX-A1CJ TCGA-AX-A1CK TCGA-AX-A1CN TCGA-AX-A2HA TCGA-AX-A2HC 
       72.56        73.41        67.50        25.12        81.37        34.32 
TCGA-AX-A2HD TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A2HJ TCGA-AX-A2IN TCGA-AX-A3FS 
       46.49        26.33        17.75        30.74        31.13         0.03 
TCGA-AX-A3FT TCGA-AX-A3G8 TCGA-AX-A3G9 TCGA-AX-A3GB TCGA-B5-A0JR TCGA-B5-A0JS 
        0.20         0.99        18.35        14.47        56.91        86.37 
TCGA-B5-A0JU TCGA-B5-A0JV TCGA-B5-A0JX TCGA-B5-A0JY TCGA-B5-A0JZ TCGA-B5-A0K0 
       59.24        86.01        58.75        69.27        71.44        48.59 
TCGA-B5-A0K1 TCGA-B5-A0K2 TCGA-B5-A0K6 TCGA-B5-A0K7 TCGA-B5-A0K9 TCGA-B5-A11F 
       36.49        72.62        64.21        63.55        11.01       185.79 
TCGA-B5-A11G TCGA-B5-A11H TCGA-B5-A11J TCGA-B5-A11L TCGA-B5-A11N TCGA-B5-A11O 
      113.36        88.34        54.44        73.64        61.68        40.50 
TCGA-B5-A11U TCGA-B5-A11W TCGA-B5-A11Y TCGA-B5-A11Z TCGA-B5-A121 TCGA-B5-A1MR 
       16.73        19.50        18.41        17.36        16.57       225.50 
TCGA-B5-A1MV TCGA-B5-A1MW TCGA-B5-A1MX TCGA-B5-A1MZ TCGA-B5-A3FA TCGA-B5-A3FB 
       51.45        14.70        48.43        15.29        96.30        78.81 
TCGA-B5-A3FC TCGA-B5-A3FH TCGA-B5-A5OC TCGA-BG-A0LW TCGA-BG-A0LX TCGA-BG-A0M3 
       62.14        27.65        41.06        18.61        20.19        35.21 
TCGA-BG-A0M7 TCGA-BG-A0M9 TCGA-BG-A0MA TCGA-BG-A0MC TCGA-BG-A0MG TCGA-BG-A0MI 
       63.68        28.27        10.72        41.52        48.56        23.47 
TCGA-BG-A0MK TCGA-BG-A0MO TCGA-BG-A0MQ TCGA-BG-A0MU TCGA-BG-A0VV TCGA-BG-A0VW 
       43.30        43.04        59.74        20.28        26.66        16.34 
TCGA-BG-A0VX TCGA-BG-A0VZ TCGA-BG-A0W2 TCGA-BG-A0YU TCGA-BG-A186 TCGA-BG-A187 
       34.29        52.64        56.58        14.83        13.78        14.73 
TCGA-BG-A18A TCGA-BG-A18B TCGA-BG-A220 TCGA-BG-A222 TCGA-BG-A2AD TCGA-BG-A2L7 
       14.01        15.45        14.27         9.57        20.02        20.12 
TCGA-BG-A3EW TCGA-BK-A0CA TCGA-BK-A0CB TCGA-BK-A13B TCGA-BK-A13C TCGA-BK-A56F 
       11.31        34.98         6.21        31.76        24.99        13.18 
TCGA-BK-A6W3 TCGA-BK-A6W4 TCGA-BS-A0T9 TCGA-BS-A0TA TCGA-BS-A0TC TCGA-BS-A0TD 
       10.03         9.86        46.95        24.33        85.55        78.21 
TCGA-BS-A0TG TCGA-BS-A0TJ TCGA-BS-A0U5 TCGA-BS-A0U7 TCGA-BS-A0U8 TCGA-BS-A0UA 
       77.95        67.99        96.49        30.74        97.41        88.34 
TCGA-BS-A0UF TCGA-BS-A0UJ TCGA-BS-A0UL TCGA-BS-A0V4 TCGA-BS-A0V6 TCGA-BS-A0V7 
       85.84        82.39        81.57        59.51        89.59        63.58 
TCGA-BS-A0VI TCGA-BS-A0WQ TCGA-D1-A0ZN TCGA-D1-A0ZO TCGA-D1-A0ZR TCGA-D1-A0ZS 
       86.99        66.48        16.83        19.79         0.56         4.87 
TCGA-D1-A0ZV TCGA-D1-A101 TCGA-D1-A103 TCGA-D1-A15W TCGA-D1-A15X TCGA-D1-A15Z 
       23.93         1.74        21.99        30.08        29.88         1.91 
TCGA-D1-A160 TCGA-D1-A161 TCGA-D1-A163 TCGA-D1-A167 TCGA-D1-A16B TCGA-D1-A16D 
        3.68        29.33        32.58        15.72        36.36        37.51 
TCGA-D1-A16E TCGA-D1-A16J TCGA-D1-A16O TCGA-D1-A16Q TCGA-D1-A16R TCGA-D1-A16X 
       36.79        29.92        33.63        10.65         0.69         3.65 
TCGA-D1-A16Y TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A176 TCGA-D1-A177 TCGA-D1-A17A 
       17.49        19.53         6.64        30.15        18.02         1.58 
TCGA-D1-A17B TCGA-D1-A17C TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17H TCGA-D1-A17L 
        7.00         0.99        30.44         1.28        28.01        26.37 
TCGA-D1-A17M TCGA-D1-A17N TCGA-D1-A17Q TCGA-D1-A17S TCGA-D1-A17T TCGA-D1-A17U 
       10.22         1.51         1.78        24.30         2.33        22.92 
TCGA-D1-A1NS TCGA-D1-A1NY TCGA-D1-A1NZ TCGA-D1-A1O5 TCGA-D1-A1O7 TCGA-D1-A1O8 
        1.41        16.87        18.02        15.06         1.05         3.95 
TCGA-D1-A2G0 TCGA-D1-A3DA TCGA-DF-A2KV TCGA-DF-A2KY TCGA-DF-A2KZ TCGA-DI-A0WH 
       48.79        15.88        89.33        10.92        27.16        16.31 
TCGA-DI-A1BU TCGA-DI-A1BY TCGA-DI-A1C3 TCGA-E6-A1LX TCGA-E6-A2P8 TCGA-E6-A2P9 
       39.29        36.62        24.30        23.38         2.37        45.57 
TCGA-EC-A1NJ TCGA-EC-A1QX TCGA-EC-A24G TCGA-EO-A22R TCGA-EO-A22S TCGA-EO-A22T 
       16.04         7.36        16.80        61.74        61.55        66.90 
TCGA-EO-A22U TCGA-EO-A22X TCGA-EO-A3AU TCGA-EO-A3AV TCGA-EO-A3AY TCGA-EO-A3B0 
       46.26        57.60        50.73        35.15        38.07        17.88 
TCGA-EO-A3KX TCGA-EY-A1G8 TCGA-EY-A1GD TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GH 
       38.47        14.99        53.88        24.36        27.16        23.34 
TCGA-EY-A1GI TCGA-EY-A1GK TCGA-EY-A1GL TCGA-EY-A1GT TCGA-EY-A1GU TCGA-EY-A1H0 
       23.34        22.78        33.34        16.11        12.43        19.33 
TCGA-EY-A215 TCGA-EY-A2OM TCGA-EY-A2OP TCGA-EY-A548 TCGA-EY-A5W2 TCGA-FI-A2CX 
       18.87        22.82        31.04        14.14        16.96        66.77 
TCGA-FI-A2D0 TCGA-FI-A2D5 TCGA-FI-A2D6 TCGA-FI-A2F4 TCGA-PG-A6IB TCGA-PG-A916 
       33.63        13.84         8.65        73.32        21.30        17.16 
TCGA-PG-A917 TCGA-QF-A5YS TCGA-QF-A5YT TCGA-QS-A5YQ TCGA-QS-A5YR TCGA-SJ-A6ZI 
        6.97        22.65        39.95        24.95        23.64        20.75 
TCGA-SJ-A6ZJ TCGA-SL-A6JA 
       18.28         0.23 

$subtype3
TCGA-A5-A0G2 TCGA-A5-A0GV TCGA-A5-A2K3 TCGA-AJ-A2QN TCGA-AX-A05W TCGA-AX-A3FZ 
      149.56        54.02        66.15        35.15        80.55         0.07 
TCGA-B5-A0JT TCGA-B5-A11P TCGA-B5-A3F9 TCGA-BG-A0MS TCGA-BG-A0VT TCGA-BG-A18C 
       55.30        52.04       136.60        61.87        24.39        15.45 
TCGA-BG-A2AE TCGA-BS-A0TE TCGA-BS-A0TI TCGA-BS-A0UT TCGA-D1-A169 TCGA-D1-A16V 
       23.70         4.80        61.87        72.72        37.32         3.95 
TCGA-EY-A1G7 
        6.21 

$subtype4
TCGA-A5-A0GN TCGA-AP-A1DO TCGA-BG-A0MT TCGA-BG-A0RY TCGA-BG-A0W1 TCGA-D1-A0ZQ 
       60.53        31.30        21.17        15.42        52.83         8.55 
TCGA-EY-A1GO TCGA-EY-A1GP TCGA-EY-A2OO 
       19.27        18.84        45.76 

$subtype5
TCGA-A5-A0R7 TCGA-A5-A3LO TCGA-AJ-A3BK TCGA-AJ-A3I9 TCGA-AJ-A3NG TCGA-AJ-A3OL 
       17.59        25.51        33.90        17.06        15.62        14.76 
TCGA-AJ-A8CW TCGA-AP-A0LO TCGA-AX-A2H7 TCGA-B5-A0K4 TCGA-B5-A11E TCGA-B5-A11Q 
        0.13        33.40        40.80        57.76        59.84        32.09 
TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11V TCGA-BG-A0M0 TCGA-BG-A0M2 TCGA-BG-A0M4 
       77.23        73.28        19.56        19.33        20.94        71.24 
TCGA-BG-A221 TCGA-BK-A0C9 TCGA-BK-A4ZD TCGA-BS-A0UV TCGA-D1-A0ZU TCGA-D1-A102 
        1.81        35.90        16.64        73.25        28.67         4.44 
TCGA-D1-A165 TCGA-D1-A168 TCGA-D1-A17R TCGA-D1-A2G5 TCGA-D1-A2G6 TCGA-E6-A1M0 
        0.66        36.10        11.15        47.84         8.48        58.95 
TCGA-EO-A22Y TCGA-EO-A3L0 TCGA-EY-A1GQ TCGA-EY-A1GX TCGA-EY-A549 TCGA-FI-A2D4 
       51.52        51.09        17.88        37.05        19.89         7.99 
TCGA-QS-A744 
       14.83 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.07     0.03     0.07     8.55     0.13 
subtype1 subtype2 subtype3 subtype4 subtype5 
  125.42   225.50   149.56    60.53    77.23 
subtype1 subtype2 subtype3 subtype4 subtype5 
  23.900   29.195   52.040   21.170   25.510 
[1] "0.1 - 125.4 (23.9)" "0.0 - 225.5 (29.2)" "0.1 - 149.6 (52.0)"
[4] "8.6 - 60.5 (21.2)"  "0.1 - 77.2 (25.5)" 
D3V2, continuous
D3V3, binary
          cls
clus         0   1
  subtype1  80  69
  subtype2 165 126
  subtype3  15   3
  subtype4   4   5
  subtype5  20  15
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   80   69
  subtype2  165  126
  subtype3   15    3
  subtype4    4    5
  subtype5   20   15
     clus
vv    subtype1 subtype2 subtype3 subtype4 subtype5
  NO        80      165       15        4       20
  YES       69      126        3        5       15
[1] 2 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      50
  subtype2                                     290
  subtype3                                      17
  subtype4                                       8
  subtype5                                      36
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            12                               106
  subtype2                             8                                 5
  subtype3                             0                                 2
  subtype4                             1                                 0
  subtype5                             1                                 0
D3V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       50      290       17        8
  MIXED SEROUS AND ENDOMETRIOID                 12        8        0        1
  SEROUS ENDOMETRIAL ADENOCARCINOMA            106        5        2        0
                                         clus
vv                                        subtype5
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       36
  MIXED SEROUS AND ENDOMETRIOID                  1
  SEROUS ENDOMETRIAL ADENOCARCINOMA              0
[1] 3 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1 105   9  10  16
  subtype2 216  13   5  19
  subtype3  12   0   1   1
  subtype4   9   0   0   0
  subtype5  28   0   1   1
D3V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4 subtype5
  R0      105      216       12        9       28
  R1        9       13        0        0        0
  R2       10        5        1        0        1
  RX       16       19        1        0        1
[1] 4 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     2                        51
  subtype2                                3    15                        47
  subtype3                                0     3                         1
  subtype4                                0     0                         1
  subtype5                                0     0                         6
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         3    97
  subtype2                                         5   219
  subtype3                                         0    15
  subtype4                                         0     8
  subtype5                                         1    29
D3V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE                 1        3        0        0
  ASIAN                                            2       15        3        0
  BLACK OR AFRICAN AMERICAN                       51       47        1        1
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        3        5        0        0
  WHITE                                           97      219       15        8
                                           clus
vv                                          subtype5
  AMERICAN INDIAN OR ALASKA NATIVE                 0
  ASIAN                                            0
  BLACK OR AFRICAN AMERICAN                        6
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        1
  WHITE                                           29
[1] 5 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V7, binary
          cls
clus         0   1
  subtype1   7 114
  subtype2   8 204
  subtype3   0  15
  subtype4   0   9
  subtype5   0  30
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7  114
  subtype2    8  204
  subtype3    0   15
  subtype4    0    9
  subtype5    0   30
                        clus
vv                       subtype1 subtype2 subtype3 subtype4 subtype5
  HISPANIC OR LATINO            7        8        0        0        0
  NOT HISPANIC OR LATINO      114      204       15        9       30
[1] 2 5
[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 = METHLYATION_CNMF
D4V1, survival
          sevent
clus2        0   1
  subtype1 128  34
  subtype2  80  11
  subtype3 153  20
subtype1 subtype2 subtype3 
     162       91      173 
subtype1 subtype2 subtype3 
      34       11       20 
$subtype1
TCGA-2E-A9G8 TCGA-5B-A90C TCGA-A5-A0G1 TCGA-A5-A0GR TCGA-A5-A1OF TCGA-A5-A1OG 
       41.06        39.52       106.88        36.82        31.99        31.99 
TCGA-A5-A1OH TCGA-A5-A2K2 TCGA-A5-A2K3 TCGA-A5-A2K4 TCGA-A5-A3LP TCGA-A5-A7WK 
       36.33       118.19        66.15        28.64        14.96        18.41 
TCGA-AJ-A23M TCGA-AJ-A2QM TCGA-AJ-A3BF TCGA-AJ-A3EJ TCGA-AJ-A3EL TCGA-AJ-A3EM 
       20.25        29.39         1.12         1.64        22.49        22.26 
TCGA-AJ-A3IA TCGA-AJ-A3NE TCGA-AJ-A3NF TCGA-AJ-A3NH TCGA-AJ-A3OJ TCGA-AJ-A3QS 
       20.81        20.65        21.21        10.19        15.35        16.87 
TCGA-AJ-A3TW TCGA-AP-A059 TCGA-AP-A0LF TCGA-AP-A0LM TCGA-AP-A1DK TCGA-AP-A1E4 
       16.87        48.03        93.99        27.12        90.97        16.24 
TCGA-AP-A3K1 TCGA-AP-A5FX TCGA-AX-A06D TCGA-AX-A0IZ TCGA-AX-A1C5 TCGA-AX-A1C7 
       21.90        36.13        12.26        43.82        19.20        16.96 
TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CC TCGA-AX-A1CF TCGA-AX-A1CN TCGA-AX-A1CR 
       13.55        20.28        12.43        76.83        25.12        11.08 
TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HF TCGA-AX-A2HG 
        4.77        30.12        71.24        61.18        19.36        26.33 
TCGA-AX-A2HH TCGA-AX-A2HK TCGA-AX-A2IN TCGA-AX-A3FT TCGA-AX-A3FZ TCGA-AX-A3G3 
       17.75         2.96        31.13         0.20         0.07         1.38 
TCGA-AX-A3G6 TCGA-AX-A3G7 TCGA-AX-A3G8 TCGA-AX-A3GI TCGA-B5-A0K8 TCGA-B5-A0KB 
        0.26         0.30         0.99         0.39        27.85        27.09 
TCGA-B5-A11I TCGA-B5-A11X TCGA-B5-A1MR TCGA-B5-A1MU TCGA-B5-A1MY TCGA-B5-A1N2 
       75.72        19.59       225.50        50.89        11.87        12.79 
TCGA-B5-A3FA TCGA-B5-A3FB TCGA-B5-A3S1 TCGA-B5-A5OC TCGA-B5-A5OD TCGA-B5-A5OE 
       96.30        78.81        29.65        41.06        34.13        34.95 
TCGA-BG-A0YV TCGA-BG-A18C TCGA-BG-A220 TCGA-BG-A221 TCGA-BG-A2AE TCGA-BK-A0CC 
       12.56        15.45        14.27         1.81        23.70        10.22 
TCGA-BK-A139 TCGA-BK-A26L TCGA-BS-A0U9 TCGA-BS-A0V8 TCGA-D1-A0ZP TCGA-D1-A0ZS 
       10.16        24.13        92.88        83.64        29.95         4.87 
TCGA-D1-A0ZZ TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A168 TCGA-D1-A16G TCGA-D1-A16I 
       22.55        39.48        29.88        36.10        27.42        11.51 
TCGA-D1-A16J TCGA-D1-A16S TCGA-D1-A179 TCGA-D1-A17K TCGA-D1-A1NU TCGA-D1-A1NW 
       29.92        18.67        14.73        28.08        13.22         0.72 
TCGA-D1-A1NX TCGA-D1-A1O8 TCGA-D1-A2G0 TCGA-D1-A3DG TCGA-D1-A3DH TCGA-D1-A3JP 
       18.25         3.95        48.79         4.27        18.84        16.93 
TCGA-D1-A3JQ TCGA-DF-A2KY TCGA-DI-A1BU TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT 
       17.29        10.92        39.29        35.38         9.37        12.39 
TCGA-E6-A1LZ TCGA-E6-A2P8 TCGA-E6-A8L9 TCGA-EC-A1QX TCGA-EO-A1Y5 TCGA-EO-A1Y8 
       79.10         2.37        33.30         7.36        10.75        37.71 
TCGA-EO-A22T TCGA-EO-A22X TCGA-EO-A3AV TCGA-EO-A3AZ TCGA-EO-A3B1 TCGA-EO-A3KU 
       66.90        57.60        35.15        27.16        26.96        22.26 
TCGA-EO-A3KW TCGA-EY-A1G7 TCGA-EY-A1GC TCGA-EY-A1GJ TCGA-EY-A1GM TCGA-EY-A1GO 
       16.34         6.21        54.15        23.90        32.71        19.27 
TCGA-EY-A1GP TCGA-EY-A1GS TCGA-EY-A1GV TCGA-EY-A212 TCGA-EY-A214 TCGA-EY-A2ON 
       18.84        22.03        15.81        10.19        14.40        20.05 
TCGA-EY-A2OO TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A54A 
       45.76        29.10        27.35        32.52        11.38        14.70 
TCGA-FI-A2CX TCGA-FI-A2CY TCGA-FI-A2D2 TCGA-FI-A2D6 TCGA-FI-A2EU TCGA-FI-A2EW 
       66.77        68.38        39.95         8.65        96.69        59.01 
TCGA-FI-A2EX TCGA-FI-A2EY TCGA-FI-A2F8 TCGA-FI-A3PV TCGA-FI-A3PX TCGA-H5-A2HR 
        9.34        28.93        30.67        41.56        78.38         1.28 
TCGA-JU-AAVI TCGA-K6-A3WQ TCGA-KJ-A3U4 TCGA-KP-A3VZ TCGA-KP-A3W0 TCGA-KP-A3W1 
        7.76        14.04         2.43        23.74        13.28         9.47 
TCGA-KP-A3W3 TCGA-PG-A6IB TCGA-PG-A914 TCGA-PG-A915 TCGA-QS-A8F1 TCGA-SL-A6J9 
       26.10        21.30        22.59         8.19         4.44         0.07 

$subtype2
TCGA-4E-A92E TCGA-A5-A0GG TCGA-A5-A0GQ TCGA-A5-A1OJ TCGA-A5-A1OK TCGA-A5-A3LO 
        0.43       123.68        73.87        33.07        30.15        25.51 
TCGA-A5-AB3J TCGA-AJ-A23N TCGA-AJ-A2QK TCGA-AJ-A3BD TCGA-AJ-A3OK TCGA-AJ-A5DW 
       16.83        14.43         0.39        34.16        15.95        12.82 
TCGA-AJ-A6NU TCGA-AJ-A8CT TCGA-AP-A1DQ TCGA-AP-A1E3 TCGA-AW-A1PO TCGA-AX-A06L 
       20.78         2.70        46.78        27.85         0.56        60.66 
TCGA-AX-A1C9 TCGA-AX-A1CJ TCGA-AX-A1CP TCGA-AX-A2H7 TCGA-AX-A2IO TCGA-AX-A3G4 
       15.25        73.41        36.39        40.80        64.93         0.30 
TCGA-B5-A11M TCGA-B5-A11O TCGA-B5-A11P TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11U 
       44.78        40.50        52.04        77.23        73.28        16.73 
TCGA-B5-A11Y TCGA-B5-A121 TCGA-B5-A1MS TCGA-B5-A3F9 TCGA-B5-A3FD TCGA-B5-A3FH 
       18.41        16.57       102.31       136.60        33.11        27.65 
TCGA-BG-A0VV TCGA-BG-A0VX TCGA-BG-A0W1 TCGA-BG-A0W2 TCGA-BG-A0YU TCGA-BG-A186 
       26.66        34.29        52.83        56.58        14.83        13.78 
TCGA-BG-A18A TCGA-BG-A3PP TCGA-BK-A56F TCGA-BK-A6W4 TCGA-BS-A0T9 TCGA-BS-A0UL 
       14.01        22.39        13.18         9.86        46.95        81.57 
TCGA-BS-A0V7 TCGA-D1-A0ZR TCGA-D1-A0ZV TCGA-D1-A15W TCGA-D1-A162 TCGA-D1-A165 
       63.58         0.56        23.93        30.08        37.64         0.66 
TCGA-D1-A16B TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16O TCGA-D1-A16Q TCGA-D1-A16R 
       36.36        37.51        36.79        33.63        10.65         0.69 
TCGA-D1-A16X TCGA-D1-A16Y TCGA-D1-A17B TCGA-D1-A17C TCGA-D1-A17L TCGA-D1-A17N 
        3.65        17.49         7.00         0.99        26.37         1.51 
TCGA-D1-A17S TCGA-D1-A1O5 TCGA-D1-A2G7 TCGA-DF-A2KR TCGA-DF-A2KV TCGA-DF-A2L0 
       24.30        15.06        58.95        71.61        89.33        25.91 
TCGA-DI-A0WH TCGA-DI-A1BY TCGA-DI-A1C3 TCGA-DI-A2QU TCGA-DI-A2QY TCGA-EO-A2CG 
       16.31        36.62        24.30        31.10       110.10        51.42 
TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EO-A3L0 TCGA-EY-A1GR TCGA-EY-A210 TCGA-FI-A2D0 
       19.40        34.39        51.09        17.62        12.59        33.63 
TCGA-FI-A2F9 TCGA-KP-A3W4 TCGA-PG-A5BC TCGA-PG-A7D5 TCGA-QF-A5YS TCGA-QS-A5YQ 
       59.28        18.21        23.24        38.70        22.65        24.95 
TCGA-SJ-A6ZJ 
       18.28 

