[1] "ofn"       "-oTLGG-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/LGG-TP/19775312/LGG-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LGG-TP/20146758/LGG-TP.mergedcluster.txt"

nPatients in clinical file=515, in cluster file=516, common to both=515
[1]  12 515
[1] "MRNA_CNMF"
[1] 3
 1  2  3 
 9 10  8 
 1  2  3 
 9 10  8 
[1] "MRNA_CHIERARCHICAL"
[1] 3
1 2 3 4 
7 7 7 6 
1 2 3 4 
7 7 7 6 
[1] "CN_CNMF"
[1] 3
  1   2   3 
171 120 221 
  1   2   3 
171 120 221 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3   4 
224  81 168  42 
  1   2   3   4 
224  81 168  42 
[1] "RPPA_CNMF"
[1] 3
  1   2   3   4 
 90  95 126 117 
  1   2   3   4 
 90  95 126 117 
[1] "RPPA_CHIERARCHICAL"
[1] 3
  1   2   3 
 83 160 185 
  1   2   3 
 83 160 185 
[1] "MRNASEQ_CNMF"
[1] 3
  1   2   3   4   5 
133 109 109 134  30 
  1   2   3   4   5 
133 109 109 134  30 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3   4   5   6   7 
134  71  36  68  91  41  74 
  1   2   3   4   5   6   7 
134  71  36  68  91  41  74 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3   4 
137 106 185  83 
  1   2   3   4 
137 106 185  83 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
222 186 103 
  1   2   3 
222 186 103 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
  1   2   3 
185 161 161 
  1   2   3 
185 161 161 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2   3   4 
 90 138 190  89 
  1   2   3   4 
 90 138 190  89 
[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] "GENDER"                              
 [7] "DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS"
 [8] "DAYS_TO_LAST_KNOWN_ALIVE"            
 [9] "RADIATION_THERAPY"                   
[10] "KARNOFSKY_PERFORMANCE_SCORE"         
[11] "HISTOLOGICAL_TYPE"                   
[12] "RACE"                                
[13] "ETHNICITY"                           

Input Data has 13 rows and 515 columns.

[1] "Last Follow UP"
Variable 1:'YEARS_TO_BIRTH':	nDistinctValues=60,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITAL_STATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYS_TO_DEATH':	nDistinctValues=117,	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=367,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('FOLLOWUP', vnms) to deal with survival parameters seperately"
Variable 5:'TUMOR_TISSUE_SITE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "TUMOR_TISSUE_SITE is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 6:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS':	nDistinctValues=22,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DATE', vnms) to deal with survival parameters seperately"
Variable 8:'DAYS_TO_LAST_KNOWN_ALIVE':	nDistinctValues=3,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DAYS_?TO', vnms) to deal with survival parameters seperately"
Variable 9:'RADIATION_THERAPY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'KARNOFSKY_PERFORMANCE_SCORE':	nDistinctValues=7,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 11:'HISTOLOGICAL_TYPE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'RACE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'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 515 columns, 1 survival variables, and 7 non-survival variables.
[1] "* survival variables: "
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "* non-survival variables: "
[1] "YEARS_TO_BIRTH"              "GENDER"                     
[3] "RADIATION_THERAPY"           "KARNOFSKY_PERFORMANCE_SCORE"
[5] "HISTOLOGICAL_TYPE"           "RACE"                       
[7] "ETHNICITY"                  
YEARS_TO_BIRTH, nv=60, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
RADIATION_THERAPY, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY_PERFORMANCE_SCORE, nv=7, binary=FALSE, numeric=TRUE
HISTOLOGICAL_TYPE, nv=3, binary=FALSE, numeric=FALSE
RACE, nv=4, binary=FALSE, numeric=FALSE
ETHNICITY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = MRNA_CNMF
D1V1, survival
          sevent
clus2      0 1
  subtype1 5 4
  subtype2 7 3
  subtype3 5 3
subtype1 subtype2 subtype3 
       9       10        8 
subtype1 subtype2 subtype3 
       4        3        3 
$subtype1
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-DB-5273 TCGA-DB-5280 TCGA-DH-5142 
       43.89        18.15        10.62        81.96        36.56        63.88 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5322 
       50.14        67.46       130.78 

$subtype2
TCGA-CS-5390 TCGA-CS-5394 TCGA-CS-5396 TCGA-DB-5274 TCGA-DB-5275 TCGA-DH-5140 
       64.64         0.10         9.96        75.25        47.93        19.96 
TCGA-DH-5141 TCGA-DH-5144 TCGA-E1-5304 TCGA-E1-5318 
       31.82         8.02        41.13        78.21 