$subtype3
TCGA-5S-A9Q8 TCGA-A5-A0VO TCGA-A5-A2K5 TCGA-A5-A2K7 TCGA-A5-A7WJ TCGA-AJ-A23O 
       10.29        28.77        24.72        34.95        11.21        10.26 
TCGA-AJ-A2QL TCGA-AJ-A2QN TCGA-AJ-A2QO TCGA-AJ-A3BG TCGA-AJ-A3BI TCGA-AJ-A3BK 
       19.79        35.15        34.36        18.08        18.90        33.90 
TCGA-AJ-A3EK TCGA-AJ-A3I9 TCGA-AJ-A3NC TCGA-AJ-A3NG TCGA-AJ-A3OL TCGA-AJ-A5DV 
       14.66        17.06        36.99        15.62        14.76        22.32 
TCGA-AJ-A8CV TCGA-AJ-A8CW TCGA-AP-A05O TCGA-AP-A0LS TCGA-AP-A1DH TCGA-AP-A1DM 
       35.11         0.13        12.62        95.47        71.67        55.89 
TCGA-AP-A1DO TCGA-AP-A1DP TCGA-AP-A1DR TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 
       31.30        35.54        49.15         6.71        60.23        45.86 
TCGA-AX-A06H TCGA-AX-A0IS TCGA-AX-A0J0 TCGA-AX-A1C4 TCGA-AX-A1CE TCGA-AX-A1CI 
       27.39        35.01        40.11        13.28        20.05        72.56 
TCGA-AX-A1CK TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HD TCGA-AX-A2HJ TCGA-AX-A3FS 
       67.50        81.37        34.32        46.49        30.74         0.03 
TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3G1 TCGA-AX-A3G9 TCGA-AX-A3GB TCGA-B5-A0JT 
        0.56        43.82        20.52        18.35        14.47        55.30 
TCGA-B5-A0JU TCGA-B5-A0JX TCGA-B5-A11E TCGA-B5-A11F TCGA-B5-A11G TCGA-B5-A11H 
       59.24        58.75        59.84       185.79       113.36        88.34 
TCGA-B5-A11J TCGA-B5-A11L TCGA-B5-A11N TCGA-B5-A11Q TCGA-B5-A11V TCGA-B5-A11W 
       54.44        73.64        61.68        32.09        19.56        19.50 
TCGA-B5-A11Z TCGA-B5-A1MV TCGA-B5-A1MW TCGA-B5-A1MX TCGA-B5-A1MZ TCGA-B5-A3FC 
       17.36        51.45        14.70        48.43        15.29        62.14 
TCGA-BG-A0MA TCGA-BG-A0MH TCGA-BG-A0MK TCGA-BG-A0VT TCGA-BG-A0VW TCGA-BG-A0VZ 
       10.72        63.45        43.30        24.39        16.34        52.64 
TCGA-BG-A187 TCGA-BG-A18B TCGA-BG-A222 TCGA-BG-A2AD TCGA-BG-A2L7 TCGA-BG-A3EW 
       14.73        15.45         9.57        20.02        20.12        11.31 
TCGA-BK-A0CA TCGA-BK-A13B TCGA-BK-A13C TCGA-BK-A4ZD TCGA-BK-A6W3 TCGA-BS-A0U5 
       34.98        31.76        24.99        16.64        10.03        96.49 
TCGA-BS-A0UA TCGA-BS-A0V4 TCGA-BS-A0V6 TCGA-BS-A0VI TCGA-BS-A0WQ TCGA-D1-A0ZN 
       88.34        59.51        89.59        86.99        66.48        16.83 
TCGA-D1-A0ZO TCGA-D1-A0ZQ TCGA-D1-A0ZU TCGA-D1-A101 TCGA-D1-A102 TCGA-D1-A103 
       19.79         8.55        28.67         1.74         4.44        21.99 
TCGA-D1-A15Z TCGA-D1-A160 TCGA-D1-A161 TCGA-D1-A163 TCGA-D1-A167 TCGA-D1-A169 
        1.91         3.68        29.33        32.58        15.72        37.32 
TCGA-D1-A16F TCGA-D1-A16N TCGA-D1-A16V TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A176 
        2.63        31.07         3.95        19.53         6.64        30.15 
TCGA-D1-A177 TCGA-D1-A17A TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17H TCGA-D1-A17M 
       18.02         1.58        30.44         1.28        28.01        10.22 
TCGA-D1-A17Q TCGA-D1-A17R TCGA-D1-A17T TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NY 
        1.78        11.15         2.33        22.92         1.41        16.87 
TCGA-D1-A1NZ TCGA-D1-A1O0 TCGA-D1-A1O7 TCGA-D1-A2G5 TCGA-D1-A2G6 TCGA-D1-A3DA 
       18.02         2.07         1.05        47.84         8.48        15.88 
TCGA-DF-A2KZ TCGA-E6-A1LX TCGA-E6-A1M0 TCGA-E6-A2P9 TCGA-EC-A1NJ TCGA-EC-A24G 
       27.16        23.38        58.95        45.57        16.04        16.80 
TCGA-EO-A1Y7 TCGA-EO-A22R TCGA-EO-A22S TCGA-EO-A22U TCGA-EO-A22Y TCGA-EO-A3AU 
       49.15        61.74        61.55        46.26        51.52        50.73 
TCGA-EO-A3AY TCGA-EO-A3B0 TCGA-EO-A3KX TCGA-EY-A1G8 TCGA-EY-A1GD TCGA-EY-A1GE 
       38.07        17.88        38.47        14.99        53.88        24.36 
TCGA-EY-A1GF TCGA-EY-A1GH TCGA-EY-A1GI TCGA-EY-A1GK TCGA-EY-A1GL TCGA-EY-A1GQ 
       27.16        23.34        23.34        22.78        33.34        17.88 
TCGA-EY-A1GT TCGA-EY-A1GU TCGA-EY-A1GW TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A215 
       16.11        12.43        11.08        37.05        19.33        18.87 
TCGA-EY-A2OM TCGA-EY-A2OP TCGA-EY-A547 TCGA-EY-A548 TCGA-EY-A549 TCGA-EY-A5W2 
       22.82        31.04        17.92        14.14        19.89        16.96 
TCGA-EY-A72D TCGA-FI-A2D4 TCGA-FI-A2D5 TCGA-FI-A2F4 TCGA-PG-A916 TCGA-PG-A917 
        5.88         7.99        13.84        73.32        17.16         6.97 
TCGA-QF-A5YT TCGA-QS-A5YR TCGA-QS-A744 TCGA-SJ-A6ZI TCGA-SL-A6JA 
       39.95        23.64        14.83        20.75         0.23 

subtype1 subtype2 subtype3 
    0.07     0.30     0.03 
subtype1 subtype2 subtype3 
  225.50   136.60   185.79 
subtype1 subtype2 subtype3 
  21.965   26.660   22.820 
[1] "0.1 - 225.5 (22.0)" "0.3 - 136.6 (26.7)" "0.0 - 185.8 (22.8)"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 66 76
  subtype2 54 32
  subtype3 97 69
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   66   76
  subtype2   54   32
  subtype3   97   69
     clus
vv    subtype1 subtype2 subtype3
  NO        66       54       97
  YES       76       32       69
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      66
  subtype2                                      73
  subtype3                                     170
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            16                                82
  subtype2                             2                                16
  subtype3                             3                                 0
D4V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       66       73      170
  MIXED SEROUS AND ENDOMETRIOID                 16        2        3
  SEROUS ENDOMETRIAL ADENOCARCINOMA             82       16        0
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1 104  10   8  12
  subtype2  56   3   4  14
  subtype3 123   6   1  10
D4V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0      104       56      123
  R1       10        3        6
  R2        8        4        1
  RX       12       14       10
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     2                        43
  subtype2                                0     2                        22
  subtype3                                1     4                        33
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         3   102
  subtype2                                         4    57
  subtype3                                         0   128
D4V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        0        1
  ASIAN                                            2        2        4
  BLACK OR AFRICAN AMERICAN                       43       22       33
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        3        4        0
  WHITE                                          102       57      128
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V7, binary
          cls
clus         0   1
  subtype1   6 116
  subtype2   1  66
  subtype3   4 127
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  116
  subtype2    1   66
  subtype3    4  127
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            6        1        4
  NOT HISPANIC OR LATINO      116       66      127
[1] 2 3
[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 = RPPA_CNMF
D5V1, survival
          sevent
clus2        0   1
  subtype1 113  16
  subtype2 134  16
  subtype3 119  37
subtype1 subtype2 subtype3 
     129      150      156 
subtype1 subtype2 subtype3 
      16       16       37 
$subtype1
TCGA-4E-A92E TCGA-A5-A0GA TCGA-A5-A0GD TCGA-A5-A0GG TCGA-A5-A0GH TCGA-A5-A0GI 
        0.43        17.85       112.54       123.68        74.10        88.18 
TCGA-A5-A0GN TCGA-A5-A0GX TCGA-A5-A0VO TCGA-A5-A0VP TCGA-A5-A0VQ TCGA-A5-A1OJ 
       60.53        68.65        28.77        42.35        15.95        33.07 
TCGA-A5-A1OK TCGA-A5-A2K4 TCGA-A5-A7WJ TCGA-A5-AB3J TCGA-AJ-A23N TCGA-AJ-A3OK 
       30.15        28.64        11.21        16.83        14.43        15.95 
TCGA-AJ-A3OL TCGA-AP-A0LP TCGA-AP-A1DO TCGA-AP-A1DP TCGA-AP-A1DR TCGA-AX-A05S 
       14.76        61.64        31.30        35.54        49.15        13.58 
TCGA-AX-A060 TCGA-AX-A063 TCGA-AX-A064 TCGA-AX-A06L TCGA-AX-A0IS TCGA-AX-A0IW 
       35.34        79.46        34.98        60.66        35.01        37.78 
TCGA-AX-A0J1 TCGA-AX-A2HD TCGA-AX-A2HH TCGA-AX-A3FT TCGA-AX-A3G4 TCGA-AX-A3G8 
       65.88        46.49        17.75         0.20         0.30         0.99 
TCGA-B5-A0JU TCGA-B5-A0K1 TCGA-B5-A11F TCGA-B5-A11L TCGA-B5-A121 TCGA-B5-A1MU 
       59.24        36.49       185.79        73.64        16.57        50.89 
TCGA-B5-A1MV TCGA-B5-A1MW TCGA-B5-A1N2 TCGA-B5-A3FA TCGA-B5-A3FH TCGA-BG-A0M3 
       51.45        14.70        12.79        96.30        27.65        35.21 
TCGA-BG-A0M4 TCGA-BG-A0M7 TCGA-BG-A0M9 TCGA-BG-A0MA TCGA-BG-A0MG TCGA-BG-A0MH 
       71.24        63.68        28.27        10.72        48.56        63.45 
TCGA-BG-A0MS TCGA-BG-A0MU TCGA-BG-A0VV TCGA-BG-A0W1 TCGA-BG-A186 TCGA-BG-A18B 
       61.87        20.28        26.66        52.83        13.78        15.45 
TCGA-BG-A220 TCGA-BG-A221 TCGA-BG-A222 TCGA-BK-A0C9 TCGA-BK-A0CA TCGA-BK-A6W3 
       14.27         1.81         9.57        35.90        34.98        10.03 
TCGA-BS-A0TC TCGA-BS-A0TD TCGA-BS-A0TG TCGA-BS-A0TI TCGA-BS-A0TJ TCGA-BS-A0U7 
       85.55        78.21        77.95        61.87        67.99        30.74 
TCGA-BS-A0UF TCGA-D1-A0ZR TCGA-D1-A0ZU TCGA-D1-A0ZZ TCGA-D1-A102 TCGA-D1-A103 
       85.84         0.56        28.67        22.55         4.44        21.99 
TCGA-D1-A15V TCGA-D1-A15W TCGA-D1-A15X TCGA-D1-A160 TCGA-D1-A161 TCGA-D1-A162 
       39.48        30.08        29.88         3.68        29.33        37.64 
TCGA-D1-A168 TCGA-D1-A169 TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F TCGA-D1-A16J 
       36.10        37.32        37.51        36.79         2.63        29.92 
TCGA-D1-A16N TCGA-D1-A16O TCGA-D1-A16R TCGA-D1-A16V TCGA-D1-A16X TCGA-D1-A16Y 
       31.07        33.63         0.69         3.95         3.65        17.49 
TCGA-D1-A176 TCGA-D1-A17C TCGA-D1-A17H TCGA-D1-A17L TCGA-D1-A17M TCGA-D1-A17Q 
       30.15         0.99        28.01        26.37        10.22         1.78 
TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NU TCGA-D1-A1O5 TCGA-D1-A2G0 TCGA-D1-A2G7 
       22.92         1.41        13.22        15.06        48.79        58.95 
TCGA-D1-A3DA TCGA-DF-A2KV TCGA-E6-A1LX TCGA-E6-A2P9 TCGA-EC-A1NJ TCGA-EO-A22U 
       15.88        89.33        23.38        45.57        16.04        46.26 
TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GK TCGA-EY-A1GU TCGA-EY-A1GW TCGA-EY-A1GX 
       24.36        27.16        22.78        12.43        11.08        37.05 
TCGA-EY-A1H0 TCGA-EY-A548 TCGA-EY-A5W2 TCGA-PG-A7D5 TCGA-PG-A916 TCGA-QF-A5YS 
       19.33        14.14        16.96        38.70        17.16        22.65 
TCGA-QS-A744 TCGA-SJ-A6ZJ TCGA-SL-A6JA 
       14.83        18.28         0.23 

$subtype2
TCGA-5S-A9Q8 TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0GB TCGA-A5-A0GE TCGA-A5-A0GJ 
       10.29       106.88       149.56        32.78       105.37        65.75 
TCGA-A5-A0GM TCGA-A5-A0GQ TCGA-A5-A0GU TCGA-A5-A0GV TCGA-A5-A0GW TCGA-A5-A0R6 
       60.53        73.87        28.27        54.02        23.21        37.91 
TCGA-A5-A0R8 TCGA-A5-A0R9 TCGA-A5-A0RA TCGA-A5-A1OF TCGA-A5-A1OG TCGA-A5-A2K3 
       19.59        24.62        29.06        31.99        31.99        66.15 
TCGA-A5-A3LO TCGA-A5-A3LP TCGA-AJ-A2QK TCGA-AJ-A2QL TCGA-AJ-A3BK TCGA-AJ-A3EK 
       25.51        14.96         0.39        19.79        33.90        14.66 
TCGA-AJ-A3NC TCGA-AP-A059 TCGA-AP-A05O TCGA-AP-A0LG TCGA-AP-A0LH TCGA-AP-A0LL 
       36.99        48.03        12.62        66.25        36.36        83.97 
TCGA-AP-A0LM TCGA-AP-A0LN TCGA-AP-A0LS TCGA-AP-A0LT TCGA-AP-A1DH TCGA-AP-A1DM 
       27.12        82.52        95.47        49.22        71.67        55.89 
TCGA-AP-A1DV TCGA-AP-A1E3 TCGA-AP-A5FX TCGA-AX-A05T TCGA-AX-A05W TCGA-AX-A05Y 
        6.71        27.85        36.13        33.21        80.55        88.24 
TCGA-AX-A05Z TCGA-AX-A062 TCGA-AX-A06B TCGA-AX-A06D TCGA-AX-A06F TCGA-AX-A0IZ 
       46.45        45.99        53.92        12.26        51.09        43.82 
TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HG TCGA-AX-A3FX 
       71.24        61.18        81.37        34.32        26.33        43.82 
TCGA-AX-A3G9 TCGA-B5-A0JX TCGA-B5-A0JY TCGA-B5-A0JZ TCGA-B5-A0K2 TCGA-B5-A0K3 
       18.35        58.75        69.27        71.44        72.62        27.29 
TCGA-B5-A0K4 TCGA-B5-A0K7 TCGA-B5-A0K8 TCGA-B5-A0K9 TCGA-B5-A11E TCGA-B5-A11G 
       57.76        63.55        27.85        11.01        59.84       113.36 
TCGA-B5-A11H TCGA-B5-A11N TCGA-B5-A11P TCGA-B5-A11Q TCGA-B5-A11V TCGA-B5-A11W 
       88.34        61.68        52.04        32.09        19.56        19.50 
TCGA-B5-A11X TCGA-B5-A11Y TCGA-B5-A11Z TCGA-B5-A1MX TCGA-B5-A1MZ TCGA-B5-A3FC 
       19.59        18.41        17.36        48.43        15.29        62.14 
TCGA-B5-A5OC TCGA-B5-A5OD TCGA-BG-A0M2 TCGA-BG-A0M6 TCGA-BG-A0M8 TCGA-BG-A0MC 
       41.06        34.13        20.94        22.06        66.41        41.52 
TCGA-BG-A0MK TCGA-BG-A0MT TCGA-BG-A0RY TCGA-BG-A187 TCGA-BG-A18A TCGA-BG-A18C 
       43.30        21.17        15.42        14.73        14.01        15.45 
TCGA-BG-A2L7 TCGA-BG-A3PP TCGA-BK-A0CB TCGA-BK-A139 TCGA-BK-A13B TCGA-BK-A13C 
       20.12        22.39         6.21        10.16        31.76        24.99 
TCGA-BS-A0T9 TCGA-BS-A0TA TCGA-BS-A0U8 TCGA-BS-A0UJ TCGA-BS-A0V4 TCGA-BS-A0V7 
       46.95        24.33        97.41        82.39        59.51        63.58 
TCGA-BS-A0VI TCGA-D1-A101 TCGA-D1-A163 TCGA-D1-A16Q TCGA-D1-A175 TCGA-D1-A177 
       86.99         1.74        32.58        10.65         6.64        18.02 
TCGA-D1-A17B TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17K TCGA-D1-A17R TCGA-D1-A17S 
        7.00        30.44         1.28        28.08        11.15        24.30 
TCGA-D1-A1NY TCGA-D1-A1NZ TCGA-D1-A2G6 TCGA-D1-A3JP TCGA-DF-A2KZ TCGA-DI-A0WH 
       16.87        18.02         8.48        16.93        27.16        16.31 
TCGA-DI-A2QT TCGA-E6-A1M0 TCGA-E6-A8L9 TCGA-EO-A22R TCGA-EO-A22T TCGA-EO-A3AU 
       12.39        58.95        33.30        61.74        66.90        50.73 
TCGA-EO-A3AV TCGA-EO-A3AZ TCGA-EO-A3B0 TCGA-EO-A3B1 TCGA-EO-A3KX TCGA-EO-A3L0 
       35.15        27.16        17.88        26.96        38.47        51.09 
TCGA-EY-A1GD TCGA-EY-A1GH TCGA-EY-A1GL TCGA-EY-A1GP TCGA-EY-A1GT TCGA-EY-A1GV 
       53.88        23.34        33.34        18.84        16.11        15.81 
TCGA-EY-A210 TCGA-EY-A2OM TCGA-EY-A2OO TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A549 
       12.59        22.82        45.76        32.52        11.38        19.89 
TCGA-KP-A3W0 TCGA-KP-A3W1 TCGA-PG-A5BC TCGA-QS-A5YQ TCGA-QS-A5YR TCGA-SJ-A6ZI 
       13.28         9.47        23.24        24.95        23.64        20.75 

$subtype3
TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0G9 TCGA-A5-A0GR TCGA-A5-A0R7 TCGA-A5-A1OH 
       46.95        37.02        83.51        36.82        17.59        36.33 
TCGA-A5-A2K5 TCGA-A5-A2K7 TCGA-A5-A7WK TCGA-AJ-A23M TCGA-AJ-A23O TCGA-AJ-A2QM 
       24.72        34.95        18.41        20.25        10.26        29.39 
TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3NG TCGA-AJ-A3NH TCGA-AJ-A3OJ TCGA-AJ-A3TW 
       34.16         1.12        15.62        10.19        15.35        16.87 
TCGA-AJ-A4ZG TCGA-AJ-A5DW TCGA-AP-A051 TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A054 
       16.37        12.82       129.80        21.99       110.63        23.31 
TCGA-AP-A056 TCGA-AP-A05A TCGA-AP-A05D TCGA-AP-A05H TCGA-AP-A05J TCGA-AP-A05N 
       86.07        63.91        57.80        45.53        36.89        23.87 
TCGA-AP-A05P TCGA-AP-A0LD TCGA-AP-A0LE TCGA-AP-A0LF TCGA-AP-A0LI TCGA-AP-A0LJ 
       20.91       117.99       110.37        93.99        97.71        46.72 
TCGA-AP-A0LV TCGA-AP-A1DQ TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AP-A1E4 TCGA-AP-A3K1 
       25.08        46.78        60.23        45.86        16.24        21.90 
TCGA-AW-A1PO TCGA-AX-A05U TCGA-AX-A06J TCGA-AX-A0J0 TCGA-AX-A2H2 TCGA-AX-A2H7 
        0.56        29.69        30.02        40.11         4.77        40.80 
TCGA-AX-A2HF TCGA-AX-A2HJ TCGA-AX-A2HK TCGA-AX-A3FS TCGA-AX-A3FW TCGA-AX-A3FZ 
       19.36        30.74         2.96         0.03         0.56         0.07 
TCGA-AX-A3G3 TCGA-AX-A3GI TCGA-B5-A0JN TCGA-B5-A0JT TCGA-B5-A0K0 TCGA-B5-A0KB 
        1.38         0.39        80.38        55.30        48.59        27.09 
TCGA-B5-A11I TCGA-B5-A11S TCGA-B5-A11U TCGA-B5-A1MS TCGA-B5-A1MY TCGA-B5-A3FB 
       75.72        73.28        16.73       102.31        11.87        78.81 
TCGA-B5-A3FD TCGA-B5-A3S1 TCGA-B5-A5OE TCGA-BG-A0LW TCGA-BG-A0LX TCGA-BG-A0M0 
       33.11        29.65        34.95        18.61        20.19        19.33 
TCGA-BG-A0VT TCGA-BG-A0YU TCGA-BG-A0YV TCGA-BG-A2AD TCGA-BG-A2AE TCGA-BG-A3EW 
       24.39        14.83        12.56        20.02        23.70        11.31 
TCGA-BK-A0CC TCGA-BK-A26L TCGA-BK-A4ZD TCGA-BS-A0U9 TCGA-D1-A0ZP TCGA-D1-A15Z 
       10.22        24.13        16.64        92.88        29.95         1.91 
TCGA-D1-A165 TCGA-D1-A167 TCGA-D1-A16B TCGA-D1-A16G TCGA-D1-A16I TCGA-D1-A16S 
        0.66        15.72        36.36        27.42        11.51        18.67 
TCGA-D1-A179 TCGA-D1-A17N TCGA-D1-A17T TCGA-D1-A1O8 TCGA-D1-A3DG TCGA-D1-A3DH 
       14.73         1.51         2.33         3.95         4.27        18.84 
TCGA-D1-A3JQ TCGA-DF-A2KY TCGA-DF-A2L0 TCGA-DI-A1BU TCGA-DI-A1BY TCGA-DI-A1NN 
       17.29        10.92        25.91        39.29        36.62        35.38 
TCGA-DI-A1NO TCGA-DI-A2QU TCGA-DI-A2QY TCGA-E6-A1LZ TCGA-E6-A2P8 TCGA-EC-A1QX 
        9.37        31.10       110.10        79.10         2.37         7.36 
TCGA-EC-A24G TCGA-EO-A1Y5 TCGA-EO-A1Y7 TCGA-EO-A1Y8 TCGA-EO-A22S TCGA-EO-A22X 
       16.80        10.75        49.15        37.71        61.55        57.60 
TCGA-EO-A22Y TCGA-EO-A2CH TCGA-EO-A3AY TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1G7 
       51.52        19.40        38.07        22.26        16.34         6.21 
TCGA-EY-A1G8 TCGA-EY-A1GC TCGA-EY-A1GI TCGA-EY-A1GJ TCGA-EY-A1GM TCGA-EY-A1GO 
       14.99        54.15        23.34        23.90        32.71        19.27 
TCGA-EY-A1GQ TCGA-EY-A1GR TCGA-EY-A1GS TCGA-EY-A212 TCGA-EY-A214 TCGA-EY-A215 
       17.88        17.62        22.03        10.19        14.40        18.87 
TCGA-EY-A2ON TCGA-EY-A2OP TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A547 TCGA-EY-A54A 
       20.05        31.04        29.10        27.35        17.92        14.70 
TCGA-EY-A72D TCGA-FI-A2CY TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY 
        5.88        68.38        96.69        59.01         9.34        28.93 
TCGA-FI-A3PX TCGA-H5-A2HR TCGA-K6-A3WQ TCGA-KJ-A3U4 TCGA-KP-A3VZ TCGA-KP-A3W3 
       78.38         1.28        14.04         2.43        23.74        26.10 
TCGA-KP-A3W4 TCGA-PG-A6IB TCGA-PG-A914 TCGA-PG-A915 TCGA-QS-A8F1 TCGA-SL-A6J9 
       18.21        21.30        22.59         8.19         4.44         0.07 

subtype1 subtype2 subtype3 
    0.20     0.39     0.03 
subtype1 subtype2 subtype3 
  185.79   149.56   129.80 
subtype1 subtype2 subtype3 
  28.770   31.875   22.425 
[1] "0.2 - 185.8 (28.8)" "0.4 - 149.6 (31.9)" "0.0 - 129.8 (22.4)"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 71 53
  subtype2 71 75
  subtype3 82 60
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   71   53
  subtype2   71   75
  subtype3   82   60
     clus
vv    subtype1 subtype2 subtype3
  NO        71       71       82
  YES       53       75       60
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                     113
  subtype2                                     123
  subtype3                                      90
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             4                                12
  subtype2                             7                                20
  subtype3                             6                                62
D5V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA      113      123       90
  MIXED SEROUS AND ENDOMETRIOID                  4        7        6
  SEROUS ENDOMETRIAL ADENOCARCINOMA             12       20       62
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1  91   7   2   9
  subtype2 100   5   3  10
  subtype3 110   2   6  15
D5V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0       91      100      110
  R1        7        5        2
  R2        2        3        6
  RX        9       10       15
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     5                        21
  subtype2                                1     7                        26
  subtype3                                1     2                        40
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         1    99
  subtype2                                         3   102
  subtype3                                         1   100
D5V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        1        1
  ASIAN                                            5        7        2
  BLACK OR AFRICAN AMERICAN                       21       26       40
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        1        3        1
  WHITE                                           99      102      100
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V7, binary
          cls
clus         0   1
  subtype1   2 102
  subtype2   9  89
  subtype3   4 104
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2  102
  subtype2    9   89
  subtype3    4  104
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            2        9        4
  NOT HISPANIC OR LATINO      102       89      104
[1] 2 3
[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 = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2        0   1
  subtype1 100  10
  subtype2 145  36
  subtype3  77  16
  subtype4  44   7
subtype1 subtype2 subtype3 subtype4 
     110      181       93       51 
subtype1 subtype2 subtype3 subtype4 
      10       36       16        7 
$subtype1
TCGA-4E-A92E TCGA-5S-A9Q8 TCGA-A5-A0G9 TCGA-A5-A0GA TCGA-A5-A0GB TCGA-A5-A0GD 
        0.43        10.29        83.51        17.85        32.78       112.54 
TCGA-A5-A0GG TCGA-A5-A0GI TCGA-A5-A0GM TCGA-A5-A0GN TCGA-A5-A0GR TCGA-A5-A0VP 
      123.68        88.18        60.53        60.53        36.82        42.35 
TCGA-A5-A0VQ TCGA-A5-A1OJ TCGA-A5-A1OK TCGA-A5-A2K7 TCGA-A5-A7WJ TCGA-AJ-A3OK 
       15.95        33.07        30.15        34.95        11.21        15.95 
TCGA-AP-A0LL TCGA-AP-A0LP TCGA-AP-A1DO TCGA-AP-A1DP TCGA-AP-A1DR TCGA-AX-A05S 
       83.97        61.64        31.30        35.54        49.15        13.58 
TCGA-AX-A05U TCGA-AX-A05W TCGA-AX-A05Y TCGA-AX-A060 TCGA-AX-A063 TCGA-AX-A064 
       29.69        80.55        88.24        35.34        79.46        34.98 
TCGA-AX-A06J TCGA-AX-A0IS TCGA-AX-A0J1 TCGA-AX-A2H7 TCGA-AX-A2HD TCGA-B5-A0JU 
       30.02        35.01        65.88        40.80        46.49        59.24 
TCGA-B5-A0K1 TCGA-B5-A0K7 TCGA-B5-A11F TCGA-B5-A11S TCGA-B5-A11Z TCGA-B5-A3FH 
       36.49        63.55       185.79        73.28        17.36        27.65 
TCGA-BG-A0LW TCGA-BG-A0LX TCGA-BG-A0M0 TCGA-BG-A0M2 TCGA-BG-A0M3 TCGA-BG-A0M4 
       18.61        20.19        19.33        20.94        35.21        71.24 
TCGA-BG-A0M7 TCGA-BG-A0M9 TCGA-BG-A0MC TCGA-BG-A0MG TCGA-BG-A0MH TCGA-BG-A0MS 
       63.68        28.27        41.52        48.56        63.45        61.87 
TCGA-BG-A0MU TCGA-BG-A0VT TCGA-BG-A0VV TCGA-BG-A0W1 TCGA-BG-A0YU TCGA-BG-A186 
       20.28        24.39        26.66        52.83        14.83        13.78 
TCGA-BG-A18B TCGA-BG-A220 TCGA-BG-A222 TCGA-BK-A0C9 TCGA-BK-A13B TCGA-BK-A6W3 
       15.45        14.27         9.57        35.90        31.76        10.03 
TCGA-BS-A0TC TCGA-BS-A0TI TCGA-BS-A0U7 TCGA-BS-A0U8 TCGA-BS-A0UJ TCGA-BS-A0V4 
       85.55        61.87        30.74        97.41        82.39        59.51 
TCGA-BS-A0V7 TCGA-D1-A0ZR TCGA-D1-A102 TCGA-D1-A15W TCGA-D1-A15Z TCGA-D1-A160 
       63.58         0.56         4.44        30.08         1.91         3.68 
TCGA-D1-A169 TCGA-D1-A16D TCGA-D1-A16F TCGA-D1-A16O TCGA-D1-A16V TCGA-D1-A16X 
       37.32        37.51         2.63        33.63         3.95         3.65 
TCGA-D1-A176 TCGA-D1-A17C TCGA-D1-A17L TCGA-D1-A17M TCGA-D1-A17Q TCGA-D1-A17S 
       30.15         0.99        26.37        10.22         1.78        24.30 
TCGA-D1-A17T TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1O5 TCGA-D1-A3DA TCGA-DI-A1BY 
        2.33        22.92         1.41        15.06        15.88        36.62 
TCGA-E6-A1LX TCGA-E6-A2P9 TCGA-EO-A2CH TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GU 
       23.38        45.57        19.40        24.36        27.16        12.43 
TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A548 TCGA-EY-A5W2 TCGA-PG-A916 TCGA-QF-A5YS 
       37.05        19.33        14.14        16.96        17.16        22.65 
TCGA-SJ-A6ZJ TCGA-SL-A6JA 
       18.28         0.23 

$subtype2
TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0GJ TCGA-A5-A0GU 
      106.88       149.56        46.95        37.02        65.75        28.27 
TCGA-A5-A0GV TCGA-A5-A0GW TCGA-A5-A0R6 TCGA-A5-A0R9 TCGA-A5-A1OH TCGA-A5-A2K3 
       54.02        23.21        37.91        24.62        36.33        66.15 
TCGA-A5-A7WK TCGA-AJ-A23M TCGA-AJ-A2QK TCGA-AJ-A2QM TCGA-AJ-A3BD TCGA-AJ-A3BF 
       18.41        20.25         0.39        29.39        34.16         1.12 
TCGA-AJ-A3EK TCGA-AJ-A3NH TCGA-AJ-A3OJ TCGA-AJ-A3TW TCGA-AJ-A5DW TCGA-AP-A051 
       14.66        10.19        15.35        16.87        12.82       129.80 
TCGA-AP-A053 TCGA-AP-A054 TCGA-AP-A056 TCGA-AP-A059 TCGA-AP-A05A TCGA-AP-A05D 
      110.63        23.31        86.07        48.03        63.91        57.80 
TCGA-AP-A05J TCGA-AP-A05N TCGA-AP-A05P TCGA-AP-A0LE TCGA-AP-A0LF TCGA-AP-A0LG 
       36.89        23.87        20.91       110.37        93.99        66.25 
TCGA-AP-A0LH TCGA-AP-A0LI TCGA-AP-A0LJ TCGA-AP-A0LM TCGA-AP-A0LN TCGA-AP-A0LS 
       36.36        97.71        46.72        27.12        82.52        95.47 
TCGA-AP-A0LV TCGA-AP-A1DM TCGA-AP-A1DQ TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 
       25.08        55.89        46.78         6.71        60.23        45.86 
TCGA-AP-A1E4 TCGA-AP-A3K1 TCGA-AX-A05T TCGA-AX-A05Z TCGA-AX-A062 TCGA-AX-A06B 
       16.24        21.90        33.21        46.45        45.99        53.92 
TCGA-AX-A06D TCGA-AX-A2H2 TCGA-AX-A2H5 TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HF 
       12.26         4.77        71.24        81.37        34.32        19.36 
TCGA-AX-A2HJ TCGA-AX-A2HK TCGA-AX-A3FS TCGA-AX-A3FW TCGA-AX-A3G3 TCGA-AX-A3GI 
       30.74         2.96         0.03         0.56         1.38         0.39 
TCGA-B5-A0JN TCGA-B5-A0JX TCGA-B5-A0JZ TCGA-B5-A0K0 TCGA-B5-A0K2 TCGA-B5-A0K3 
       80.38        58.75        71.44        48.59        72.62        27.29 
TCGA-B5-A0K8 TCGA-B5-A11E TCGA-B5-A11G TCGA-B5-A11N TCGA-B5-A11P TCGA-B5-A11Q 
       27.85        59.84       113.36        61.68        52.04        32.09 
TCGA-B5-A11U TCGA-B5-A11V TCGA-B5-A11W TCGA-B5-A1MS TCGA-B5-A1MU TCGA-B5-A1MY 
       16.73        19.56        19.50       102.31        50.89        11.87 
TCGA-B5-A1MZ TCGA-B5-A3FA TCGA-B5-A3FC TCGA-B5-A3FD TCGA-B5-A3S1 TCGA-B5-A5OE 
       15.29        96.30        62.14        33.11        29.65        34.95 
TCGA-BG-A0M6 TCGA-BG-A0M8 TCGA-BG-A0MT TCGA-BG-A0RY TCGA-BG-A0YV TCGA-BG-A18C 
       22.06        66.41        21.17        15.42        12.56        15.45 
TCGA-BG-A2AD TCGA-BG-A2AE TCGA-BG-A2L7 TCGA-BK-A0CB TCGA-BK-A13C TCGA-BK-A26L 
       20.02        23.70        20.12         6.21        24.99        24.13 
TCGA-BK-A4ZD TCGA-BS-A0TA TCGA-D1-A0ZZ TCGA-D1-A165 TCGA-D1-A167 TCGA-D1-A16B 
       16.64        24.33        22.55         0.66        15.72        36.36 
TCGA-D1-A16Q TCGA-D1-A16S TCGA-D1-A179 TCGA-D1-A17D TCGA-D1-A17K TCGA-D1-A17R 
       10.65        18.67        14.73        30.44        28.08        11.15 
TCGA-D1-A2G7 TCGA-D1-A3DH TCGA-D1-A3JP TCGA-D1-A3JQ TCGA-DF-A2KY TCGA-DI-A0WH 
       58.95        18.84        16.93        17.29        10.92        16.31 
TCGA-DI-A1BU TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QU TCGA-DI-A2QY 
       39.29        35.38         9.37        12.39        31.10       110.10 
TCGA-E6-A1LZ TCGA-E6-A8L9 TCGA-EC-A24G TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A22R 
       79.10        33.30        16.80        10.75        37.71        61.74 
TCGA-EO-A22Y TCGA-EO-A3AU TCGA-EO-A3AV TCGA-EO-A3AY TCGA-EO-A3B0 TCGA-EO-A3KU 
       51.52        50.73        35.15        38.07        17.88        22.26 
TCGA-EO-A3KW TCGA-EO-A3KX TCGA-EY-A1G7 TCGA-EY-A1GC TCGA-EY-A1GD TCGA-EY-A1GH 
       16.34        38.47         6.21        54.15        53.88        23.34 
TCGA-EY-A1GI TCGA-EY-A1GJ TCGA-EY-A1GL TCGA-EY-A1GM TCGA-EY-A1GO TCGA-EY-A1GP 
       23.34        23.90        33.34        32.71        19.27        18.84 
TCGA-EY-A1GR TCGA-EY-A1GS TCGA-EY-A1GT TCGA-EY-A1GW TCGA-EY-A210 TCGA-EY-A212 
       17.62        22.03        16.11        11.08        12.59        10.19 
TCGA-EY-A2OP TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A547 
       31.04        29.10        27.35        32.52        11.38        17.92 
TCGA-EY-A54A TCGA-FI-A2CY TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY 
       14.70        68.38        96.69        59.01         9.34        28.93 
TCGA-FI-A3PX TCGA-H5-A2HR TCGA-KJ-A3U4 TCGA-KP-A3VZ TCGA-KP-A3W1 TCGA-KP-A3W3 
       78.38         1.28         2.43        23.74         9.47        26.10 
TCGA-KP-A3W4 TCGA-PG-A6IB TCGA-PG-A914 TCGA-PG-A915 TCGA-QS-A5YQ TCGA-QS-A8F1 
       18.21        21.30        22.59         8.19        24.95         4.44 
TCGA-SL-A6J9 
        0.07 

$subtype3
TCGA-A5-A0GE TCGA-A5-A0GH TCGA-A5-A0GQ TCGA-A5-A0R7 TCGA-A5-A0R8 TCGA-A5-A1OF 
      105.37        74.10        73.87        17.59        19.59        31.99 
TCGA-A5-A1OG TCGA-A5-A2K4 TCGA-A5-A2K5 TCGA-A5-A3LO TCGA-A5-A3LP TCGA-AJ-A23N 
       31.99        28.64        24.72        25.51        14.96        14.43 
TCGA-AJ-A23O TCGA-AJ-A3NC TCGA-AJ-A3NG TCGA-AJ-A3OL TCGA-AJ-A4ZG TCGA-AP-A052 
       10.26        36.99        15.62        14.76        16.37        21.99 
TCGA-AP-A0LD TCGA-AP-A0LT TCGA-AP-A1DH TCGA-AP-A5FX TCGA-AW-A1PO TCGA-AX-A06F 
      117.99        49.22        71.67        36.13         0.56        51.09 
TCGA-AX-A0J0 TCGA-AX-A2H8 TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A3FT TCGA-AX-A3FZ 
       40.11        61.18        26.33        17.75         0.20         0.07 
TCGA-AX-A3G4 TCGA-AX-A3G8 TCGA-AX-A3G9 TCGA-B5-A0JY TCGA-B5-A0K4 TCGA-B5-A0KB 
        0.30         0.99        18.35        69.27        57.76        27.09 
TCGA-B5-A11H TCGA-B5-A11I TCGA-B5-A11X TCGA-B5-A11Y TCGA-B5-A1MV TCGA-B5-A1MW 
       88.34        75.72        19.59        18.41        51.45        14.70 
TCGA-B5-A1MX TCGA-B5-A3FB TCGA-B5-A5OD TCGA-BG-A0MK TCGA-BG-A221 TCGA-BG-A3EW 
       48.43        78.81        34.13        43.30         1.81        11.31 
TCGA-BG-A3PP TCGA-BK-A0CC TCGA-BK-A139 TCGA-BS-A0T9 TCGA-BS-A0TJ TCGA-BS-A0U9 
       22.39        10.22        10.16        46.95        67.99        92.88 
TCGA-BS-A0UF TCGA-BS-A0VI TCGA-D1-A101 TCGA-D1-A15X TCGA-D1-A163 TCGA-D1-A168 
       85.84        86.99         1.74        29.88        32.58        36.10 
TCGA-D1-A16E TCGA-D1-A16G TCGA-D1-A16N TCGA-D1-A175 TCGA-D1-A177 TCGA-D1-A17B 
       36.79        27.42        31.07         6.64        18.02         7.00 
TCGA-D1-A17N TCGA-D1-A1NY TCGA-D1-A1NZ TCGA-D1-A1O8 TCGA-D1-A2G0 TCGA-D1-A3DG 
        1.51        16.87        18.02         3.95        48.79         4.27 
TCGA-DF-A2KZ TCGA-DF-A2L0 TCGA-E6-A1M0 TCGA-EC-A1QX TCGA-EO-A1Y7 TCGA-EO-A22S 
       27.16        25.91        58.95         7.36        49.15        61.55 
TCGA-EO-A22X TCGA-EO-A3B1 TCGA-EO-A3L0 TCGA-EY-A1G8 TCGA-EY-A1GV TCGA-EY-A214 
       57.60        26.96        51.09        14.99        15.81        14.40 
TCGA-EY-A215 TCGA-EY-A2OM TCGA-EY-A2ON TCGA-EY-A549 TCGA-EY-A72D TCGA-K6-A3WQ 
       18.87        22.82        20.05        19.89         5.88        14.04 
TCGA-QS-A5YR TCGA-QS-A744 TCGA-SJ-A6ZI 
       23.64        14.83        20.75 

$subtype4
TCGA-A5-A0GX TCGA-A5-A0RA TCGA-A5-A0VO TCGA-A5-AB3J TCGA-AJ-A2QL TCGA-AJ-A3BK 
       68.65        29.06        28.77        16.83        19.79        33.90 
TCGA-AP-A05H TCGA-AP-A05O TCGA-AP-A1E3 TCGA-AX-A06L TCGA-AX-A0IW TCGA-AX-A0IZ 
       45.53        12.62        27.85        60.66        37.78        43.82 
TCGA-AX-A3FX TCGA-B5-A0JT TCGA-B5-A0K9 TCGA-B5-A11L TCGA-B5-A121 TCGA-B5-A1N2 
       43.82        55.30        11.01        73.64        16.57        12.79 
TCGA-B5-A5OC TCGA-BG-A0MA TCGA-BG-A187 TCGA-BG-A18A TCGA-BK-A0CA TCGA-BS-A0TD 
       41.06        10.72        14.73        14.01        34.98        78.21 
TCGA-BS-A0TG TCGA-D1-A0ZP TCGA-D1-A0ZU TCGA-D1-A103 TCGA-D1-A15V TCGA-D1-A161 
       77.95        29.95        28.67        21.99        39.48        29.33 
TCGA-D1-A162 TCGA-D1-A16I TCGA-D1-A16J TCGA-D1-A16R TCGA-D1-A16Y TCGA-D1-A17F 
       37.64        11.51        29.92         0.69        17.49         1.28 
TCGA-D1-A17H TCGA-D1-A1NU TCGA-D1-A2G6 TCGA-DF-A2KV TCGA-E6-A2P8 TCGA-EC-A1NJ 
       28.01        13.22         8.48        89.33         2.37        16.04 
TCGA-EO-A22T TCGA-EO-A22U TCGA-EO-A3AZ TCGA-EY-A1GK TCGA-EY-A1GQ TCGA-EY-A2OO 
       66.90        46.26        27.16        22.78        17.88        45.76 
TCGA-KP-A3W0 TCGA-PG-A5BC TCGA-PG-A7D5 
       13.28        23.24        38.70 

subtype1 subtype2 subtype3 subtype4 
    0.23     0.03     0.07     0.69 
subtype1 subtype2 subtype3 subtype4 
  185.79   149.56   117.99    89.33 
subtype1 subtype2 subtype3 subtype4 
  30.115   26.100   24.720   28.670 
[1] "0.2 - 185.8 (30.1)" "0.0 - 149.6 (26.1)" "0.1 - 118.0 (24.7)"
[4] "0.7 - 89.3 (28.7)" 
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 68 42
  subtype2 91 74
  subtype3 43 45
  subtype4 22 27
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   68   42
  subtype2   91   74
  subtype3   43   45
  subtype4   22   27
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        68       91       43       22
  YES       42       74       45       27
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                     107
  subtype2                                     109
  subtype3                                      73
  subtype4                                      37
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             1                                 2
  subtype2                             7                                67
  subtype3                             5                                15
  subtype4                             4                                10
D6V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA      107      109       73       37
  MIXED SEROUS AND ENDOMETRIOID                  1        7        5        4
  SEROUS ENDOMETRIAL ADENOCARCINOMA              2       67       15       10
[1] 3 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1  83   3   2   7
  subtype2 125   6   4  13
  subtype3  58   4   4   9
  subtype4  35   1   1   5
D6V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  R0       83      125       58       35
  R1        3        6        4        1
  R2        2        4        4        1
  RX        7       13        9        5
[1] 4 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                2     3                        20
  subtype2                                1     5                        45
  subtype3                                0     4                        16
  subtype4                                0     2                         6
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         1    81
  subtype2                                         1   119
  subtype3                                         3    61
  subtype4                                         0    40
D6V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE                 2        1        0        0
  ASIAN                                            3        5        4        2
  BLACK OR AFRICAN AMERICAN                       20       45       16        6
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        1        1        3        0
  WHITE                                           81      119       61       40
[1] 5 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V7, binary
          cls
clus         0   1
  subtype1   2  90
  subtype2  10 107
  subtype3   3  62
  subtype4   0  36
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   90
  subtype2   10  107
  subtype3    3   62
  subtype4    0   36
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            2       10        3        0
  NOT HISPANIC OR LATINO       90      107       62       36
[1] 2 4
[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 = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2        0   1
  subtype1 178  53
  subtype2 141  13
  subtype3 139  16
subtype1 subtype2 subtype3 
     231      154      155 
subtype1 subtype2 subtype3 
      53       13       16 
$subtype1
TCGA-2E-A9G8 TCGA-5B-A90C TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 
       41.06        39.52       106.88       149.56        46.95        37.02 
TCGA-A5-A0GH TCGA-A5-A0GR TCGA-A5-A0R6 TCGA-A5-A1OG TCGA-A5-A1OH TCGA-A5-A2K2 
       74.10        36.82        37.91        31.99        36.33       118.19 
TCGA-A5-A2K3 TCGA-A5-A2K4 TCGA-A5-A2K7 TCGA-A5-A3LP TCGA-A5-A7WK TCGA-AJ-A23M 
       66.15        28.64        34.95        14.96        18.41        20.25 
TCGA-AJ-A23N TCGA-AJ-A2QM TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3EJ TCGA-AJ-A3EL 
       14.43        29.39        34.16         1.12         1.64        22.49 
TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NF TCGA-AJ-A3NG TCGA-AJ-A3NH TCGA-AJ-A3OJ 
       22.26        20.81        21.21        15.62        10.19        15.35 
TCGA-AJ-A3OL TCGA-AJ-A3QS TCGA-AJ-A3TW TCGA-AJ-A6NU TCGA-AP-A052 TCGA-AP-A053 
       14.76        16.87        16.87        20.78        21.99       110.63 
TCGA-AP-A054 TCGA-AP-A056 TCGA-AP-A059 TCGA-AP-A05A TCGA-AP-A05D TCGA-AP-A05H 
       23.31        86.07        48.03        63.91        57.80        45.53 
TCGA-AP-A05J TCGA-AP-A0L8 TCGA-AP-A0L9 TCGA-AP-A0LD TCGA-AP-A0LF TCGA-AP-A0LH 
       36.89        48.79       125.42       117.99        93.99        36.36 
TCGA-AP-A0LI TCGA-AP-A0LM TCGA-AP-A1DK TCGA-AP-A1DQ TCGA-AP-A1E4 TCGA-AP-A3K1 
       97.71        27.12        90.97        46.78        16.24        21.90 
TCGA-AW-A1PO TCGA-AX-A06B TCGA-AX-A06D TCGA-AX-A06F TCGA-AX-A0IU TCGA-AX-A0IW 
        0.56        53.92        12.26        51.09        28.54        37.78 
TCGA-AX-A0J0 TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CC TCGA-AX-A1CF 
       40.11        16.96        13.55        20.28        12.43        76.83 
TCGA-AX-A1CP TCGA-AX-A1CR TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 TCGA-AX-A2H8 
       36.39        11.08         4.77        30.12        71.24        61.18 
TCGA-AX-A2HD TCGA-AX-A2HF TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A2HK TCGA-AX-A2IN 
       46.49        19.36        26.33        17.75         2.96        31.13 
TCGA-AX-A2IO TCGA-AX-A3FS TCGA-AX-A3FT TCGA-AX-A3FZ TCGA-AX-A3G3 TCGA-AX-A3G4 
       64.93         0.03         0.20         0.07         1.38         0.30 
TCGA-AX-A3G6 TCGA-AX-A3G7 TCGA-AX-A3G8 TCGA-AX-A3GI TCGA-B5-A0JN TCGA-B5-A0K3 
        0.26         0.30         0.99         0.39        80.38        27.29 
TCGA-B5-A0K4 TCGA-B5-A0K8 TCGA-B5-A11E TCGA-B5-A11I TCGA-B5-A11U TCGA-B5-A1MR 
       57.76        27.85        59.84        75.72        16.73       225.50 
TCGA-B5-A1MS TCGA-B5-A1MU TCGA-B5-A1MW TCGA-B5-A1MY TCGA-B5-A1N2 TCGA-B5-A3FA 
      102.31        50.89        14.70        11.87        12.79        96.30 
TCGA-B5-A3S1 TCGA-B5-A5OD TCGA-B5-A5OE TCGA-BG-A0M6 TCGA-BG-A0MT TCGA-BG-A0YV 
       29.65        34.13        34.95        22.06        21.17        12.56 
TCGA-BG-A18C TCGA-BG-A220 TCGA-BG-A221 TCGA-BG-A222 TCGA-BG-A2AD TCGA-BG-A2AE 
       15.45        14.27         1.81         9.57        20.02        23.70 
TCGA-BG-A2L7 TCGA-BG-A3PP TCGA-BK-A0CC TCGA-BK-A139 TCGA-BK-A26L TCGA-BK-A4ZD 
       20.12        22.39        10.22        10.16        24.13        16.64 
TCGA-BS-A0TE TCGA-BS-A0U9 TCGA-BS-A0UV TCGA-BS-A0V7 TCGA-BS-A0V8 TCGA-D1-A0ZP 
        4.80        92.88        73.25        63.58        83.64        29.95 
TCGA-D1-A0ZS TCGA-D1-A0ZZ TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A167 TCGA-D1-A168 
        4.87        22.55        39.48        29.88        15.72        36.10 
TCGA-D1-A16G TCGA-D1-A16I TCGA-D1-A16J TCGA-D1-A16N TCGA-D1-A16S TCGA-D1-A16Y 
       27.42        11.51        29.92        31.07        18.67        17.49 
TCGA-D1-A179 TCGA-D1-A17K TCGA-D1-A1NU TCGA-D1-A1NW TCGA-D1-A1NX TCGA-D1-A1O0 
       14.73        28.08        13.22         0.72        18.25         2.07 
TCGA-D1-A1O8 TCGA-D1-A2G0 TCGA-D1-A2G6 TCGA-D1-A2G7 TCGA-D1-A3DA TCGA-D1-A3DG 
        3.95        48.79         8.48        58.95        15.88         4.27 
TCGA-D1-A3DH TCGA-D1-A3JP TCGA-D1-A3JQ TCGA-DF-A2KR TCGA-DF-A2KY TCGA-DI-A0WH 
       18.84        16.93        17.29        71.61        10.92        16.31 
TCGA-DI-A1BU TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QU TCGA-DI-A2QY 
       39.29        35.38         9.37        12.39        31.10       110.10 
TCGA-E6-A1LZ TCGA-E6-A2P8 TCGA-E6-A8L9 TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A22T 
       79.10         2.37        33.30        10.75        37.71        66.90 
TCGA-EO-A22X TCGA-EO-A2CG TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EO-A3AV TCGA-EO-A3AY 
       57.60        51.42        19.40        34.39        35.15        38.07 
TCGA-EO-A3AZ TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1G7 TCGA-EY-A1GC 
       27.16        26.96        22.26        16.34         6.21        54.15 
TCGA-EY-A1GM TCGA-EY-A1GO TCGA-EY-A1GP TCGA-EY-A1GR TCGA-EY-A1GS TCGA-EY-A1GT 
       32.71        19.27        18.84        17.62        22.03        16.11 
TCGA-EY-A1GV TCGA-EY-A210 TCGA-EY-A212 TCGA-EY-A2OM TCGA-EY-A2ON TCGA-EY-A2OO 
       15.81        12.59        10.19        22.82        20.05        45.76 
TCGA-EY-A2OP TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A547 
       31.04        29.10        27.35        32.52        11.38        17.92 
TCGA-EY-A54A TCGA-EY-A72D TCGA-FI-A2CX TCGA-FI-A2CY TCGA-FI-A2D0 TCGA-FI-A2D2 
       14.70         5.88        66.77        68.38        33.63        39.95 
TCGA-FI-A2D5 TCGA-FI-A2D6 TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY 
       13.84         8.65        96.69        59.01         9.34        28.93 
TCGA-FI-A2F8 TCGA-FI-A2F9 TCGA-FI-A3PV TCGA-FI-A3PX TCGA-H5-A2HR TCGA-JU-AAVI 
       30.67        59.28        41.56        78.38         1.28         7.76 
TCGA-K6-A3WQ TCGA-KJ-A3U4 TCGA-KP-A3VZ TCGA-KP-A3W0 TCGA-KP-A3W1 TCGA-KP-A3W3 
       14.04         2.43        23.74        13.28         9.47        26.10 
TCGA-KP-A3W4 TCGA-PG-A5BC TCGA-PG-A6IB TCGA-PG-A7D5 TCGA-PG-A914 TCGA-PG-A915 
       18.21        23.24        21.30        38.70        22.59         8.19 
TCGA-QS-A744 TCGA-QS-A8F1 TCGA-SL-A6J9 
       14.83         4.44         0.07 

$subtype2
TCGA-4E-A92E TCGA-5S-A9Q8 TCGA-A5-A0GA TCGA-A5-A0GB TCGA-A5-A0GI TCGA-A5-A0GM 
        0.43        10.29        17.85        32.78        88.18        60.53 
TCGA-A5-A0GN TCGA-A5-A0GU TCGA-A5-A0GV TCGA-A5-A0GW TCGA-A5-A0GX TCGA-A5-A0R7 
       60.53        28.27        54.02        23.21        68.65        17.59 
TCGA-A5-A0VP TCGA-A5-A0VQ TCGA-A5-A2K5 TCGA-A5-A3LO TCGA-A5-A7WJ TCGA-A5-AB3J 
       42.35        15.95        24.72        25.51        11.21        16.83 
TCGA-AJ-A23O TCGA-AJ-A3BG TCGA-AJ-A3EK TCGA-AJ-A3NC TCGA-AJ-A3NE TCGA-AJ-A5DW 
       10.26        18.08        14.66        36.99        20.65        12.82 
TCGA-AJ-A8CW TCGA-AP-A051 TCGA-AP-A05N TCGA-AP-A0LE TCGA-AP-A0LG TCGA-AP-A0LL 
        0.13       129.80        23.87       110.37        66.25        83.97 
TCGA-AP-A0LS TCGA-AP-A0LT TCGA-AP-A1DH TCGA-AP-A1DM TCGA-AP-A1DO TCGA-AP-A1DR 
       95.47        49.22        71.67        55.89        31.30        49.15 
TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AP-A1E3 TCGA-AX-A05S TCGA-AX-A05Z 
        6.71        60.23        45.86        27.85        13.58        46.45 
TCGA-AX-A060 TCGA-AX-A062 TCGA-AX-A063 TCGA-AX-A064 TCGA-AX-A06H TCGA-AX-A0IS 
       35.34        45.99        79.46        34.98        27.39        35.01 
TCGA-AX-A0IZ TCGA-AX-A0J1 TCGA-AX-A1C4 TCGA-AX-A1CI TCGA-AX-A1CK TCGA-AX-A1CN 
       43.82        65.88        13.28        72.56        67.50        25.12 
TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A3G9 TCGA-B5-A0JR TCGA-B5-A0JU TCGA-B5-A0JV 
       81.37        34.32        18.35        56.91        59.24        86.01 
TCGA-B5-A0JY TCGA-B5-A0JZ TCGA-B5-A0K0 TCGA-B5-A0K6 TCGA-B5-A0K7 TCGA-B5-A0K9 
       69.27        71.44        48.59        64.21        63.55        11.01 
TCGA-B5-A11F TCGA-B5-A11L TCGA-B5-A11N TCGA-B5-A11Q TCGA-B5-A11V TCGA-B5-A11X 
      185.79        73.64        61.68        32.09        19.56        19.59 
TCGA-B5-A11Z TCGA-B5-A1MX TCGA-B5-A1MZ TCGA-B5-A3FC TCGA-B5-A5OC TCGA-BG-A0LW 
       17.36        48.43        15.29        62.14        41.06        18.61 
TCGA-BG-A0LX TCGA-BG-A0M3 TCGA-BG-A0M8 TCGA-BG-A0MI TCGA-BG-A0MO TCGA-BG-A0MQ 
       20.19        35.21        66.41        23.47        43.04        59.74 
TCGA-BG-A0MS TCGA-BG-A0MU TCGA-BG-A0RY TCGA-BG-A0VT TCGA-BG-A0VX TCGA-BG-A186 
       61.87        20.28        15.42        24.39        34.29        13.78 
TCGA-BG-A3EW TCGA-BK-A0CB TCGA-BK-A13B TCGA-BK-A6W3 TCGA-BS-A0T9 TCGA-BS-A0TG 
       11.31         6.21        31.76        10.03        46.95        77.95 
TCGA-BS-A0TI TCGA-BS-A0TJ TCGA-BS-A0U7 TCGA-BS-A0U8 TCGA-BS-A0UF TCGA-BS-A0UJ 
       61.87        67.99        30.74        97.41        85.84        82.39 
TCGA-BS-A0UL TCGA-BS-A0UT TCGA-BS-A0V4 TCGA-BS-A0VI TCGA-BS-A0WQ TCGA-D1-A0ZN 
       81.57        72.72        59.51        86.99        66.48        16.83 
TCGA-D1-A0ZQ TCGA-D1-A0ZU TCGA-D1-A101 TCGA-D1-A102 TCGA-D1-A103 TCGA-D1-A15Z 
        8.55        28.67         1.74         4.44        21.99         1.91 
TCGA-D1-A160 TCGA-D1-A163 TCGA-D1-A16B TCGA-D1-A16Q TCGA-D1-A16R TCGA-D1-A16V 
        3.68        32.58        36.36        10.65         0.69         3.95 
TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A177 TCGA-D1-A17C TCGA-D1-A17H TCGA-D1-A17L 
       19.53         6.64        18.02         0.99        28.01        26.37 
TCGA-D1-A17M TCGA-D1-A17R TCGA-D1-A1NY TCGA-DF-A2KZ TCGA-DI-A1BY TCGA-DI-A1C3 
       10.22        11.15        16.87        27.16        36.62        24.30 
TCGA-E6-A1LX TCGA-E6-A1M0 TCGA-EC-A1QX TCGA-EO-A22R TCGA-EO-A22S TCGA-EO-A22U 
       23.38        58.95         7.36        61.74        61.55        46.26 
TCGA-EO-A3AU TCGA-EO-A3B0 TCGA-EO-A3KX TCGA-EY-A1G8 TCGA-EY-A1GD TCGA-EY-A1GI 
       50.73        17.88        38.47        14.99        53.88        23.34 
TCGA-EY-A1GL TCGA-EY-A1GQ TCGA-EY-A1GU TCGA-EY-A214 TCGA-EY-A215 TCGA-EY-A5W2 
       33.34        17.88        12.43        14.40        18.87        16.96 
TCGA-FI-A2D4 TCGA-PG-A917 TCGA-QF-A5YT TCGA-SL-A6JA 
        7.99         6.97        39.95         0.23 

$subtype3
TCGA-A5-A0G9 TCGA-A5-A0GD TCGA-A5-A0GE TCGA-A5-A0GG TCGA-A5-A0GJ TCGA-A5-A0GP 
       83.51       112.54       105.37       123.68        65.75        46.55 
TCGA-A5-A0GQ TCGA-A5-A0R8 TCGA-A5-A0R9 TCGA-A5-A0RA TCGA-A5-A0VO TCGA-A5-A1OF 
       73.87        19.59        24.62        29.06        28.77        31.99 
TCGA-A5-A1OJ TCGA-A5-A1OK TCGA-AJ-A2QK TCGA-AJ-A2QL TCGA-AJ-A2QN TCGA-AJ-A2QO 
       33.07        30.15         0.39        19.79        35.15        34.36 
TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3I9 TCGA-AJ-A3OK TCGA-AJ-A5DV TCGA-AJ-A8CT 
       18.90        33.90        17.06        15.95        22.32         2.70 
TCGA-AJ-A8CV TCGA-AP-A05O TCGA-AP-A05P TCGA-AP-A0LJ TCGA-AP-A0LN TCGA-AP-A0LO 
       35.11        12.62        20.91        46.72        82.52        33.40 
TCGA-AP-A0LP TCGA-AP-A0LV TCGA-AP-A1DP TCGA-AP-A5FX TCGA-AX-A05T TCGA-AX-A05U 
       61.64        25.08        35.54        36.13        33.21        29.69 
TCGA-AX-A05W TCGA-AX-A05Y TCGA-AX-A06J TCGA-AX-A06L TCGA-AX-A1C5 TCGA-AX-A1C9 
       80.55        88.24        30.02        60.66        19.20        15.25 
TCGA-AX-A1CE TCGA-AX-A1CJ TCGA-AX-A2H7 TCGA-AX-A2HJ TCGA-AX-A3FW TCGA-AX-A3FX 
       20.05        73.41        40.80        30.74         0.56        43.82 
TCGA-AX-A3G1 TCGA-AX-A3GB TCGA-B5-A0JS TCGA-B5-A0JT TCGA-B5-A0JX TCGA-B5-A0K1 
       20.52        14.47        86.37        55.30        58.75        36.49 
TCGA-B5-A0K2 TCGA-B5-A0KB TCGA-B5-A11G TCGA-B5-A11H TCGA-B5-A11J TCGA-B5-A11M 
       72.62        27.09       113.36        88.34        54.44        44.78 
TCGA-B5-A11O TCGA-B5-A11P TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11W TCGA-B5-A11Y 
       40.50        52.04        77.23        73.28        19.50        18.41 
TCGA-B5-A121 TCGA-B5-A1MV TCGA-B5-A3F9 TCGA-B5-A3FB TCGA-B5-A3FD TCGA-B5-A3FH 
       16.57        51.45       136.60        78.81        33.11        27.65 
TCGA-BG-A0M0 TCGA-BG-A0M2 TCGA-BG-A0M4 TCGA-BG-A0M7 TCGA-BG-A0M9 TCGA-BG-A0MA 
       19.33        20.94        71.24        63.68        28.27        10.72 
TCGA-BG-A0MC TCGA-BG-A0MG TCGA-BG-A0MH TCGA-BG-A0MK TCGA-BG-A0VV TCGA-BG-A0VW 
       41.52        48.56        63.45        43.30        26.66        16.34 
TCGA-BG-A0VZ TCGA-BG-A0W1 TCGA-BG-A0W2 TCGA-BG-A0YU TCGA-BG-A187 TCGA-BG-A18A 
       52.64        52.83        56.58        14.83        14.73        14.01 
TCGA-BG-A18B TCGA-BK-A0C9 TCGA-BK-A0CA TCGA-BK-A13C TCGA-BK-A56F TCGA-BK-A6W4 
       15.45        35.90        34.98        24.99        13.18         9.86 
TCGA-BS-A0TA TCGA-BS-A0TC TCGA-BS-A0TD TCGA-BS-A0U5 TCGA-BS-A0UA TCGA-BS-A0UM 
       24.33        85.55        78.21        96.49        88.34        86.93 
TCGA-BS-A0V6 TCGA-D1-A0ZO TCGA-D1-A0ZR TCGA-D1-A0ZV TCGA-D1-A15W TCGA-D1-A161 
       89.59        19.79         0.56        23.93        30.08        29.33 
TCGA-D1-A162 TCGA-D1-A165 TCGA-D1-A169 TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F 
       37.64         0.66        37.32        37.51        36.79         2.63 
TCGA-D1-A16O TCGA-D1-A16X TCGA-D1-A176 TCGA-D1-A17A TCGA-D1-A17B TCGA-D1-A17D 
       33.63         3.65        30.15         1.58         7.00        30.44 
TCGA-D1-A17F TCGA-D1-A17N TCGA-D1-A17Q TCGA-D1-A17S TCGA-D1-A17T TCGA-D1-A17U 
        1.28         1.51         1.78        24.30         2.33        22.92 
TCGA-D1-A1NS TCGA-D1-A1NZ TCGA-D1-A1O5 TCGA-D1-A1O7 TCGA-D1-A2G5 TCGA-DF-A2KV 
        1.41        18.02        15.06         1.05        47.84        89.33 
TCGA-DF-A2L0 TCGA-E6-A2P9 TCGA-EC-A1NJ TCGA-EC-A24G TCGA-EO-A1Y7 TCGA-EO-A22Y 
       25.91        45.57        16.04        16.80        49.15        51.52 
TCGA-EO-A3L0 TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GH TCGA-EY-A1GK TCGA-EY-A1GW 
       51.09        24.36        27.16        23.34        22.78        11.08 
TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A548 TCGA-EY-A549 TCGA-FI-A2F4 TCGA-PG-A916 
       37.05        19.33        14.14        19.89        73.32        17.16 
TCGA-QF-A5YS TCGA-QS-A5YQ TCGA-QS-A5YR TCGA-SJ-A6ZI TCGA-SJ-A6ZJ 
       22.65        24.95        23.64        20.75        18.28 

subtype1 subtype2 subtype3 
    0.03     0.13     0.39 
subtype1 subtype2 subtype3 
  225.50   185.79   136.60 
subtype1 subtype2 subtype3 
   22.82    31.53    30.08 
[1] "0.0 - 225.5 (22.8)" "0.1 - 185.8 (31.5)" "0.4 - 136.6 (30.1)"
D7V2, continuous
D7V3, binary
          cls
clus         0   1
  subtype1 110  97
  subtype2  81  70
  subtype3  97  53
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  110   97
  subtype2   81   70
  subtype3   97   53
     clus
vv    subtype1 subtype2 subtype3
  NO       110       81       97
  YES       97       70       53
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                     103
  subtype2                                     153
  subtype3                                     150
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            17                               113
  subtype2                             1                                 0
  subtype3                             4                                 1
D7V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA      103      153      150
  MIXED SEROUS AND ENDOMETRIOID                 17        1        4
  SEROUS ENDOMETRIAL ADENOCARCINOMA            113        0        1
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1 152  14  11  17
  subtype2 112   6   4   6
  subtype3 109   2   2  14
D7V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0      152      112      109
  R1       14        6        2
  R2       11        4        2
  RX       17        6       14
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     5                        55
  subtype2                                2     7                        23
  subtype3                                1     8                        29
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         6   148
  subtype2                                         2   114
  subtype3                                         1   111
D7V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        2        1
  ASIAN                                            5        7        8
  BLACK OR AFRICAN AMERICAN                       55       23       29
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        6        2        1
  WHITE                                          148      114      111
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V7, binary
          cls
clus         0   1
  subtype1   7 165
  subtype2   4 102
  subtype3   4 108
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7  165
  subtype2    4  102
  subtype3    4  108
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            7        4        4
  NOT HISPANIC OR LATINO      165      102      108
[1] 2 3
[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 = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 93 31
  subtype2 49  4
  subtype3 34 11
  subtype4 62  2
  subtype5 88 19
  subtype6 58 11
  subtype7 74  4
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 
     124       53       45       64      107       69       78 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 
      31        4       11        2       19       11        4 
$subtype1
TCGA-2E-A9G8 TCGA-5B-A90C TCGA-A5-A0G3 TCGA-A5-A0R6 TCGA-A5-A1OG TCGA-A5-A1OH 
       41.06        39.52        46.95        37.91        31.99        36.33 
TCGA-A5-A2K4 TCGA-A5-A3LP TCGA-A5-A7WK TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A2QM 
       28.64        14.96        18.41        20.25        14.43        29.39 
TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3EJ TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NF 
       34.16         1.12         1.64        22.26        20.81        21.21 
TCGA-AJ-A3NH TCGA-AJ-A3QS TCGA-AJ-A3TW TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A05A 
       10.19        16.87        16.87        21.99       110.63        63.91 
TCGA-AP-A05D TCGA-AP-A05H TCGA-AP-A05J TCGA-AP-A05P TCGA-AP-A0L8 TCGA-AP-A0L9 
       57.80        45.53        36.89        20.91        48.79       125.42 
TCGA-AP-A0LD TCGA-AP-A1DQ TCGA-AP-A1E4 TCGA-AW-A1PO TCGA-AX-A0IU TCGA-AX-A0IW 
      117.99        46.78        16.24         0.56        28.54        37.78 
TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CC TCGA-AX-A1CP TCGA-AX-A1CR 
       16.96        13.55        20.28        12.43        36.39        11.08 
TCGA-AX-A2H2 TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HF TCGA-AX-A2HK TCGA-AX-A2IO 
        4.77        71.24        61.18        19.36         2.96        64.93 
TCGA-AX-A3G3 TCGA-AX-A3G4 TCGA-AX-A3G6 TCGA-AX-A3G7 TCGA-AX-A3GI TCGA-B5-A0JN 
        1.38         0.30         0.26         0.30         0.39        80.38 
TCGA-B5-A0K3 TCGA-B5-A0K8 TCGA-B5-A11I TCGA-B5-A1MS TCGA-B5-A1MU TCGA-B5-A1MY 
       27.29        27.85        75.72       102.31        50.89        11.87 
TCGA-B5-A1N2 TCGA-B5-A3FA TCGA-B5-A3S1 TCGA-B5-A5OD TCGA-BG-A0M6 TCGA-BG-A0YV 
       12.79        96.30        29.65        34.13        22.06        12.56 
TCGA-BG-A221 TCGA-BG-A3PP TCGA-BK-A0CC TCGA-BK-A26L TCGA-D1-A0ZP TCGA-D1-A0ZZ 
        1.81        22.39        10.22        24.13        29.95        22.55 
TCGA-D1-A15V TCGA-D1-A16I TCGA-D1-A16S TCGA-D1-A16Y TCGA-D1-A179 TCGA-D1-A1NU 
       39.48        11.51        18.67        17.49        14.73        13.22 
TCGA-D1-A1NW TCGA-D1-A1NX TCGA-D1-A2G7 TCGA-D1-A3DH TCGA-D1-A3JQ TCGA-DI-A1NN 
        0.72        18.25        58.95        18.84        17.29        35.38 
TCGA-DI-A1NO TCGA-DI-A2QY TCGA-E6-A8L9 TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A2CG 
        9.37       110.10        33.30        10.75        37.71        51.42 
TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1GM 
       19.40        34.39        26.96        22.26        16.34        32.71 
TCGA-EY-A1GO TCGA-EY-A210 TCGA-EY-A212 TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A4KR 
       19.27        12.59        10.19        29.10        27.35        11.38 
TCGA-EY-A54A TCGA-FI-A2CY TCGA-FI-A2D2 TCGA-FI-A2EU TCGA-FI-A2F8 TCGA-FI-A2F9 
       14.70        68.38        39.95        96.69        30.67        59.28 
TCGA-FI-A3PV TCGA-FI-A3PX TCGA-H5-A2HR TCGA-K6-A3WQ TCGA-KJ-A3U4 TCGA-KP-A3VZ 
       41.56        78.38         1.28        14.04         2.43        23.74 
TCGA-KP-A3W0 TCGA-KP-A3W3 TCGA-KP-A3W4 TCGA-PG-A5BC TCGA-PG-A7D5 TCGA-PG-A914 
       13.28        26.10        18.21        23.24        38.70        22.59 
TCGA-PG-A915 TCGA-QF-A5YS TCGA-QS-A8F1 TCGA-SL-A6J9 
        8.19        22.65         4.44         0.07 

$subtype2
TCGA-4E-A92E TCGA-5S-A9Q8 TCGA-A5-A0GI TCGA-A5-A0GN TCGA-A5-A0GU TCGA-A5-A0GV 
        0.43        10.29        88.18        60.53        28.27        54.02 
TCGA-A5-A0GX TCGA-A5-A0VQ TCGA-A5-AB3J TCGA-AJ-A3NC TCGA-AP-A0LG TCGA-AP-A0LL 
       68.65        15.95        16.83        36.99        66.25        83.97 
TCGA-AP-A0LN TCGA-AP-A0LV TCGA-AX-A05T TCGA-AX-A0IS TCGA-AX-A1CI TCGA-AX-A1CK 
       82.52        25.08        33.21        35.01        72.56        67.50 
TCGA-B5-A0JU TCGA-B5-A0K6 TCGA-B5-A0K7 TCGA-B5-A11F TCGA-B5-A11V TCGA-B5-A11Z 
       59.24        64.21        63.55       185.79        19.56        17.36 
TCGA-BG-A0LW TCGA-BG-A0M3 TCGA-BG-A0MI TCGA-BG-A0MO TCGA-BG-A0MS TCGA-BG-A0MU 
       18.61        35.21        23.47        43.04        61.87        20.28 
TCGA-BG-A0VT TCGA-BG-A0VX TCGA-BG-A186 TCGA-BK-A0CB TCGA-BK-A13B TCGA-BS-A0UJ 
       24.39        34.29        13.78         6.21        31.76        82.39 
TCGA-BS-A0VI TCGA-BS-A0WQ TCGA-D1-A0ZN TCGA-D1-A0ZU TCGA-D1-A102 TCGA-D1-A15Z 
       86.99        66.48        16.83        28.67         4.44         1.91 
TCGA-D1-A16B TCGA-D1-A16Q TCGA-D1-A16R TCGA-D1-A17C TCGA-D1-A17M TCGA-D1-A17N 
       36.36        10.65         0.69         0.99        10.22         1.51 
TCGA-D1-A17R TCGA-D1-A17T TCGA-EY-A1G8 TCGA-EY-A1GD TCGA-QF-A5YT 
       11.15         2.33        14.99        53.88        39.95 

$subtype3
TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0G5 TCGA-A5-A0GH TCGA-A5-A0GR TCGA-A5-A1OF 
      106.88       149.56        37.02        74.10        36.82        31.99 
TCGA-A5-A2K2 TCGA-A5-A2K3 TCGA-AJ-A3OJ TCGA-AJ-A6NU TCGA-AP-A059 TCGA-AP-A0LF 
      118.19        66.15        15.35        20.78        48.03        93.99 
TCGA-AP-A0LH TCGA-AP-A0LI TCGA-AP-A3K1 TCGA-AX-A2H4 TCGA-AX-A2HG TCGA-AX-A3FT 
       36.36        97.71        21.90        30.12        26.33         0.20 
TCGA-B5-A1MR TCGA-B5-A5OE TCGA-BG-A0M4 TCGA-BS-A0TA TCGA-BS-A0TE TCGA-BS-A0TI 
      225.50        34.95        71.24        24.33         4.80        61.87 
TCGA-D1-A15X TCGA-D1-A16G TCGA-D1-A16J TCGA-D1-A2G0 TCGA-D1-A3JP TCGA-DI-A2QT 
       29.88        27.42        29.92        48.79        16.93        12.39 
TCGA-E6-A1LZ TCGA-EC-A1QX TCGA-EO-A22T TCGA-EO-A3AV TCGA-EO-A3AY TCGA-EO-A3AZ 
       79.10         7.36        66.90        35.15        38.07        27.16 
TCGA-EY-A1GS TCGA-EY-A1GV TCGA-EY-A2ON TCGA-FI-A2CX TCGA-FI-A2EW TCGA-FI-A2EX 
       22.03        15.81        20.05        66.77        59.01         9.34 
TCGA-FI-A2EY TCGA-JU-AAVI TCGA-KP-A3W1 
       28.93         7.76         9.47 

$subtype4
TCGA-A5-A2K5 TCGA-A5-A7WJ TCGA-AJ-A23O TCGA-AJ-A3BG TCGA-AJ-A3EK TCGA-AJ-A8CW 
       24.72        11.21        10.26        18.08        14.66         0.13 
TCGA-AP-A051 TCGA-AP-A0LE TCGA-AP-A0LM TCGA-AP-A0LT TCGA-AP-A1DM TCGA-AP-A1DO 
      129.80       110.37        27.12        49.22        55.89        31.30 
TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AP-A1E3 TCGA-AX-A05Z TCGA-AX-A060 
        6.71        60.23        45.86        27.85        46.45        35.34 
TCGA-AX-A063 TCGA-AX-A064 TCGA-AX-A06F TCGA-AX-A06H TCGA-AX-A0J1 TCGA-AX-A1C4 
       79.46        34.98        51.09        27.39        65.88        13.28 
TCGA-AX-A2HA TCGA-B5-A0JR TCGA-B5-A0JV TCGA-B5-A0JZ TCGA-B5-A0K9 TCGA-B5-A11N 
       81.37        56.91        86.01        71.44        11.01        61.68 
TCGA-B5-A11Q TCGA-B5-A1MX TCGA-B5-A1MZ TCGA-B5-A5OC TCGA-BG-A0LX TCGA-BG-A0M8 
       32.09        48.43        15.29        41.06        20.19        66.41 
TCGA-BG-A0MQ TCGA-BS-A0U7 TCGA-BS-A0U8 TCGA-BS-A0UL TCGA-BS-A0V4 TCGA-BS-A0V7 
       59.74        30.74        97.41        81.57        59.51        63.58 
TCGA-BS-A0V8 TCGA-D1-A0ZQ TCGA-D1-A103 TCGA-D1-A160 TCGA-D1-A163 TCGA-D1-A174 
       83.64         8.55        21.99         3.68        32.58        19.53 
TCGA-D1-A175 TCGA-D1-A177 TCGA-D1-A17H TCGA-D1-A17L TCGA-D1-A17Q TCGA-DI-A1BU 
        6.64        18.02        28.01        26.37         1.78        39.29 
TCGA-E6-A1LX TCGA-EO-A22R TCGA-EO-A3B0 TCGA-EY-A1GI TCGA-EY-A1GQ TCGA-EY-A1GU 
       23.38        61.74        17.88        23.34        17.88        12.43 
TCGA-EY-A215 TCGA-EY-A5W2 TCGA-FI-A2F4 TCGA-SL-A6JA 
       18.87        16.96        73.32         0.23 

$subtype5
TCGA-A5-A0GA TCGA-A5-A0GB TCGA-A5-A0GW TCGA-A5-A0R7 TCGA-A5-A0VP TCGA-A5-A2K7 
       17.85        32.78        23.21        17.59        42.35        34.95 
TCGA-A5-A3LO TCGA-AJ-A3EL TCGA-AJ-A3NE TCGA-AJ-A3NG TCGA-AJ-A3OL TCGA-AJ-A5DW 
       25.51        22.49        20.65        15.62        14.76        12.82 
TCGA-AP-A054 TCGA-AP-A056 TCGA-AP-A05N TCGA-AP-A1DH TCGA-AP-A1DK TCGA-AP-A1DR 
       23.31        86.07        23.87        71.67        90.97        49.15 
TCGA-AX-A062 TCGA-AX-A06B TCGA-AX-A06D TCGA-AX-A0IZ TCGA-AX-A0J0 TCGA-AX-A1C5 
       45.99        53.92        12.26        43.82        40.11        19.20 
TCGA-AX-A1CF TCGA-AX-A1CN TCGA-AX-A2H7 TCGA-AX-A2HC TCGA-AX-A2HD TCGA-AX-A2HH 
       76.83        25.12        40.80        34.32        46.49        17.75 
TCGA-AX-A2IN TCGA-AX-A3FS TCGA-AX-A3FZ TCGA-AX-A3G8 TCGA-AX-A3G9 TCGA-B5-A0JY 
       31.13         0.03         0.07         0.99        18.35        69.27 
TCGA-B5-A0K0 TCGA-B5-A0K4 TCGA-B5-A11E TCGA-B5-A11P TCGA-B5-A11U TCGA-B5-A11X 
       48.59        57.76        59.84        52.04        16.73        19.59 
TCGA-B5-A1MW TCGA-B5-A3FC TCGA-BG-A0MT TCGA-BG-A0RY TCGA-BG-A18C TCGA-BG-A220 
       14.70        62.14        21.17        15.42        15.45        14.27 
TCGA-BG-A222 TCGA-BG-A2AD TCGA-BG-A2AE TCGA-BG-A2L7 TCGA-BG-A3EW TCGA-BK-A4ZD 
        9.57        20.02        23.70        20.12        11.31        16.64 
TCGA-BS-A0T9 TCGA-BS-A0TG TCGA-BS-A0TJ TCGA-BS-A0U9 TCGA-BS-A0UF TCGA-BS-A0UT 
       46.95        77.95        67.99        92.88        85.84        72.72 
TCGA-BS-A0UV TCGA-D1-A0ZS TCGA-D1-A167 TCGA-D1-A168 TCGA-D1-A169 TCGA-D1-A16N 
       73.25         4.87        15.72        36.10        37.32        31.07 
TCGA-D1-A16V TCGA-D1-A17K TCGA-D1-A1NY TCGA-D1-A1O0 TCGA-D1-A1O8 TCGA-D1-A2G6 
        3.95        28.08        16.87         2.07         3.95         8.48 
TCGA-D1-A3DA TCGA-D1-A3DG TCGA-DF-A2KR TCGA-DF-A2KY TCGA-DF-A2KZ TCGA-DI-A0WH 
       15.88         4.27        71.61        10.92        27.16        16.31 
TCGA-DI-A2QU TCGA-E6-A1M0 TCGA-E6-A2P8 TCGA-EO-A22S TCGA-EO-A22U TCGA-EO-A22X 
       31.10        58.95         2.37        61.55        46.26        57.60 
TCGA-EO-A3AU TCGA-EO-A3KX TCGA-EY-A1G7 TCGA-EY-A1GC TCGA-EY-A1GL TCGA-EY-A1GP 
       50.73        38.47         6.21        54.15        33.34        18.84 
TCGA-EY-A1GR TCGA-EY-A1GT TCGA-EY-A1GW TCGA-EY-A214 TCGA-EY-A2OM TCGA-EY-A2OO 
       17.62        16.11        11.08        14.40        22.82        45.76 
TCGA-EY-A2OP TCGA-EY-A3QX TCGA-EY-A547 TCGA-EY-A72D TCGA-FI-A2D0 TCGA-FI-A2D4 
       31.04        32.52        17.92         5.88        33.63         7.99 
TCGA-FI-A2D5 TCGA-FI-A2D6 TCGA-PG-A6IB TCGA-PG-A917 TCGA-QS-A744 
       13.84         8.65        21.30         6.97        14.83 

$subtype6
TCGA-A5-A0GJ TCGA-A5-A0GM TCGA-A5-A0GP TCGA-A5-A0R9 TCGA-A5-A0VO TCGA-A5-A1OJ 
       65.75        60.53        46.55        24.62        28.77        33.07 
TCGA-AJ-A2QK TCGA-AJ-A2QN TCGA-AJ-A2QO TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3I9 
        0.39        35.15        34.36        18.90        33.90        17.06 
TCGA-AP-A0LJ TCGA-AP-A0LO TCGA-AP-A0LS TCGA-AP-A5FX TCGA-AX-A05S TCGA-AX-A05U 
       46.72        33.40        95.47        36.13        13.58        29.69 
TCGA-AX-A05Y TCGA-AX-A06L TCGA-AX-A1CE TCGA-AX-A1CJ TCGA-AX-A2HJ TCGA-AX-A3FX 
       88.24        60.66        20.05        73.41        30.74        43.82 
TCGA-AX-A3G1 TCGA-AX-A3GB TCGA-B5-A0JT TCGA-B5-A0KB TCGA-B5-A11G TCGA-B5-A11H 
       20.52        14.47        55.30        27.09       113.36        88.34 
TCGA-B5-A11J TCGA-B5-A11L TCGA-B5-A11S TCGA-B5-A11Y TCGA-B5-A1MV TCGA-B5-A3F9 
       54.44        73.64        73.28        18.41        51.45       136.60 
TCGA-B5-A3FB TCGA-B5-A3FD TCGA-B5-A3FH TCGA-BG-A0M0 TCGA-BG-A0M2 TCGA-BG-A0MA 
       78.81        33.11        27.65        19.33        20.94        10.72 
TCGA-BG-A0MH TCGA-BG-A0VZ TCGA-BG-A0W1 TCGA-BG-A0W2 TCGA-BG-A187 TCGA-BK-A139 
       63.45        52.64        52.83        56.58        14.73        10.16 
TCGA-BK-A56F TCGA-BK-A6W3 TCGA-BK-A6W4 TCGA-D1-A101 TCGA-D1-A15W TCGA-D1-A165 
       13.18        10.03         9.86         1.74        30.08         0.66 
TCGA-D1-A16D TCGA-D1-A16F TCGA-D1-A17A TCGA-D1-A17S TCGA-D1-A1O5 TCGA-DF-A2L0 
       37.51         2.63         1.58        24.30        15.06        25.91 
TCGA-DI-A1BY TCGA-DI-A1C3 TCGA-EC-A1NJ TCGA-EO-A1Y7 TCGA-EO-A3L0 TCGA-EY-A548 
       36.62        24.30        16.04        49.15        51.09        14.14 
TCGA-QS-A5YQ TCGA-SJ-A6ZI TCGA-SJ-A6ZJ 
       24.95        20.75        18.28 

$subtype7
TCGA-A5-A0G9 TCGA-A5-A0GD TCGA-A5-A0GE TCGA-A5-A0GG TCGA-A5-A0GQ TCGA-A5-A0R8 
       83.51       112.54       105.37       123.68        73.87        19.59 
TCGA-A5-A0RA TCGA-A5-A1OK TCGA-AJ-A2QL TCGA-AJ-A3OK TCGA-AJ-A5DV TCGA-AJ-A8CT 
       29.06        30.15        19.79        15.95        22.32         2.70 
TCGA-AJ-A8CV TCGA-AP-A05O TCGA-AP-A0LP TCGA-AP-A1DP TCGA-AX-A05W TCGA-AX-A06J 
       35.11        12.62        61.64        35.54        80.55        30.02 
TCGA-AX-A1C9 TCGA-AX-A3FW TCGA-B5-A0JS TCGA-B5-A0JX TCGA-B5-A0K1 TCGA-B5-A0K2 
       15.25         0.56        86.37        58.75        36.49        72.62 
TCGA-B5-A11M TCGA-B5-A11O TCGA-B5-A11R TCGA-B5-A11W TCGA-B5-A121 TCGA-BG-A0M7 
       44.78        40.50        77.23        19.50        16.57        63.68 
TCGA-BG-A0M9 TCGA-BG-A0MC TCGA-BG-A0MG TCGA-BG-A0MK TCGA-BG-A0VV TCGA-BG-A0VW 
       28.27        41.52        48.56        43.30        26.66        16.34 
TCGA-BG-A0YU TCGA-BG-A18A TCGA-BG-A18B TCGA-BK-A0C9 TCGA-BK-A0CA TCGA-BK-A13C 
       14.83        14.01        15.45        35.90        34.98        24.99 
TCGA-BS-A0TC TCGA-BS-A0TD TCGA-BS-A0U5 TCGA-BS-A0UA TCGA-BS-A0UM TCGA-BS-A0V6 
       85.55        78.21        96.49        88.34        86.93        89.59 
TCGA-D1-A0ZO TCGA-D1-A0ZR TCGA-D1-A0ZV TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A16E 
       19.79         0.56        23.93        29.33        37.64        36.79 
TCGA-D1-A16O TCGA-D1-A16X TCGA-D1-A176 TCGA-D1-A17B TCGA-D1-A17D TCGA-D1-A17F 
       33.63         3.65        30.15         7.00        30.44         1.28 
TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NZ TCGA-D1-A1O7 TCGA-D1-A2G5 TCGA-DF-A2KV 
       22.92         1.41        18.02         1.05        47.84        89.33 
TCGA-E6-A2P9 TCGA-EC-A24G TCGA-EO-A22Y TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GH 
       45.57        16.80        51.52        24.36        27.16        23.34 
TCGA-EY-A1GK TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A549 TCGA-PG-A916 TCGA-QS-A5YR 
       22.78        37.05        19.33        19.89        17.16        23.64 

subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 
    0.07     0.43     0.20     0.13     0.03     0.39     0.56 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 
  125.42   185.79   225.50   129.80    92.88   136.60   123.68 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 
  22.325   31.760   31.990   31.020   23.210   30.080   30.085 
[1] "0.1 - 125.4 (22.3)" "0.4 - 185.8 (31.8)" "0.2 - 225.5 (32.0)"
[4] "0.1 - 129.8 (31.0)" "0.0 - 92.9 (23.2)"  "0.4 - 136.6 (30.1)"
[7] "0.6 - 123.7 (30.1)"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 56 54
  subtype2 31 21
  subtype3 20 21
  subtype4 33 30
  subtype5 58 42
  subtype6 42 25
  subtype7 48 27
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   56   54
  subtype2   31   21
  subtype3   20   21
  subtype4   33   30
  subtype5   58   42
  subtype6   42   25
  subtype7   48   27
     clus
vv    subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7
  NO        56       31       20       33       58       42       48
  YES       54       21       21       30       42       25       27
[1] 2 7
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      24
  subtype2                                      53
  subtype3                                      20
  subtype4                                      62
  subtype5                                     103
  subtype6                                      68
  subtype7                                      76
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            10                                90
  subtype2                             0                                 0
  subtype3                             5                                21
  subtype4                             2                                 0
  subtype5                             3                                 2
  subtype6                             1                                 0
  subtype7                             1                                 1
D8V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       24       53       20       62
  MIXED SEROUS AND ENDOMETRIOID                 10        0        5        2
  SEROUS ENDOMETRIAL ADENOCARCINOMA             90        0       21        0
                                         clus
vv                                        subtype5 subtype6 subtype7
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA      103       68       76
  MIXED SEROUS AND ENDOMETRIOID                  3        1        1
  SEROUS ENDOMETRIAL ADENOCARCINOMA              2        0        1
[1] 3 7
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       R0 R1 R2 RX
  subtype1 81  7  3 10
  subtype2 42  1  0  3
  subtype3 32  1  7  3
  subtype4 44  5  1  1
  subtype5 72  7  4  6
  subtype6 44  1  1  6
  subtype7 58  0  1  8
D8V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7
  R0       81       42       32       44       72       44       58
  R1        7        1        1        5        7        1        0
  R2        3        0        7        1        4        1        1
  RX       10        3        3        1        6        6        8
[1] 4 7
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     3                        36
  subtype2                                0     2                        10
  subtype3                                1     3                        10
  subtype4                                2     1                         9
  subtype5                                0     4                        15
  subtype6                                1     3                        15
  subtype7                                0     4                        12
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         1    75
  subtype2                                         0    39
  subtype3                                         1    26
  subtype4                                         3    47
  subtype5                                         4    77
  subtype6                                         0    48
  subtype7                                         0    61
D8V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE                 0        0        1        2
  ASIAN                                            3        2        3        1
  BLACK OR AFRICAN AMERICAN                       36       10       10        9
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        1        0        1        3
  WHITE                                           75       39       26       47
                                           clus
vv                                          subtype5 subtype6 subtype7
  AMERICAN INDIAN OR ALASKA NATIVE                 0        1        0
  ASIAN                                            4        3        4
  BLACK OR AFRICAN AMERICAN                       15       15       12
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        4        0        0
  WHITE                                           77       48       61
[1] 5 7
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V7, binary
          cls
clus        0  1
  subtype1  4 82
  subtype2  1 38
  subtype3  4 33
  subtype4  2 41
  subtype5  3 76
  subtype6  1 45
  subtype7  0 60
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   82
  subtype2    1   38
  subtype3    4   33
  subtype4    2   41
  subtype5    3   76
  subtype6    1   45
  subtype7    0   60
                        clus
vv                       subtype1 subtype2 subtype3 subtype4 subtype5 subtype6
  HISPANIC OR LATINO            4        1        4        2        3        1
  NOT HISPANIC OR LATINO       82       38       33       41       76       45
                        clus
vv                       subtype7
  HISPANIC OR LATINO            0
  NOT HISPANIC OR LATINO       60
[1] 2 7
[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 = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2        0   1
  subtype1 171  48
  subtype2 133  18
  subtype3 150  13
subtype1 subtype2 subtype3 
     219      151      163 
subtype1 subtype2 subtype3 
      48       18       13 
$subtype1
TCGA-2E-A9G8 TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0GA 
       41.06       106.88       149.56        46.95        37.02        17.85 
TCGA-A5-A0GH TCGA-A5-A0GR TCGA-A5-A0GW TCGA-A5-A0R6 TCGA-A5-A1OF TCGA-A5-A1OG 
       74.10        36.82        23.21        37.91        31.99        31.99 
TCGA-A5-A1OH TCGA-A5-A2K2 TCGA-A5-A2K3 TCGA-A5-A2K4 TCGA-A5-A2K5 TCGA-A5-A2K7 
       36.33       118.19        66.15        28.64        24.72        34.95 
TCGA-A5-A3LO TCGA-A5-A3LP TCGA-A5-A7WK TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A2QM 
       25.51        14.96        18.41        20.25        14.43        29.39 
TCGA-AJ-A2QO TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3BG TCGA-AJ-A3EK TCGA-AJ-A3EL 
       34.36        34.16         1.12        18.08        14.66        22.49 
TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NF TCGA-AJ-A3NG TCGA-AJ-A3OJ TCGA-AJ-A3QS 
       22.26        20.81        21.21        15.62        15.35        16.87 
TCGA-AJ-A3TW TCGA-AJ-A6NU TCGA-AP-A059 TCGA-AP-A0L8 TCGA-AP-A0L9 TCGA-AP-A0LF 
       16.87        20.78        48.03        48.79       125.42        93.99 
TCGA-AP-A0LH TCGA-AP-A0LI TCGA-AP-A1DH TCGA-AP-A1DQ TCGA-AP-A1DV TCGA-AP-A1E3 
       36.36        97.71        71.67        46.78         6.71        27.85 
TCGA-AP-A1E4 TCGA-AP-A3K1 TCGA-AX-A06B TCGA-AX-A06F TCGA-AX-A0IU TCGA-AX-A0IW 
       16.24        21.90        53.92        51.09        28.54        37.78 
TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CC TCGA-AX-A1CF TCGA-AX-A1CP 
       16.96        13.55        20.28        12.43        76.83        36.39 
TCGA-AX-A1CR TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HF 
       11.08         4.77        30.12        71.24        61.18        19.36 
TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A2HK TCGA-AX-A2IN TCGA-AX-A2IO TCGA-AX-A3FT 
       26.33        17.75         2.96        31.13        64.93         0.20 
TCGA-AX-A3G1 TCGA-AX-A3G3 TCGA-AX-A3G4 TCGA-AX-A3G6 TCGA-AX-A3G7 TCGA-AX-A3G9 
       20.52         1.38         0.30         0.26         0.30        18.35 
TCGA-AX-A3GI TCGA-B5-A0JN TCGA-B5-A0K3 TCGA-B5-A0K4 TCGA-B5-A0K8 TCGA-B5-A0K9 
        0.39        80.38        27.29        57.76        27.85        11.01 
TCGA-B5-A11H TCGA-B5-A11L TCGA-B5-A1MR TCGA-B5-A1MS TCGA-B5-A1MU TCGA-B5-A1MW 
       88.34        73.64       225.50       102.31        50.89        14.70 
TCGA-B5-A1MX TCGA-B5-A1MY TCGA-B5-A1N2 TCGA-B5-A3FA TCGA-B5-A3S1 TCGA-B5-A5OD 
       48.43        11.87        12.79        96.30        29.65        34.13 
TCGA-B5-A5OE TCGA-BG-A0LX TCGA-BG-A0M4 TCGA-BG-A0M6 TCGA-BG-A0MG TCGA-BG-A0MT 
       34.95        20.19        71.24        22.06        48.56        21.17 
TCGA-BG-A0YV TCGA-BG-A221 TCGA-BG-A2AD TCGA-BG-A2AE TCGA-BG-A3EW TCGA-BG-A3PP 
       12.56         1.81        20.02        23.70        11.31        22.39 
TCGA-BK-A0CC TCGA-BK-A139 TCGA-BK-A26L TCGA-BS-A0TA TCGA-BS-A0TE TCGA-BS-A0TJ 
       10.22        10.16        24.13        24.33         4.80        67.99 
TCGA-BS-A0U9 TCGA-BS-A0UF TCGA-BS-A0UV TCGA-BS-A0V8 TCGA-D1-A0ZP TCGA-D1-A0ZZ 
       92.88        85.84        73.25        83.64        29.95        22.55 
TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A167 TCGA-D1-A168 TCGA-D1-A16G TCGA-D1-A16I 
       39.48        29.88        15.72        36.10        27.42        11.51 
TCGA-D1-A16J TCGA-D1-A16S TCGA-D1-A179 TCGA-D1-A17C TCGA-D1-A17H TCGA-D1-A1NU 
       29.92        18.67        14.73         0.99        28.01        13.22 
TCGA-D1-A1NW TCGA-D1-A2G0 TCGA-D1-A2G7 TCGA-D1-A3DG TCGA-D1-A3DH TCGA-D1-A3JP 
        0.72        48.79        58.95         4.27        18.84        16.93 
TCGA-D1-A3JQ TCGA-DF-A2KR TCGA-DF-A2KV TCGA-DF-A2KY TCGA-DI-A1BU TCGA-DI-A1NN 
       17.29        71.61        89.33        10.92        39.29        35.38 
TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QU TCGA-DI-A2QY TCGA-E6-A1LZ TCGA-E6-A2P8 
        9.37        12.39        31.10       110.10        79.10         2.37 
TCGA-E6-A8L9 TCGA-EC-A1QX TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A22T TCGA-EO-A2CG 
       33.30         7.36        10.75        37.71        66.90        51.42 
TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EO-A3AV TCGA-EO-A3AY TCGA-EO-A3AZ TCGA-EO-A3B0 
       19.40        34.39        35.15        38.07        27.16        17.88 
TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EO-A3KX TCGA-EY-A1G7 TCGA-EY-A1GC 
       26.96        22.26        16.34        38.47         6.21        54.15 
TCGA-EY-A1GJ TCGA-EY-A1GM TCGA-EY-A1GO TCGA-EY-A1GP TCGA-EY-A1GS TCGA-EY-A1GT 
       23.90        32.71        19.27        18.84        22.03        16.11 
TCGA-EY-A1GV TCGA-EY-A210 TCGA-EY-A212 TCGA-EY-A214 TCGA-EY-A215 TCGA-EY-A2ON 
       15.81        12.59        10.19        14.40        18.87        20.05 
TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A547 TCGA-EY-A54A 
       29.10        27.35        32.52        11.38        17.92        14.70 
TCGA-EY-A72D TCGA-FI-A2CX TCGA-FI-A2CY TCGA-FI-A2D0 TCGA-FI-A2D2 TCGA-FI-A2D4 
        5.88        66.77        68.38        33.63        39.95         7.99 
TCGA-FI-A2D5 TCGA-FI-A2D6 TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2F8 
       13.84         8.65        96.69        59.01         9.34        30.67 
TCGA-FI-A2F9 TCGA-FI-A3PV TCGA-FI-A3PX TCGA-H5-A2HR TCGA-JU-AAVI TCGA-K6-A3WQ 
       59.28        41.56        78.38         1.28         7.76        14.04 
TCGA-KJ-A3U4 TCGA-KP-A3VZ TCGA-KP-A3W0 TCGA-KP-A3W1 TCGA-KP-A3W3 TCGA-KP-A3W4 
        2.43        23.74        13.28         9.47        26.10        18.21 
TCGA-PG-A5BC TCGA-PG-A6IB TCGA-PG-A7D5 TCGA-PG-A914 TCGA-PG-A915 TCGA-QS-A744 
       23.24        21.30        38.70        22.59         8.19        14.83 
TCGA-QS-A8F1 TCGA-SJ-A6ZI TCGA-SL-A6J9 
        4.44        20.75         0.07 

$subtype2
TCGA-4E-A92E TCGA-5B-A90C TCGA-5S-A9Q8 TCGA-A5-A0GI TCGA-A5-A0GN TCGA-A5-A0GP 
        0.43        39.52        10.29        88.18        60.53        46.55 
TCGA-A5-A0GV TCGA-A5-A0GX TCGA-A5-A0R7 TCGA-A5-A0VQ TCGA-A5-A1OK TCGA-A5-A7WJ 
       54.02        68.65        17.59        15.95        30.15        11.21 
TCGA-A5-AB3J TCGA-AJ-A23O TCGA-AJ-A2QN TCGA-AJ-A3EJ TCGA-AJ-A3NC TCGA-AJ-A3NE 
       16.83        10.26        35.15         1.64        36.99        20.65 
TCGA-AJ-A3NH TCGA-AJ-A3OL TCGA-AJ-A8CW TCGA-AP-A051 TCGA-AP-A053 TCGA-AP-A054 
       10.19        14.76         0.13       129.80       110.63        23.31 
TCGA-AP-A05P TCGA-AP-A0LD TCGA-AP-A0LE TCGA-AP-A0LG TCGA-AP-A0LL TCGA-AP-A0LM 
       20.91       117.99       110.37        66.25        83.97        27.12 
TCGA-AP-A0LN TCGA-AP-A0LO TCGA-AP-A0LT TCGA-AP-A0LV TCGA-AP-A1DM TCGA-AP-A1DO 
       82.52        33.40        49.22        25.08        55.89        31.30 
TCGA-AP-A1DR TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AP-A5FX TCGA-AW-A1PO TCGA-AX-A05U 
       49.15        60.23        45.86        36.13         0.56        29.69 
TCGA-AX-A05Z TCGA-AX-A060 TCGA-AX-A062 TCGA-AX-A064 TCGA-AX-A06D TCGA-AX-A06J 
       46.45        35.34        45.99        34.98        12.26        30.02 
TCGA-AX-A0IS TCGA-AX-A0IZ TCGA-AX-A0J0 TCGA-AX-A0J1 TCGA-AX-A1C4 TCGA-AX-A1C5 
       35.01        43.82        40.11        65.88        13.28        19.20 
TCGA-AX-A1CI TCGA-AX-A1CK TCGA-AX-A1CN TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HD 
       72.56        67.50        25.12        81.37        34.32        46.49 
TCGA-AX-A3FS TCGA-AX-A3FZ TCGA-AX-A3G8 TCGA-B5-A0JR TCGA-B5-A0JU TCGA-B5-A0JV 
        0.03         0.07         0.99        56.91        59.24        86.01 
TCGA-B5-A0JY TCGA-B5-A0JZ TCGA-B5-A0K0 TCGA-B5-A0K6 TCGA-B5-A0K7 TCGA-B5-A11E 
       69.27        71.44        48.59        64.21        63.55        59.84 
TCGA-B5-A11F TCGA-B5-A11I TCGA-B5-A11U TCGA-B5-A11V TCGA-B5-A11X TCGA-B5-A11Z 
      185.79        75.72        16.73        19.56        19.59        17.36 
TCGA-B5-A1MZ TCGA-B5-A3FB TCGA-B5-A5OC TCGA-BG-A0LW TCGA-BG-A0M3 TCGA-BG-A0MI 
       15.29        78.81        41.06        18.61        35.21        23.47 
TCGA-BG-A0MO TCGA-BG-A0MQ TCGA-BG-A0MS TCGA-BG-A0MU TCGA-BG-A0RY TCGA-BG-A0VT 
       43.04        59.74        61.87        20.28        15.42        24.39 
TCGA-BG-A0VX TCGA-BG-A0W2 TCGA-BG-A186 TCGA-BG-A18C TCGA-BG-A222 TCGA-BK-A13B 
       34.29        56.58        13.78        15.45         9.57        31.76 
TCGA-BK-A13C TCGA-BK-A4ZD TCGA-BS-A0T9 TCGA-BS-A0TI TCGA-BS-A0U5 TCGA-BS-A0U7 
       24.99        16.64        46.95        61.87        96.49        30.74 
TCGA-BS-A0U8 TCGA-BS-A0UT TCGA-BS-A0V4 TCGA-BS-A0V7 TCGA-BS-A0VI TCGA-BS-A0WQ 
       97.41        72.72        59.51        63.58        86.99        66.48 
TCGA-D1-A0ZN TCGA-D1-A0ZQ TCGA-D1-A0ZS TCGA-D1-A102 TCGA-D1-A15Z TCGA-D1-A160 
       16.83         8.55         4.87         4.44         1.91         3.68 
TCGA-D1-A163 TCGA-D1-A16N TCGA-D1-A16R TCGA-D1-A16Y TCGA-D1-A177 TCGA-D1-A17K 
       32.58        31.07         0.69        17.49        18.02        28.08 
TCGA-D1-A17M TCGA-D1-A17R TCGA-D1-A1NY TCGA-D1-A1O8 TCGA-D1-A2G6 TCGA-D1-A3DA 
       10.22        11.15        16.87         3.95         8.48        15.88 
TCGA-DF-A2KZ TCGA-DI-A0WH TCGA-DI-A1C3 TCGA-E6-A1LX TCGA-E6-A1M0 TCGA-EO-A22R 
       27.16        16.31        24.30        23.38        58.95        61.74 
TCGA-EO-A22S TCGA-EO-A22U TCGA-EO-A22X TCGA-EO-A3AU TCGA-EY-A1G8 TCGA-EY-A1GD 
       61.55        46.26        57.60        50.73        14.99        53.88 
TCGA-EY-A1GL TCGA-EY-A1GQ TCGA-EY-A1GR TCGA-EY-A1GU TCGA-EY-A2OM TCGA-EY-A2OO 
       33.34        17.88        17.62        12.43        22.82        45.76 
TCGA-EY-A2OP TCGA-EY-A548 TCGA-EY-A5W2 TCGA-FI-A2EY TCGA-PG-A917 TCGA-QF-A5YT 
       31.04        14.14        16.96        28.93         6.97        39.95 
TCGA-SL-A6JA 
        0.23 

$subtype3
TCGA-A5-A0G9 TCGA-A5-A0GB TCGA-A5-A0GD TCGA-A5-A0GE TCGA-A5-A0GG TCGA-A5-A0GJ 
       83.51        32.78       112.54       105.37       123.68        65.75 
TCGA-A5-A0GM TCGA-A5-A0GQ TCGA-A5-A0GU TCGA-A5-A0R8 TCGA-A5-A0R9 TCGA-A5-A0RA 
       60.53        73.87        28.27        19.59        24.62        29.06 
TCGA-A5-A0VO TCGA-A5-A0VP TCGA-A5-A1OJ TCGA-AJ-A2QK TCGA-AJ-A2QL TCGA-AJ-A3BI 
       28.77        42.35        33.07         0.39        19.79        18.90 
TCGA-AJ-A3BK TCGA-AJ-A3I9 TCGA-AJ-A3OK TCGA-AJ-A5DV TCGA-AJ-A5DW TCGA-AJ-A8CT 
       33.90        17.06        15.95        22.32        12.82         2.70 
TCGA-AJ-A8CV TCGA-AP-A05O TCGA-AP-A0LJ TCGA-AP-A0LP TCGA-AP-A0LQ TCGA-AP-A0LS 
       35.11        12.62        46.72        61.64        80.78        95.47 
TCGA-AP-A1DK TCGA-AP-A1DP TCGA-AX-A05S TCGA-AX-A05T TCGA-AX-A05W TCGA-AX-A05Y 
       90.97        35.54        13.58        33.21        80.55        88.24 
TCGA-AX-A063 TCGA-AX-A06H TCGA-AX-A06L TCGA-AX-A1C9 TCGA-AX-A1CE TCGA-AX-A1CJ 
       79.46        27.39        60.66        15.25        20.05        73.41 
TCGA-AX-A2H7 TCGA-AX-A2HJ TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3GB TCGA-B5-A0JS 
       40.80        30.74         0.56        43.82        14.47        86.37 
TCGA-B5-A0JT TCGA-B5-A0JX TCGA-B5-A0K1 TCGA-B5-A0K2 TCGA-B5-A0KB TCGA-B5-A11G 
       55.30        58.75        36.49        72.62        27.09       113.36 
TCGA-B5-A11J TCGA-B5-A11M TCGA-B5-A11N TCGA-B5-A11O TCGA-B5-A11P TCGA-B5-A11Q 
       54.44        44.78        61.68        40.50        52.04        32.09 
TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11W TCGA-B5-A11Y TCGA-B5-A121 TCGA-B5-A1MV 
       77.23        73.28        19.50        18.41        16.57        51.45 
TCGA-B5-A3F9 TCGA-B5-A3FC TCGA-B5-A3FD TCGA-B5-A3FH TCGA-BG-A0M0 TCGA-BG-A0M2 
      136.60        62.14        33.11        27.65        19.33        20.94 
TCGA-BG-A0M7 TCGA-BG-A0M8 TCGA-BG-A0M9 TCGA-BG-A0MA TCGA-BG-A0MC TCGA-BG-A0MH 
       63.68        66.41        28.27        10.72        41.52        63.45 
TCGA-BG-A0MK TCGA-BG-A0VV TCGA-BG-A0VW TCGA-BG-A0VZ TCGA-BG-A0W1 TCGA-BG-A0YU 
       43.30        26.66        16.34        52.64        52.83        14.83 
TCGA-BG-A187 TCGA-BG-A18A TCGA-BG-A18B TCGA-BG-A2L7 TCGA-BK-A0C9 TCGA-BK-A0CA 
       14.73        14.01        15.45        20.12        35.90        34.98 
TCGA-BK-A56F TCGA-BK-A6W3 TCGA-BK-A6W4 TCGA-BS-A0TC TCGA-BS-A0TD TCGA-BS-A0TG 
       13.18        10.03         9.86        85.55        78.21        77.95 
TCGA-BS-A0UA TCGA-BS-A0UJ TCGA-BS-A0UL TCGA-BS-A0UM TCGA-BS-A0V6 TCGA-D1-A0ZO 
       88.34        82.39        81.57        86.93        89.59        19.79 
TCGA-D1-A0ZR TCGA-D1-A0ZU TCGA-D1-A0ZV TCGA-D1-A101 TCGA-D1-A103 TCGA-D1-A15W 
        0.56        28.67        23.93         1.74        21.99        30.08 
TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A165 TCGA-D1-A169 TCGA-D1-A16B TCGA-D1-A16D 
       29.33        37.64         0.66        37.32        36.36        37.51 
TCGA-D1-A16E TCGA-D1-A16F TCGA-D1-A16O TCGA-D1-A16Q TCGA-D1-A16V TCGA-D1-A16X 
       36.79         2.63        33.63        10.65         3.95         3.65 
TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A176 TCGA-D1-A17A TCGA-D1-A17B TCGA-D1-A17D 
       19.53         6.64        30.15         1.58         7.00        30.44 
TCGA-D1-A17F TCGA-D1-A17L TCGA-D1-A17N TCGA-D1-A17Q TCGA-D1-A17S TCGA-D1-A17T 
        1.28        26.37         1.51         1.78        24.30         2.33 
TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NX TCGA-D1-A1NZ TCGA-D1-A1O0 TCGA-D1-A1O5 
       22.92         1.41        18.25        18.02         2.07        15.06 
TCGA-D1-A1O7 TCGA-D1-A2G5 TCGA-DF-A2L0 TCGA-DI-A1BY TCGA-E6-A2P9 TCGA-EC-A1NJ 
        1.05        47.84        25.91        36.62        45.57        16.04 
TCGA-EC-A24G TCGA-EO-A1Y7 TCGA-EO-A22Y TCGA-EO-A3L0 TCGA-EY-A1GE TCGA-EY-A1GF 
       16.80        49.15        51.52        51.09        24.36        27.16 
TCGA-EY-A1GH TCGA-EY-A1GI TCGA-EY-A1GK TCGA-EY-A1GW TCGA-EY-A1GX TCGA-EY-A1H0 
       23.34        23.34        22.78        11.08        37.05        19.33 
TCGA-EY-A549 TCGA-FI-A2F4 TCGA-PG-A916 TCGA-QF-A5YS TCGA-QS-A5YQ TCGA-QS-A5YR 
       19.89        73.32        17.16        22.65        24.95        23.64 
TCGA-SJ-A6ZJ 
       18.28 

subtype1 subtype2 subtype3 
    0.07     0.03     0.39 
subtype1 subtype2 subtype3 
  225.50   185.79   136.60 
subtype1 subtype2 subtype3 
   23.70    31.30    28.77 
[1] "0.1 - 225.5 (23.7)" "0.0 - 185.8 (31.3)" "0.4 - 136.6 (28.8)"
D9V2, continuous
D9V3, binary
          cls
clus         0   1
  subtype1  96 102
  subtype2  88  57
  subtype3  97  61
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   96  102
  subtype2   88   57
  subtype3   97   61
     clus
vv    subtype1 subtype2 subtype3
  NO        96       88       97
  YES      102       57       61
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      99
  subtype2                                     146
  subtype3                                     159
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            17                               105
  subtype2                             3                                 2
  subtype3                             2                                 2
D9V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       99      146      159
  MIXED SEROUS AND ENDOMETRIOID                 17        3        2
  SEROUS ENDOMETRIAL ADENOCARCINOMA            105        2        2
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1 144  12  11  17
  subtype2 105   7   3   8
  subtype3 119   3   2  12
D9V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0      144      105      119
  R1       12        7        3
  R2       11        3        2
  RX       17        8       12
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     9                        50
  subtype2                                2     4                        31
  subtype3                                1     7                        26
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         6   136
  subtype2                                         2   105
  subtype3                                         1   125
D9V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        2        1
  ASIAN                                            9        4        7
  BLACK OR AFRICAN AMERICAN                       50       31       26
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        6        2        1
  WHITE                                          136      105      125
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V7, binary
          cls
clus         0   1
  subtype1  11 153
  subtype2   2 101
  subtype3   2 120
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   11  153
  subtype2    2  101
  subtype3    2  120
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO           11        2        2
  NOT HISPANIC OR LATINO      153      101      120
[1] 2 3
[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 = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1 186  30
  subtype2  55   3
  subtype3 130  13
  subtype4  83  33
subtype1 subtype2 subtype3 subtype4 
     216       58      143      116 
subtype1 subtype2 subtype3 subtype4 
      30        3       13       33 
$subtype1
TCGA-2E-A9G8 TCGA-5B-A90C TCGA-A5-A0G1 TCGA-A5-A0GH TCGA-A5-A0GJ TCGA-A5-A0GN 
       41.06        39.52       106.88        74.10        65.75        60.53 
TCGA-A5-A0GP TCGA-A5-A0GW TCGA-A5-A0R7 TCGA-A5-A0VP TCGA-A5-A0VQ TCGA-A5-A1OF 
       46.55        23.21        17.59        42.35        15.95        31.99 
TCGA-A5-A2K5 TCGA-A5-A2K7 TCGA-A5-A3LO TCGA-A5-A7WJ TCGA-AJ-A23O TCGA-AJ-A2QN 
       24.72        34.95        25.51        11.21        10.26        35.15 
TCGA-AJ-A2QO TCGA-AJ-A3BG TCGA-AJ-A3EJ TCGA-AJ-A3EK TCGA-AJ-A3EL TCGA-AJ-A3IA 
       34.36        18.08         1.64        14.66        22.49        20.81 
TCGA-AJ-A3NE TCGA-AJ-A3NG TCGA-AJ-A3NH TCGA-AJ-A3OJ TCGA-AJ-A3OL TCGA-AJ-A3TW 
       20.65        15.62        10.19        15.35        14.76        16.87 
TCGA-AJ-A5DW TCGA-AJ-A6NU TCGA-AJ-A8CW TCGA-AP-A051 TCGA-AP-A053 TCGA-AP-A054 
       12.82        20.78         0.13       129.80       110.63        23.31 
TCGA-AP-A059 TCGA-AP-A05P TCGA-AP-A0L9 TCGA-AP-A0LD TCGA-AP-A0LE TCGA-AP-A0LG 
       48.03        20.91       125.42       117.99       110.37        66.25 
TCGA-AP-A0LM TCGA-AP-A0LO TCGA-AP-A0LT TCGA-AP-A1DH TCGA-AP-A1DK TCGA-AP-A1DM 
       27.12        33.40        49.22        71.67        90.97        55.89 
TCGA-AP-A1DO TCGA-AP-A1DR TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E3 TCGA-AP-A1E4 
       31.30        49.15         6.71        60.23        27.85        16.24 
TCGA-AP-A5FX TCGA-AW-A1PO TCGA-AX-A05S TCGA-AX-A060 TCGA-AX-A063 TCGA-AX-A064 
       36.13         0.56        13.58        35.34        79.46        34.98 
TCGA-AX-A06B TCGA-AX-A06H TCGA-AX-A0IZ TCGA-AX-A1CF TCGA-AX-A1CI TCGA-AX-A1CK 
       53.92        27.39        43.82        76.83        72.56        67.50 
TCGA-AX-A1CN TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HD 
       25.12        71.24        61.18        81.37        34.32        46.49 
TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A2IN TCGA-AX-A3FS TCGA-AX-A3FT TCGA-AX-A3FZ 
       26.33        17.75        31.13         0.03         0.20         0.07 
TCGA-AX-A3G6 TCGA-AX-A3G8 TCGA-AX-A3G9 TCGA-B5-A0JR TCGA-B5-A0JY TCGA-B5-A0JZ 
        0.26         0.99        18.35        56.91        69.27        71.44 
TCGA-B5-A0K4 TCGA-B5-A11E TCGA-B5-A11H TCGA-B5-A11I TCGA-B5-A11L TCGA-B5-A11N 
       57.76        59.84        88.34        75.72        73.64        61.68 
TCGA-B5-A11P TCGA-B5-A11Q TCGA-B5-A11U TCGA-B5-A11X TCGA-B5-A1MR TCGA-B5-A1MU 
       52.04        32.09        16.73        19.59       225.50        50.89 
TCGA-B5-A1MW TCGA-B5-A1MX TCGA-B5-A1N2 TCGA-B5-A3FA TCGA-B5-A3FB TCGA-B5-A3FC 
       14.70        48.43        12.79        96.30        78.81        62.14 
TCGA-B5-A5OC TCGA-BG-A0LX TCGA-BG-A0M7 TCGA-BG-A0M8 TCGA-BG-A0MQ TCGA-BG-A0YV 
       41.06        20.19        63.68        66.41        59.74        12.56 
TCGA-BG-A18C TCGA-BG-A221 TCGA-BG-A222 TCGA-BG-A2AD TCGA-BG-A2AE TCGA-BG-A2L7 
       15.45         1.81         9.57        20.02        23.70        20.12 
TCGA-BG-A3EW TCGA-BG-A3PP TCGA-BK-A139 TCGA-BK-A4ZD TCGA-BK-A6W3 TCGA-BK-A6W4 
       11.31        22.39        10.16        16.64        10.03         9.86 
TCGA-BS-A0TE TCGA-BS-A0TJ TCGA-BS-A0U7 TCGA-BS-A0U9 TCGA-BS-A0UF TCGA-BS-A0UL 
        4.80        67.99        30.74        92.88        85.84        81.57 
TCGA-BS-A0V8 TCGA-BS-A0VI TCGA-D1-A0ZQ TCGA-D1-A0ZS TCGA-D1-A0ZU TCGA-D1-A101 
       83.64        86.99         8.55         4.87        28.67         1.74 
TCGA-D1-A103 TCGA-D1-A15Z TCGA-D1-A160 TCGA-D1-A163 TCGA-D1-A167 TCGA-D1-A168 
       21.99         1.91         3.68        32.58        15.72        36.10 
TCGA-D1-A16J TCGA-D1-A16N TCGA-D1-A16V TCGA-D1-A175 TCGA-D1-A177 TCGA-D1-A17C 
       29.92        31.07         3.95         6.64        18.02         0.99 
TCGA-D1-A17H TCGA-D1-A17K TCGA-D1-A17M TCGA-D1-A17R TCGA-D1-A1NY TCGA-D1-A2G6 
       28.01        28.08        10.22        11.15        16.87         8.48 
TCGA-D1-A3DA TCGA-D1-A3JP TCGA-DF-A2KR TCGA-DF-A2KY TCGA-DF-A2KZ TCGA-DF-A2L0 
       15.88        16.93        71.61        10.92        27.16        25.91 
TCGA-DI-A0WH TCGA-DI-A1BU TCGA-DI-A1NO TCGA-DI-A2QU TCGA-E6-A1LX TCGA-E6-A1M0 
       16.31        39.29         9.37        31.10        23.38        58.95 
TCGA-E6-A2P8 TCGA-EC-A1NJ TCGA-EC-A1QX TCGA-EO-A22R TCGA-EO-A22S TCGA-EO-A22T 
        2.37        16.04         7.36        61.74        61.55        66.90 
TCGA-EO-A22U TCGA-EO-A22X TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EO-A3AU TCGA-EO-A3AV 
       46.26        57.60        19.40        34.39        50.73        35.15 
TCGA-EO-A3AY TCGA-EO-A3AZ TCGA-EO-A3B0 TCGA-EO-A3KU TCGA-EO-A3KX TCGA-EY-A1G7 
       38.07        27.16        17.88        22.26        38.47         6.21 
TCGA-EY-A1G8 TCGA-EY-A1GC TCGA-EY-A1GI TCGA-EY-A1GJ TCGA-EY-A1GO TCGA-EY-A1GQ 
       14.99        54.15        23.34        23.90        19.27        17.88 
TCGA-EY-A1GR TCGA-EY-A1GT TCGA-EY-A1GU TCGA-EY-A214 TCGA-EY-A215 TCGA-EY-A2OM 
       17.62        16.11        12.43        14.40        18.87        22.82 
TCGA-EY-A2OO TCGA-EY-A2OP TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A3QX TCGA-EY-A547 
       45.76        31.04        29.10        27.35        32.52        17.92 
TCGA-EY-A548 TCGA-EY-A54A TCGA-EY-A5W2 TCGA-EY-A72D TCGA-FI-A2CX TCGA-FI-A2D0 
       14.14        14.70        16.96         5.88        66.77        33.63 
TCGA-FI-A2D4 TCGA-FI-A2D5 TCGA-FI-A2D6 TCGA-KJ-A3U4 TCGA-KP-A3VZ TCGA-PG-A6IB 
        7.99        13.84         8.65         2.43        23.74        21.30 
TCGA-PG-A917 TCGA-QF-A5YS TCGA-QS-A744 TCGA-SJ-A6ZI TCGA-SL-A6J9 TCGA-SL-A6JA 
        6.97        22.65        14.83        20.75         0.07         0.23 

$subtype2
TCGA-4E-A92E TCGA-5S-A9Q8 TCGA-A5-A0GI TCGA-A5-A0GM TCGA-A5-A0GU TCGA-A5-A0GV 
        0.43        10.29        88.18        60.53        28.27        54.02 
TCGA-A5-A0GX TCGA-A5-AB3J TCGA-AJ-A3NC TCGA-AP-A0LJ TCGA-AP-A0LL TCGA-AP-A0LN 
       68.65        16.83        36.99        46.72        83.97        82.52 
TCGA-AP-A0LV TCGA-AX-A05T TCGA-AX-A05U TCGA-AX-A05Z TCGA-AX-A062 TCGA-AX-A0IS 
       25.08        33.21        29.69        46.45        45.99        35.01 
TCGA-AX-A1C4 TCGA-AX-A3GB TCGA-B5-A0JU TCGA-B5-A0K0 TCGA-B5-A0K6 TCGA-B5-A0K7 
       13.28        14.47        59.24        48.59        64.21        63.55 
TCGA-B5-A11F TCGA-B5-A11V TCGA-B5-A11Z TCGA-B5-A1MZ TCGA-BG-A0LW TCGA-BG-A0M3 
      185.79        19.56        17.36        15.29        18.61        35.21 
TCGA-BG-A0MI TCGA-BG-A0MO TCGA-BG-A0MS TCGA-BG-A0MU TCGA-BG-A0VT TCGA-BG-A0VX 
       23.47        43.04        61.87        20.28        24.39        34.29 
TCGA-BG-A0W2 TCGA-BG-A186 TCGA-BK-A13B TCGA-BS-A0T9 TCGA-BS-A0TG TCGA-BS-A0TI 
       56.58        13.78        31.76        46.95        77.95        61.87 
TCGA-BS-A0U8 TCGA-BS-A0UJ TCGA-BS-A0UT TCGA-BS-A0V4 TCGA-BS-A0V7 TCGA-BS-A0WQ 
       97.41        82.39        72.72        59.51        63.58        66.48 
TCGA-D1-A0ZN TCGA-D1-A102 TCGA-D1-A16Q TCGA-D1-A16R TCGA-D1-A17N TCGA-D1-A1O8 
       16.83         4.44        10.65         0.69         1.51         3.95 
TCGA-DI-A1C3 TCGA-EY-A1GD TCGA-EY-A1GL TCGA-QF-A5YT 
       24.30        53.88        33.34        39.95 

$subtype3
TCGA-A5-A0G9 TCGA-A5-A0GB TCGA-A5-A0GD TCGA-A5-A0GE TCGA-A5-A0GG TCGA-A5-A0GQ 
       83.51        32.78       112.54       105.37       123.68        73.87 
TCGA-A5-A0R8 TCGA-A5-A0R9 TCGA-A5-A0RA TCGA-A5-A0VO TCGA-A5-A1OJ TCGA-A5-A1OK 
       19.59        24.62        29.06        28.77        33.07        30.15 
TCGA-AJ-A2QK TCGA-AJ-A2QL TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3I9 TCGA-AJ-A3OK 
        0.39        19.79        18.90        33.90        17.06        15.95 
TCGA-AJ-A5DV TCGA-AJ-A8CT TCGA-AJ-A8CV TCGA-AP-A05O TCGA-AP-A0LP TCGA-AP-A0LQ 
       22.32         2.70        35.11        12.62        61.64        80.78 
TCGA-AP-A0LS TCGA-AP-A1DP TCGA-AP-A1E1 TCGA-AX-A05W TCGA-AX-A05Y TCGA-AX-A06D 
       95.47        35.54        45.86        80.55        88.24        12.26 
TCGA-AX-A06J TCGA-AX-A06L TCGA-AX-A1C5 TCGA-AX-A1C9 TCGA-AX-A1CE TCGA-AX-A1CJ 
       30.02        60.66        19.20        15.25        20.05        73.41 
TCGA-AX-A2H7 TCGA-AX-A2HJ TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3G1 TCGA-B5-A0JS 
       40.80        30.74         0.56        43.82        20.52        86.37 
TCGA-B5-A0JT TCGA-B5-A0JV TCGA-B5-A0JX TCGA-B5-A0K1 TCGA-B5-A0K2 TCGA-B5-A0KB 
       55.30        86.01        58.75        36.49        72.62        27.09 
TCGA-B5-A11G TCGA-B5-A11J TCGA-B5-A11M TCGA-B5-A11O TCGA-B5-A11R TCGA-B5-A11S 
      113.36        54.44        44.78        40.50        77.23        73.28 
TCGA-B5-A11W TCGA-B5-A11Y TCGA-B5-A121 TCGA-B5-A1MV TCGA-B5-A3F9 TCGA-B5-A3FD 
       19.50        18.41        16.57        51.45       136.60        33.11 
TCGA-B5-A3FH TCGA-BG-A0M0 TCGA-BG-A0M2 TCGA-BG-A0M9 TCGA-BG-A0MA TCGA-BG-A0MC 
       27.65        19.33        20.94        28.27        10.72        41.52 
TCGA-BG-A0MG TCGA-BG-A0MH TCGA-BG-A0MK TCGA-BG-A0MT TCGA-BG-A0RY TCGA-BG-A0VV 
       48.56        63.45        43.30        21.17        15.42        26.66 
TCGA-BG-A0VW TCGA-BG-A0VZ TCGA-BG-A0W1 TCGA-BG-A0YU TCGA-BG-A187 TCGA-BG-A18A 
       16.34        52.64        52.83        14.83        14.73        14.01 
TCGA-BG-A18B TCGA-BK-A0C9 TCGA-BK-A0CA TCGA-BK-A13C TCGA-BK-A56F TCGA-BS-A0TA 
       15.45        35.90        34.98        24.99        13.18        24.33 
TCGA-BS-A0TC TCGA-BS-A0TD TCGA-BS-A0U5 TCGA-BS-A0UA TCGA-BS-A0UM TCGA-BS-A0UV 
       85.55        78.21        96.49        88.34        86.93        73.25 
TCGA-BS-A0V6 TCGA-D1-A0ZO TCGA-D1-A0ZR TCGA-D1-A0ZV TCGA-D1-A15W TCGA-D1-A161 
       89.59        19.79         0.56        23.93        30.08        29.33 
TCGA-D1-A162 TCGA-D1-A165 TCGA-D1-A169 TCGA-D1-A16B TCGA-D1-A16D TCGA-D1-A16E 
       37.64         0.66        37.32        36.36        37.51        36.79 
TCGA-D1-A16F TCGA-D1-A16O TCGA-D1-A16X TCGA-D1-A174 TCGA-D1-A176 TCGA-D1-A17A 
        2.63        33.63         3.65        19.53        30.15         1.58 
TCGA-D1-A17B TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17L TCGA-D1-A17Q TCGA-D1-A17S 
        7.00        30.44         1.28        26.37         1.78        24.30 
TCGA-D1-A17T TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NX TCGA-D1-A1NZ TCGA-D1-A1O0 
        2.33        22.92         1.41        18.25        18.02         2.07 
TCGA-D1-A1O5 TCGA-D1-A1O7 TCGA-D1-A2G5 TCGA-DF-A2KV TCGA-DI-A1BY TCGA-E6-A2P9 
       15.06         1.05        47.84        89.33        36.62        45.57 
TCGA-EC-A24G TCGA-EO-A1Y7 TCGA-EO-A22Y TCGA-EO-A3L0 TCGA-EY-A1GE TCGA-EY-A1GF 
       16.80        49.15        51.52        51.09        24.36        27.16 
TCGA-EY-A1GH TCGA-EY-A1GK TCGA-EY-A1GW TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A549 
       23.34        22.78        11.08        37.05        19.33        19.89 
TCGA-FI-A2F4 TCGA-PG-A916 TCGA-QS-A5YQ TCGA-QS-A5YR TCGA-SJ-A6ZJ 
       73.32        17.16        24.95        23.64        18.28 

$subtype4
TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0GA TCGA-A5-A0GR TCGA-A5-A0R6 
      149.56        46.95        37.02        17.85        36.82        37.91 
TCGA-A5-A1OG TCGA-A5-A1OH TCGA-A5-A2K2 TCGA-A5-A2K3 TCGA-A5-A2K4 TCGA-A5-A3LP 
       31.99        36.33       118.19        66.15        28.64        14.96 
TCGA-A5-A7WK TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A2QM TCGA-AJ-A3BD TCGA-AJ-A3BF 
       18.41        20.25        14.43        29.39        34.16         1.12 
TCGA-AJ-A3EM TCGA-AJ-A3NF TCGA-AJ-A3QS TCGA-AP-A0L8 TCGA-AP-A0LF TCGA-AP-A0LH 
       22.26        21.21        16.87        48.79        93.99        36.36 
TCGA-AP-A0LI TCGA-AP-A1DQ TCGA-AP-A3K1 TCGA-AX-A06F TCGA-AX-A0IU TCGA-AX-A0IW 
       97.71        46.78        21.90        51.09        28.54        37.78 
TCGA-AX-A0J0 TCGA-AX-A0J1 TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CC 
       40.11        65.88        16.96        13.55        20.28        12.43 
TCGA-AX-A1CP TCGA-AX-A1CR TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2HF TCGA-AX-A2HK 
       36.39        11.08         4.77        30.12        19.36         2.96 
TCGA-AX-A2IO TCGA-AX-A3G3 TCGA-AX-A3G4 TCGA-AX-A3G7 TCGA-AX-A3GI TCGA-B5-A0JN 
       64.93         1.38         0.30         0.30         0.39        80.38 
TCGA-B5-A0K3 TCGA-B5-A0K8 TCGA-B5-A0K9 TCGA-B5-A1MS TCGA-B5-A1MY TCGA-B5-A3S1 
       27.29        27.85        11.01       102.31        11.87        29.65 
TCGA-B5-A5OD TCGA-B5-A5OE TCGA-BG-A0M4 TCGA-BG-A0M6 TCGA-BK-A0CC TCGA-BK-A26L 
       34.13        34.95        71.24        22.06        10.22        24.13 
TCGA-D1-A0ZP TCGA-D1-A0ZZ TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A16G TCGA-D1-A16I 
       29.95        22.55        39.48        29.88        27.42        11.51 
TCGA-D1-A16S TCGA-D1-A16Y TCGA-D1-A179 TCGA-D1-A1NU TCGA-D1-A1NW TCGA-D1-A2G0 
       18.67        17.49        14.73        13.22         0.72        48.79 
TCGA-D1-A2G7 TCGA-D1-A3DG TCGA-D1-A3DH TCGA-D1-A3JQ TCGA-DI-A1NN TCGA-DI-A2QT 
       58.95         4.27        18.84        17.29        35.38        12.39 
TCGA-DI-A2QY TCGA-E6-A1LZ TCGA-E6-A8L9 TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A2CG 
      110.10        79.10        33.30        10.75        37.71        51.42 
TCGA-EO-A3B1 TCGA-EO-A3KW TCGA-EY-A1GM TCGA-EY-A1GP TCGA-EY-A1GS TCGA-EY-A1GV 
       26.96        16.34        32.71        18.84        22.03        15.81 
TCGA-EY-A210 TCGA-EY-A212 TCGA-EY-A2ON TCGA-EY-A4KR TCGA-FI-A2CY TCGA-FI-A2D2 
       12.59        10.19        20.05        11.38        68.38        39.95 
TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY TCGA-FI-A2F8 TCGA-FI-A2F9 
       96.69        59.01         9.34        28.93        30.67        59.28 
TCGA-FI-A3PV TCGA-FI-A3PX TCGA-H5-A2HR TCGA-JU-AAVI TCGA-K6-A3WQ TCGA-KP-A3W0 
       41.56        78.38         1.28         7.76        14.04        13.28 
TCGA-KP-A3W1 TCGA-KP-A3W3 TCGA-KP-A3W4 TCGA-PG-A5BC TCGA-PG-A7D5 TCGA-PG-A914 
        9.47        26.10        18.21        23.24        38.70        22.59 
TCGA-PG-A915 TCGA-QS-A8F1 
        8.19         4.44 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.43     0.39     0.30 
subtype1 subtype2 subtype3 subtype4 
  225.50   185.79   136.60   149.56 
subtype1 subtype2 subtype3 subtype4 
  24.920   36.100   29.330   25.115 
[1] "0.0 - 225.5 (24.9)" "0.4 - 185.8 (36.1)" "0.4 - 136.6 (29.3)"
[4] "0.3 - 149.6 (25.1)"
D10V2, continuous
D10V3, binary
          cls
clus         0   1
  subtype1 103  99
  subtype2  38  20
  subtype3  84  54
  subtype4  56  47
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  103   99
  subtype2   38   20
  subtype3   84   54
  subtype4   56   47
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO       103       38       84       56
  YES       99       20       54       47
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                     188
  subtype2                                      58
  subtype3                                     140
  subtype4                                      18
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            10                                19
  subtype2                             0                                 0
  subtype3                             1                                 2
  subtype4                            11                                88
D10V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA      188       58      140       18
  MIXED SEROUS AND ENDOMETRIOID                 10        0        1       11
  SEROUS ENDOMETRIAL ADENOCARCINOMA             19        0        2       88
[1] 3 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1 149  10   6  13
  subtype2  39   3   1   4
  subtype3 102   3   2  11
  subtype4  78   6   7   9
D10V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  R0      149       39      102       78
  R1       10        3        3        6
  R2        6        1        2        7
  RX       13        4       11        9
[1] 4 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                2     8                        39
  subtype2                                1     3                        10
  subtype3                                0     6                        23
  subtype4                                1     3                        35
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         4   146
  subtype2                                         2    40
  subtype3                                         2   110
  subtype4                                         1    70
D10V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE                 2        1        0        1
  ASIAN                                            8        3        6        3
  BLACK OR AFRICAN AMERICAN                       39       10       23       35
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        4        2        2        1
  WHITE                                          146       40      110       70
[1] 5 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V7, binary
          cls
clus         0   1
  subtype1   7 149
  subtype2   1  38
  subtype3   3 103
  subtype4   4  84
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7  149
  subtype2    1   38
  subtype3    3  103
  subtype4    4   84
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            7        1        3        4
  NOT HISPANIC OR LATINO      149       38      103       84
[1] 2 4
[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 = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2        0   1
  subtype1 136  32
  subtype2  77  18
  subtype3 123  11
subtype1 subtype2 subtype3 
     168       95      134 
subtype1 subtype2 subtype3 
      32       18       11 
$subtype1
TCGA-2E-A9G8 TCGA-4E-A92E TCGA-5B-A90C TCGA-A5-A0G1 TCGA-A5-A0GB TCGA-A5-A1OF 
       41.06         0.43        39.52       106.88        32.78        31.99 
TCGA-A5-A1OG TCGA-A5-A2K2 TCGA-A5-A2K3 TCGA-A5-A2K4 TCGA-A5-A2K5 TCGA-A5-A2K7 
       31.99       118.19        66.15        28.64        24.72        34.95 
TCGA-A5-A3LP TCGA-A5-A7WJ TCGA-A5-A7WK TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A2QM 
       14.96        11.21        18.41        20.25        14.43        29.39 
TCGA-AJ-A2QO TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3BG TCGA-AJ-A3BK TCGA-AJ-A3EK 
       34.36        34.16         1.12        18.08        33.90        14.66 
TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NC TCGA-AJ-A3NE TCGA-AJ-A3NH TCGA-AJ-A3OL 
       22.26        20.81        36.99        20.65        10.19        14.76 
TCGA-AJ-A3TW TCGA-AJ-A5DW TCGA-AJ-A8CV TCGA-AJ-A8CW TCGA-AP-A0LF TCGA-AP-A1E4 
       16.87        12.82        35.11         0.13        93.99        16.24 
TCGA-AP-A3K1 TCGA-AW-A1PO TCGA-AX-A064 TCGA-AX-A1CI TCGA-AX-A2H2 TCGA-AX-A2H4 
       21.90         0.56        34.98        72.56         4.77        30.12 
TCGA-AX-A2H5 TCGA-AX-A2H7 TCGA-AX-A2H8 TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HD 
       71.24        40.80        61.18        81.37        34.32        46.49 
TCGA-AX-A2HF TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A3FS TCGA-AX-A3FT TCGA-AX-A3FW 
       19.36        26.33        17.75         0.03         0.20         0.56 
TCGA-AX-A3FZ TCGA-AX-A3G1 TCGA-AX-A3G3 TCGA-AX-A3G6 TCGA-AX-A3G8 TCGA-AX-A3G9 
        0.07        20.52         1.38         0.26         0.99        18.35 
TCGA-AX-A3GI TCGA-B5-A0JR TCGA-B5-A0K8 TCGA-B5-A11H TCGA-B5-A11J TCGA-B5-A1MR 
        0.39        56.91        27.85        88.34        54.44       225.50 
TCGA-B5-A1MS TCGA-B5-A1MW TCGA-B5-A3FA TCGA-B5-A3FB TCGA-B5-A3FC TCGA-B5-A3FD 
      102.31        14.70        96.30        78.81        62.14        33.11 
TCGA-B5-A3FH TCGA-B5-A3S1 TCGA-B5-A5OD TCGA-B5-A5OE TCGA-BG-A0YV TCGA-BG-A221 
       27.65        29.65        34.13        34.95        12.56         1.81 
TCGA-BG-A2AD TCGA-BG-A2AE TCGA-BG-A2L7 TCGA-BG-A3EW TCGA-BG-A3PP TCGA-BK-A0CC 
       20.02        23.70        20.12        11.31        22.39        10.22 
TCGA-BK-A13B TCGA-BK-A4ZD TCGA-BK-A6W3 TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A167 
       31.76        16.64        10.03        39.48        29.88        15.72 
TCGA-D1-A16I TCGA-D1-A16S TCGA-D1-A16Y TCGA-D1-A1NU TCGA-D1-A2G0 TCGA-D1-A3DA 
       11.51        18.67        17.49        13.22        48.79        15.88 
TCGA-D1-A3DG TCGA-D1-A3DH TCGA-DF-A2KR TCGA-DF-A2KV TCGA-DF-A2KY TCGA-DI-A1NN 
        4.27        18.84        71.61        89.33        10.92        35.38 
TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QY TCGA-E6-A1LZ TCGA-E6-A8L9 TCGA-EO-A1Y5 
        9.37        12.39       110.10        79.10        33.30        10.75 
TCGA-EO-A1Y8 TCGA-EO-A22S TCGA-EO-A22U TCGA-EO-A2CH TCGA-EO-A3AU TCGA-EO-A3AV 
       37.71        61.55        46.26        19.40        50.73        35.15 
TCGA-EO-A3AY TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EO-A3KX TCGA-EY-A1G7 
       38.07        26.96        22.26        16.34        38.47         6.21 
TCGA-EY-A1G8 TCGA-EY-A1GC TCGA-EY-A1GJ TCGA-EY-A1GO TCGA-EY-A1GR TCGA-EY-A1GS 
       14.99        54.15        23.90        19.27        17.62        22.03 
TCGA-EY-A1GV TCGA-EY-A212 TCGA-EY-A2OM TCGA-EY-A2ON TCGA-EY-A2OO TCGA-EY-A2OP 
       15.81        10.19        22.82        20.05        45.76        31.04 
TCGA-EY-A3L3 TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A547 TCGA-EY-A54A TCGA-EY-A5W2 
       27.35        32.52        11.38        17.92        14.70        16.96 
TCGA-EY-A72D TCGA-FI-A2CX TCGA-FI-A2CY TCGA-FI-A2D0 TCGA-FI-A2D2 TCGA-FI-A2D4 
        5.88        66.77        68.38        33.63        39.95         7.99 
TCGA-FI-A2D5 TCGA-FI-A2D6 TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY 
       13.84         8.65        96.69        59.01         9.34        28.93 
TCGA-FI-A3PV TCGA-FI-A3PX TCGA-H5-A2HR TCGA-JU-AAVI TCGA-K6-A3WQ TCGA-KJ-A3U4 
       41.56        78.38         1.28         7.76        14.04         2.43 
TCGA-KP-A3VZ TCGA-KP-A3W0 TCGA-KP-A3W1 TCGA-KP-A3W3 TCGA-PG-A6IB TCGA-PG-A914 
       23.74        13.28         9.47        26.10        21.30        22.59 
TCGA-PG-A915 TCGA-PG-A917 TCGA-QF-A5YS TCGA-SJ-A6ZI TCGA-SL-A6J9 TCGA-SL-A6JA 
        8.19         6.97        22.65        20.75         0.07         0.23 

$subtype2
TCGA-5S-A9Q8 TCGA-A5-A0GG TCGA-A5-A0GN TCGA-A5-A0GR TCGA-A5-A1OH TCGA-A5-A1OK 
       10.29       123.68        60.53        36.82        36.33        30.15 
TCGA-A5-A3LO TCGA-A5-AB3J TCGA-AJ-A23O TCGA-AJ-A2QK TCGA-AJ-A2QN TCGA-AJ-A3EJ 
       25.51        16.83        10.26         0.39        35.15         1.64 
TCGA-AJ-A3EL TCGA-AJ-A3NF TCGA-AJ-A3NG TCGA-AJ-A3OJ TCGA-AJ-A3OK TCGA-AJ-A3QS 
       22.49        21.21        15.62        15.35        15.95        16.87 
TCGA-AJ-A6NU TCGA-AJ-A8CT TCGA-AP-A059 TCGA-AP-A05O TCGA-AP-A0LM TCGA-AP-A1DQ 
       20.78         2.70        48.03        12.62        27.12        46.78 
TCGA-AP-A1E0 TCGA-AP-A1E3 TCGA-AX-A06H TCGA-AX-A0IZ TCGA-AX-A1C8 TCGA-AX-A1CC 
       60.23        27.85        27.39        43.82        13.55        12.43 
TCGA-AX-A1CN TCGA-AX-A2HJ TCGA-AX-A2HK TCGA-AX-A2IN TCGA-AX-A2IO TCGA-AX-A3G4 
       25.12        30.74         2.96        31.13        64.93         0.30 
TCGA-AX-A3GB TCGA-B5-A11L TCGA-B5-A11O TCGA-B5-A11U TCGA-B5-A1MU TCGA-B5-A1MY 
       14.47        73.64        40.50        16.73        50.89        11.87 
TCGA-B5-A1N2 TCGA-B5-A5OC TCGA-BG-A0MA TCGA-BG-A18A TCGA-BK-A26L TCGA-BK-A6W4 
       12.79        41.06        10.72        14.01        24.13         9.86 
TCGA-BS-A0V7 TCGA-BS-A0V8 TCGA-BS-A0VI TCGA-D1-A0ZQ TCGA-D1-A0ZS TCGA-D1-A168 
       63.58        83.64        86.99         8.55         4.87        36.10 
TCGA-D1-A17C TCGA-D1-A1NW TCGA-D1-A1NY TCGA-D1-A1O8 TCGA-D1-A2G6 TCGA-D1-A2G7 
        0.99         0.72        16.87         3.95         8.48        58.95 
TCGA-D1-A3JP TCGA-D1-A3JQ TCGA-DF-A2KZ TCGA-DF-A2L0 TCGA-DI-A0WH TCGA-DI-A1BU 
       16.93        17.29        27.16        25.91        16.31        39.29 
TCGA-DI-A1C3 TCGA-DI-A2QU TCGA-E6-A2P8 TCGA-EO-A22R TCGA-EO-A22T TCGA-EO-A22X 
       24.30        31.10         2.37        61.74        66.90        57.60 
TCGA-EO-A22Y TCGA-EO-A2CG TCGA-EO-A3AS TCGA-EO-A3AZ TCGA-EO-A3B0 TCGA-EO-A3L0 
       51.52        51.42        34.39        27.16        17.88        51.09 
TCGA-EY-A1GD TCGA-EY-A1GM TCGA-EY-A1GP TCGA-EY-A1GQ TCGA-EY-A1GT TCGA-EY-A210 
       53.88        32.71        18.84        17.88        16.11        12.59 
TCGA-EY-A2OQ TCGA-FI-A2F8 TCGA-FI-A2F9 TCGA-KP-A3W4 TCGA-PG-A5BC TCGA-PG-A7D5 
       29.10        30.67        59.28        18.21        23.24        38.70 
TCGA-QF-A5YT TCGA-QS-A5YR TCGA-QS-A744 TCGA-QS-A8F1 TCGA-SJ-A6ZJ 
       39.95        23.64        14.83         4.44        18.28 

$subtype3
TCGA-A5-A0GQ TCGA-A5-A1OJ TCGA-AJ-A2QL TCGA-AJ-A3BI TCGA-AJ-A3I9 TCGA-AJ-A5DV 
       73.87        33.07        19.79        18.90        17.06        22.32 
TCGA-AP-A0LS TCGA-AP-A1DH TCGA-AP-A1DK TCGA-AP-A1DM TCGA-AP-A1DO TCGA-AP-A1DP 
       95.47        71.67        90.97        55.89        31.30        35.54 
TCGA-AP-A1DR TCGA-AP-A1DV TCGA-AP-A1E1 TCGA-AP-A5FX TCGA-AX-A06L TCGA-AX-A1C4 
       49.15         6.71        45.86        36.13        60.66        13.28 
TCGA-AX-A1C5 TCGA-AX-A1C9 TCGA-AX-A1CA TCGA-AX-A1CE TCGA-AX-A1CF TCGA-AX-A1CJ 
       19.20        15.25        20.28        20.05        76.83        73.41 
TCGA-AX-A1CK TCGA-AX-A1CP TCGA-AX-A1CR TCGA-AX-A3FX TCGA-B5-A0JT TCGA-B5-A0JU 
       67.50        36.39        11.08        43.82        55.30        59.24 
TCGA-B5-A0JX TCGA-B5-A0KB TCGA-B5-A11G TCGA-B5-A11M TCGA-B5-A11N TCGA-B5-A11P 
       58.75        27.09       113.36        44.78        61.68        52.04 
TCGA-B5-A11Q TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11W TCGA-B5-A11Z TCGA-B5-A121 
       32.09        77.23        73.28        19.50        17.36        16.57 
TCGA-B5-A1MV TCGA-B5-A1MX TCGA-B5-A1MZ TCGA-B5-A3F9 TCGA-BG-A0MH TCGA-BG-A0MK 
       51.45        48.43        15.29       136.60        63.45        43.30 
TCGA-BG-A0VV TCGA-BG-A0VW TCGA-BG-A0VX TCGA-BG-A186 TCGA-BG-A187 TCGA-BG-A18B 
       26.66        16.34        34.29        13.78        14.73        15.45 
TCGA-BG-A18C TCGA-BG-A222 TCGA-BK-A0CA TCGA-BK-A139 TCGA-BK-A13C TCGA-BK-A56F 
       15.45         9.57        34.98        10.16        24.99        13.18 
TCGA-BS-A0T9 TCGA-BS-A0UA TCGA-BS-A0V4 TCGA-BS-A0V6 TCGA-D1-A0ZN TCGA-D1-A0ZO 
       46.95        88.34        59.51        89.59        16.83        19.79 
TCGA-D1-A102 TCGA-D1-A15W TCGA-D1-A160 TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A163 
        4.44        30.08         3.68        29.33        37.64        32.58 
TCGA-D1-A165 TCGA-D1-A169 TCGA-D1-A16B TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F 
        0.66        37.32        36.36        37.51        36.79         2.63 
TCGA-D1-A16G TCGA-D1-A16J TCGA-D1-A16N TCGA-D1-A16O TCGA-D1-A16Q TCGA-D1-A16R 
       27.42        29.92        31.07        33.63        10.65         0.69 
TCGA-D1-A16V TCGA-D1-A16X TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A176 TCGA-D1-A177 
        3.95         3.65        19.53         6.64        30.15        18.02 
TCGA-D1-A179 TCGA-D1-A17A TCGA-D1-A17B TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17H 
       14.73         1.58         7.00        30.44         1.28        28.01 
TCGA-D1-A17K TCGA-D1-A17L TCGA-D1-A17M TCGA-D1-A17N TCGA-D1-A17Q TCGA-D1-A17R 
       28.08        26.37        10.22         1.51         1.78        11.15 
TCGA-D1-A17S TCGA-D1-A17T TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NX TCGA-D1-A1NZ 
       24.30         2.33        22.92         1.41        18.25        18.02 
TCGA-D1-A1O0 TCGA-D1-A1O5 TCGA-D1-A1O7 TCGA-D1-A2G5 TCGA-DI-A1BY TCGA-E6-A1LX 
        2.07        15.06         1.05        47.84        36.62        23.38 
TCGA-E6-A1M0 TCGA-E6-A2P9 TCGA-EC-A1NJ TCGA-EC-A1QX TCGA-EC-A24G TCGA-EO-A1Y7 
       58.95        45.57        16.04         7.36        16.80        49.15 
TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GH TCGA-EY-A1GI TCGA-EY-A1GK TCGA-EY-A1GL 
       24.36        27.16        23.34        23.34        22.78        33.34 
TCGA-EY-A1GU TCGA-EY-A1GW TCGA-EY-A1H0 TCGA-EY-A214 TCGA-EY-A215 TCGA-FI-A2F4 
       12.43        11.08        19.33        14.40        18.87        73.32 
TCGA-PG-A916 TCGA-QS-A5YQ 
       17.16        24.95 

subtype1 subtype2 subtype3 
    0.03     0.30     0.66 
subtype1 subtype2 subtype3 
  225.50   123.68   136.60 
subtype1 subtype2 subtype3 
  22.145   24.130   24.655 
[1] "0.0 - 225.5 (22.1)" "0.3 - 123.7 (24.1)" "0.7 - 136.6 (24.7)"
D11V2, continuous
D11V3, binary
          cls
clus        0  1
  subtype1 75 72
  subtype2 44 44
  subtype3 77 54
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   75   72
  subtype2   44   44
  subtype3   77   54
     clus
vv    subtype1 subtype2 subtype3
  NO        75       44       77
  YES       72       44       54
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      93
  subtype2                                      65
  subtype3                                     126
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             9                                68
  subtype2                             8                                22
  subtype3                             3                                 5
D11V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       93       65      126
  MIXED SEROUS AND ENDOMETRIOID                  9        8        3
  SEROUS ENDOMETRIAL ADENOCARCINOMA             68       22        5
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1 106   7   8  12
  subtype2  72   4   1   7
  subtype3  89   6   4  12
D11V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0      106       72       89
  R1        7        4        6
  R2        8        1        4
  RX       12        7       12
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     1                        48
  subtype2                                1     4                        25
  subtype3                                0     2                        20
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         0   102
  subtype2                                         4    55
  subtype3                                         1   109
D11V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        1        0
  ASIAN                                            1        4        2
  BLACK OR AFRICAN AMERICAN                       48       25       20
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        0        4        1
  WHITE                                          102       55      109
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V7, binary
          cls
clus         0   1
  subtype1   8 118
  subtype2   1  66
  subtype3   2 101
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8  118
  subtype2    1   66
  subtype3    2  101
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            8        1        2
  NOT HISPANIC OR LATINO      118       66      101
[1] 2 3
[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 = MIRSEQ_MATURE_CHIERARCHICAL
D12V1, survival
          sevent
clus2        0   1
  subtype1 116  25
  subtype2 106  11
  subtype3 114  25
subtype1 subtype2 subtype3 
     141      117      139 
subtype1 subtype2 subtype3 
      25       11       25 
$subtype1
TCGA-2E-A9G8 TCGA-5B-A90C TCGA-A5-A0G1 TCGA-A5-A1OF TCGA-A5-A1OG TCGA-A5-A2K2 
       41.06        39.52       106.88        31.99        31.99       118.19 
TCGA-A5-A2K3 TCGA-A5-A2K4 TCGA-A5-A2K5 TCGA-A5-A3LP TCGA-A5-A7WJ TCGA-A5-A7WK 
       66.15        28.64        24.72        14.96        11.21        18.41 
TCGA-AJ-A23M TCGA-AJ-A2QM TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3BG TCGA-AJ-A3EJ 
       20.25        29.39        34.16         1.12        18.08         1.64 
TCGA-AJ-A3NH TCGA-AJ-A3OL TCGA-AJ-A3TW TCGA-AJ-A8CW TCGA-AP-A059 TCGA-AP-A0LF 
       10.19        14.76        16.87         0.13        48.03        93.99 
TCGA-AP-A0LS TCGA-AP-A1DO TCGA-AP-A1DV TCGA-AP-A1E1 TCGA-AP-A3K1 TCGA-AW-A1PO 
       95.47        31.30         6.71        45.86        21.90         0.56 
TCGA-AX-A1C5 TCGA-AX-A1CA TCGA-AX-A1CE TCGA-AX-A1CF TCGA-AX-A1CK TCGA-AX-A1CR 
       19.20        20.28        20.05        76.83        67.50        11.08 
TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HD TCGA-AX-A2HG 
        4.77        30.12        71.24        61.18        46.49        26.33 
TCGA-AX-A2HH TCGA-AX-A3FT TCGA-AX-A3G3 TCGA-AX-A3G6 TCGA-AX-A3G8 TCGA-AX-A3GI 
       17.75         0.20         1.38         0.26         0.99         0.39 
TCGA-B5-A0JU TCGA-B5-A0K8 TCGA-B5-A11G TCGA-B5-A11H TCGA-B5-A11P TCGA-B5-A11Q 
       59.24        27.85       113.36        88.34        52.04        32.09 
TCGA-B5-A1MR TCGA-B5-A1MS TCGA-B5-A1MW TCGA-B5-A3FA TCGA-B5-A3S1 TCGA-B5-A5OD 
      225.50       102.31        14.70        96.30        29.65        34.13 
TCGA-B5-A5OE TCGA-BG-A0YV TCGA-BG-A18C TCGA-BG-A221 TCGA-BG-A222 TCGA-BG-A2AE 
       34.95        12.56        15.45         1.81         9.57        23.70 
TCGA-BG-A2L7 TCGA-BG-A3EW TCGA-BK-A139 TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A160 
       20.12        11.31        10.16        39.48        29.88         3.68 
TCGA-D1-A167 TCGA-D1-A16I TCGA-D1-A16N TCGA-D1-A16S TCGA-D1-A16V TCGA-D1-A16Y 
       15.72        11.51        31.07        18.67         3.95        17.49 
TCGA-D1-A176 TCGA-D1-A179 TCGA-D1-A17K TCGA-D1-A17L TCGA-D1-A1NU TCGA-D1-A1NW 
       30.15        14.73        28.08        26.37        13.22         0.72 
TCGA-D1-A2G0 TCGA-D1-A3DA TCGA-D1-A3DH TCGA-DF-A2KR TCGA-DI-A1NN TCGA-DI-A1NO 
       48.79        15.88        18.84        71.61        35.38         9.37 
TCGA-DI-A2QT TCGA-E6-A1LZ TCGA-E6-A8L9 TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A22U 
       12.39        79.10        33.30        10.75        37.71        46.26 
TCGA-EO-A2CH TCGA-EO-A3AV TCGA-EO-A3B1 TCGA-EO-A3KW TCGA-EO-A3KX TCGA-EY-A1G7 
       19.40        35.15        26.96        16.34        38.47         6.21 
TCGA-EY-A1G8 TCGA-EY-A1GC TCGA-EY-A1GJ TCGA-EY-A1GR TCGA-EY-A1GS TCGA-EY-A1GU 
       14.99        54.15        23.90        17.62        22.03        12.43 
TCGA-EY-A1GV TCGA-EY-A212 TCGA-EY-A214 TCGA-EY-A215 TCGA-EY-A2OM TCGA-EY-A2ON 
       15.81        10.19        14.40        18.87        22.82        20.05 
TCGA-EY-A2OO TCGA-EY-A2OP TCGA-EY-A3L3 TCGA-EY-A4KR TCGA-EY-A547 TCGA-FI-A2CX 
       45.76        31.04        27.35        11.38        17.92        66.77 
TCGA-FI-A2CY TCGA-FI-A2D2 TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY 
       68.38        39.95        96.69        59.01         9.34        28.93 
TCGA-FI-A2F4 TCGA-FI-A3PX TCGA-H5-A2HR TCGA-JU-AAVI TCGA-K6-A3WQ TCGA-KJ-A3U4 
       73.32        78.38         1.28         7.76        14.04         2.43 
TCGA-KP-A3VZ TCGA-KP-A3W1 TCGA-KP-A3W3 TCGA-PG-A914 TCGA-PG-A915 TCGA-PG-A917 
       23.74         9.47        26.10        22.59         8.19         6.97 
TCGA-QF-A5YS TCGA-SL-A6J9 TCGA-SL-A6JA 
       22.65         0.07         0.23 

$subtype2
TCGA-4E-A92E TCGA-5S-A9Q8 TCGA-A5-A0GG TCGA-A5-A0GQ TCGA-A5-A1OJ TCGA-A5-A1OK 
        0.43        10.29       123.68        73.87        33.07        30.15 
TCGA-AJ-A2QK TCGA-AJ-A2QL TCGA-AJ-A2QO TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3I9 
        0.39        19.79        34.36        18.90        33.90        17.06 
TCGA-AJ-A3NC TCGA-AJ-A3OK TCGA-AJ-A5DV TCGA-AJ-A8CT TCGA-AJ-A8CV TCGA-AP-A05O 
       36.99        15.95        22.32         2.70        35.11        12.62 
TCGA-AP-A1DP TCGA-AP-A5FX TCGA-AX-A06H TCGA-AX-A06L TCGA-AX-A1C4 TCGA-AX-A1C9 
       35.54        36.13        27.39        60.66        13.28        15.25 
TCGA-AX-A1CJ TCGA-AX-A2H7 TCGA-AX-A2HJ TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3G1 
       73.41        40.80        30.74         0.56        43.82        20.52 
TCGA-AX-A3GB TCGA-B5-A0JT TCGA-B5-A0JX TCGA-B5-A0KB TCGA-B5-A11J TCGA-B5-A11M 
       14.47        55.30        58.75        27.09        54.44        44.78 
TCGA-B5-A11O TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11W TCGA-B5-A11Z TCGA-B5-A121 
       40.50        77.23        73.28        19.50        17.36        16.57 
TCGA-B5-A1MV TCGA-B5-A1MZ TCGA-B5-A3F9 TCGA-B5-A3FB TCGA-B5-A3FD TCGA-B5-A3FH 
       51.45        15.29       136.60        78.81        33.11        27.65 
TCGA-BG-A0MA TCGA-BG-A0MH TCGA-BG-A0MK TCGA-BG-A0VV TCGA-BG-A0VW TCGA-BG-A0VX 
       10.72        63.45        43.30        26.66        16.34        34.29 
TCGA-BG-A186 TCGA-BG-A187 TCGA-BG-A18A TCGA-BG-A18B TCGA-BK-A0CA TCGA-BK-A13B 
       13.78        14.73        14.01        15.45        34.98        31.76 
TCGA-BK-A13C TCGA-BK-A56F TCGA-BS-A0UA TCGA-BS-A0V6 TCGA-BS-A0V7 TCGA-D1-A0ZO 
       24.99        13.18        88.34        89.59        63.58        19.79 
TCGA-D1-A0ZQ TCGA-D1-A102 TCGA-D1-A15W TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A165 
        8.55         4.44        30.08        29.33        37.64         0.66 
TCGA-D1-A169 TCGA-D1-A16B TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F TCGA-D1-A16O 
       37.32        36.36        37.51        36.79         2.63        33.63 
TCGA-D1-A16Q TCGA-D1-A16R TCGA-D1-A16X TCGA-D1-A175 TCGA-D1-A17A TCGA-D1-A17B 
       10.65         0.69         3.65         6.64         1.58         7.00 
TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17N TCGA-D1-A17S TCGA-D1-A17T TCGA-D1-A17U 
       30.44         1.28         1.51        24.30         2.33        22.92 
TCGA-D1-A1NS TCGA-D1-A1NX TCGA-D1-A1NZ TCGA-D1-A1O0 TCGA-D1-A1O5 TCGA-D1-A1O7 
        1.41        18.25        18.02         2.07        15.06         1.05 
TCGA-D1-A2G5 TCGA-DF-A2KV TCGA-DF-A2L0 TCGA-DI-A1BY TCGA-DI-A1C3 TCGA-E6-A2P9 
       47.84        89.33        25.91        36.62        24.30        45.57 
TCGA-EC-A1NJ TCGA-EC-A24G TCGA-EO-A1Y7 TCGA-EO-A22Y TCGA-EO-A3L0 TCGA-EY-A1GE 
       16.04        16.80        49.15        51.52        51.09        24.36 
TCGA-EY-A1GF TCGA-EY-A1GH TCGA-EY-A1GK TCGA-EY-A1GW TCGA-EY-A1H0 TCGA-PG-A916 
       27.16        23.34        22.78        11.08        19.33        17.16 
TCGA-QS-A5YQ TCGA-QS-A5YR TCGA-SJ-A6ZJ 
       24.95        23.64        18.28 

$subtype3
TCGA-A5-A0GB TCGA-A5-A0GN TCGA-A5-A0GR TCGA-A5-A1OH TCGA-A5-A2K7 TCGA-A5-A3LO 
       32.78        60.53        36.82        36.33        34.95        25.51 
TCGA-A5-AB3J TCGA-AJ-A23N TCGA-AJ-A23O TCGA-AJ-A2QN TCGA-AJ-A3EK TCGA-AJ-A3EL 
       16.83        14.43        10.26        35.15        14.66        22.49 
TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NE TCGA-AJ-A3NF TCGA-AJ-A3NG TCGA-AJ-A3OJ 
       22.26        20.81        20.65        21.21        15.62        15.35 
TCGA-AJ-A3QS TCGA-AJ-A5DW TCGA-AJ-A6NU TCGA-AP-A0LM TCGA-AP-A1DH TCGA-AP-A1DK 
       16.87        12.82        20.78        27.12        71.67        90.97 
TCGA-AP-A1DM TCGA-AP-A1DQ TCGA-AP-A1DR TCGA-AP-A1E0 TCGA-AP-A1E3 TCGA-AP-A1E4 
       55.89        46.78        49.15        60.23        27.85        16.24 
TCGA-AX-A064 TCGA-AX-A0IZ TCGA-AX-A1C8 TCGA-AX-A1CC TCGA-AX-A1CI TCGA-AX-A1CN 
       34.98        43.82        13.55        12.43        72.56        25.12 
TCGA-AX-A1CP TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HF TCGA-AX-A2HK TCGA-AX-A2IN 
       36.39        81.37        34.32        19.36         2.96        31.13 
TCGA-AX-A2IO TCGA-AX-A3FS TCGA-AX-A3FZ TCGA-AX-A3G4 TCGA-AX-A3G9 TCGA-B5-A0JR 
       64.93         0.03         0.07         0.30        18.35        56.91 
TCGA-B5-A11L TCGA-B5-A11N TCGA-B5-A11U TCGA-B5-A1MU TCGA-B5-A1MX TCGA-B5-A1MY 
       73.64        61.68        16.73        50.89        48.43        11.87 
TCGA-B5-A1N2 TCGA-B5-A3FC TCGA-B5-A5OC TCGA-BG-A2AD TCGA-BG-A3PP TCGA-BK-A0CC 
       12.79        62.14        41.06        20.02        22.39        10.22 
TCGA-BK-A26L TCGA-BK-A4ZD TCGA-BK-A6W3 TCGA-BK-A6W4 TCGA-BS-A0T9 TCGA-BS-A0V4 
       24.13        16.64        10.03         9.86        46.95        59.51 
TCGA-BS-A0V8 TCGA-BS-A0VI TCGA-D1-A0ZN TCGA-D1-A0ZS TCGA-D1-A163 TCGA-D1-A168 
       83.64        86.99        16.83         4.87        32.58        36.10 
TCGA-D1-A16G TCGA-D1-A16J TCGA-D1-A174 TCGA-D1-A177 TCGA-D1-A17C TCGA-D1-A17H 
       27.42        29.92        19.53        18.02         0.99        28.01 
TCGA-D1-A17M TCGA-D1-A17Q TCGA-D1-A17R TCGA-D1-A1NY TCGA-D1-A1O8 TCGA-D1-A2G6 
       10.22         1.78        11.15        16.87         3.95         8.48 
TCGA-D1-A2G7 TCGA-D1-A3DG TCGA-D1-A3JP TCGA-D1-A3JQ TCGA-DF-A2KY TCGA-DF-A2KZ 
       58.95         4.27        16.93        17.29        10.92        27.16 
TCGA-DI-A0WH TCGA-DI-A1BU TCGA-DI-A2QU TCGA-DI-A2QY TCGA-E6-A1LX TCGA-E6-A1M0 
       16.31        39.29        31.10       110.10        23.38        58.95 
TCGA-E6-A2P8 TCGA-EC-A1QX TCGA-EO-A22R TCGA-EO-A22S TCGA-EO-A22T TCGA-EO-A22X 
        2.37         7.36        61.74        61.55        66.90        57.60 
TCGA-EO-A2CG TCGA-EO-A3AS TCGA-EO-A3AU TCGA-EO-A3AY TCGA-EO-A3AZ TCGA-EO-A3B0 
       51.42        34.39        50.73        38.07        27.16        17.88 
TCGA-EO-A3KU TCGA-EY-A1GD TCGA-EY-A1GI TCGA-EY-A1GL TCGA-EY-A1GM TCGA-EY-A1GO 
       22.26        53.88        23.34        33.34        32.71        19.27 
TCGA-EY-A1GP TCGA-EY-A1GQ TCGA-EY-A1GT TCGA-EY-A210 TCGA-EY-A2OQ TCGA-EY-A3QX 
       18.84        17.88        16.11        12.59        29.10        32.52 
TCGA-EY-A54A TCGA-EY-A5W2 TCGA-EY-A72D TCGA-FI-A2D0 TCGA-FI-A2D4 TCGA-FI-A2D5 
       14.70        16.96         5.88        33.63         7.99        13.84 
TCGA-FI-A2D6 TCGA-FI-A2F8 TCGA-FI-A2F9 TCGA-FI-A3PV TCGA-KP-A3W0 TCGA-KP-A3W4 
        8.65        30.67        59.28        41.56        13.28        18.21 
TCGA-PG-A5BC TCGA-PG-A6IB TCGA-PG-A7D5 TCGA-QF-A5YT TCGA-QS-A744 TCGA-QS-A8F1 
       23.24        21.30        38.70        39.95        14.83         4.44 
TCGA-SJ-A6ZI 
       20.75 

subtype1 subtype2 subtype3 
    0.07     0.39     0.03 
subtype1 subtype2 subtype3 
   225.5    136.6    110.1 
subtype1 subtype2 subtype3 
   22.03    24.36    23.24 
[1] "0.1 - 225.5 (22.0)" "0.4 - 136.6 (24.4)" "0.0 - 110.1 (23.2)"
D12V2, continuous
D12V3, binary
          cls
clus        0  1
  subtype1 63 61
  subtype2 67 46
  subtype3 66 63
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   63   61
  subtype2   67   46
  subtype3   66   63
     clus
vv    subtype1 subtype2 subtype3
  NO        63       67       66
  YES       61       46       63
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      72
  subtype2                                     113
  subtype3                                      99
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            12                                59
  subtype2                             2                                 2
  subtype3                             6                                34
D12V4, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       72      113       99
  MIXED SEROUS AND ENDOMETRIOID                 12        2        6
  SEROUS ENDOMETRIAL ADENOCARCINOMA             59        2       34
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1  92   7   8  10
  subtype2  74   4   1  14
  subtype3 101   6   4   7
D12V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0       92       74      101
  R1        7        4        6
  R2        8        1        4
  RX       10       14        7
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     1                        35
  subtype2                                1     3                        25
  subtype3                                0     3                        33
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         0    96
  subtype2                                         1    83
  subtype3                                         4    87
D12V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        1        0
  ASIAN                                            1        3        3
  BLACK OR AFRICAN AMERICAN                       35       25       33
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        0        1        4
  WHITE                                           96       83       87
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V7, binary
          cls
clus         0   1
  subtype1   6 108
  subtype2   2  85
  subtype3   3  92
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  108
  subtype2    2   85
  subtype3    3   92
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            6        2        3
  NOT HISPANIC OR LATINO      108       85       92
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