$subtype3
TCGA-CS-5395 TCGA-DB-5270 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5281 
       21.01       122.73        72.92        50.86        91.13        78.28 
TCGA-DH-5143 TCGA-E1-5311 
       46.06       134.27 

subtype1 subtype2 subtype3 
   10.62     0.10    21.01 
subtype1 subtype2 subtype3 
  130.78    78.21   134.27 
subtype1 subtype2 subtype3 
  50.140   36.475   75.600 
[1] "10.6 - 130.8 (50.1)" "0.1 - 78.2 (36.5)"   "21.0 - 134.3 (75.6)"
D1V2, continuous
D1V3, binary
          cls
clus       0 1
  subtype1 2 7
  subtype2 6 4
  subtype3 1 7
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2    7
  subtype2    6    4
  subtype3    1    7
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        2        6        1
  MALE          7        4        7
[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"
D1V4, binary
          cls
clus       0 1
  subtype1 2 6
  subtype2 1 8
  subtype3 2 5
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2    6
  subtype2    1    8
  subtype3    2    5
     clus
vv    subtype1 subtype2 subtype3
  NO         2        1        2
  YES        6        8        5
[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"
D1V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1           7                2                 0
  subtype2           2                3                 5
  subtype3           1                4                 3
D1V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3
  ASTROCYTOMA              7        2        1
  OLIGOASTROCYTOMA         2        3        4
  OLIGODENDROGLIOMA        0        5        3
[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       BLACK OR AFRICAN AMERICAN WHITE
  subtype1                         1     8
  subtype2                         0    10
  subtype3                         1     7
D1V7, multiclass
                           clus
vv                          subtype1 subtype2 subtype3
  BLACK OR AFRICAN AMERICAN        1        0        1
  WHITE                            8       10        7
[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"
D1V8, binary
          cls
clus       0 1
  subtype1 0 6
  subtype2 1 7
  subtype3 0 7
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0    6
  subtype2    1    7
  subtype3    0    7
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            0        1        0
  NOT HISPANIC OR LATINO        6        7        7
[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(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2      0 1
  subtype1 3 4
  subtype2 3 4
  subtype3 6 1
  subtype4 5 1
subtype1 subtype2 subtype3 subtype4 
       7        7        7        6 
subtype1 subtype2 subtype3 subtype4 
       4        4        1        1 
$subtype1
TCGA-CS-4942 TCGA-CS-4944 TCGA-CS-5395 TCGA-DB-5273 TCGA-DB-5280 TCGA-E1-5302 
       43.89        10.62        21.01        81.96        36.56        50.14 
TCGA-E1-5303 
       67.46 

$subtype2
TCGA-CS-4943 TCGA-DB-5275 TCGA-DB-5277 TCGA-DH-5140 TCGA-DH-5142 TCGA-E1-5304 
       18.15        47.93        50.86        19.96        63.88        41.13 
TCGA-E1-5322 
      130.78 

$subtype3
TCGA-CS-5390 TCGA-CS-5394 TCGA-CS-5396 TCGA-DB-5274 TCGA-DH-5141 TCGA-DH-5144 
       64.64         0.10         9.96        75.25        31.82         8.02 
TCGA-E1-5318 
       78.21 

$subtype4
TCGA-DB-5270 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5281 TCGA-DH-5143 TCGA-E1-5311 
      122.73        72.92        91.13        78.28        46.06       134.27 

subtype1 subtype2 subtype3 subtype4 
   10.62    18.15     0.10    46.06 
subtype1 subtype2 subtype3 subtype4 
   81.96   130.78    78.21   134.27 
subtype1 subtype2 subtype3 subtype4 
  43.890   47.930   31.820   84.705 
[1] "10.6 - 82.0 (43.9)"  "18.1 - 130.8 (47.9)" "0.1 - 78.2 (31.8)"  
[4] "46.1 - 134.3 (84.7)"
D2V2, continuous
D2V3, binary
          cls
clus       0 1
  subtype1 1 6
  subtype2 2 5
  subtype3 5 2
  subtype4 1 5
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1    6
  subtype2    2    5
  subtype3    5    2
  subtype4    1    5
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        1        2        5        1
  MALE          6        5        2        5
[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"
D2V4, binary
          cls
clus       0 1
  subtype1 1 5
  subtype2 1 6
  subtype3 1 5
  subtype4 2 3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1    5
  subtype2    1    6
  subtype3    1    5
  subtype4    2    3
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        1        1        2
  YES        5        6        5        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"
D2V5, continuous
[1] "Remove cluster labels:" "subtype4"              
clus
subtype1 subtype2 subtype3 subtype4 
       5        5        5        2 
 [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [7] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[13] "subtype2" "subtype3" "subtype2"
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1           5                1                 1
  subtype2           4                3                 0
  subtype3           1                1                 5
  subtype4           0                4                 2
D2V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3 subtype4
  ASTROCYTOMA              5        4        1        0
  OLIGOASTROCYTOMA         1        3        1        4
  OLIGODENDROGLIOMA        1        0        5        2
[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       BLACK OR AFRICAN AMERICAN WHITE
  subtype1                         2     5
  subtype2                         0     7
  subtype3                         0     7
  subtype4                         0     6
D2V7, multiclass
                           clus
vv                          subtype1 subtype2 subtype3 subtype4
  BLACK OR AFRICAN AMERICAN        2        0        0        0
  WHITE                            5        7        7        6
[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"
D2V8, binary
          cls
clus       0 1
  subtype1 0 4
  subtype2 0 6
  subtype3 1 4
  subtype4 0 6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0    4
  subtype2    0    6
  subtype3    1    4
  subtype4    0    6
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            0        0        1        0
  NOT HISPANIC OR LATINO        4        6        4        6
[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(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2        0   1
  subtype1 131  40
  subtype2  65  54
  subtype3 192  27
subtype1 subtype2 subtype3 
     171      119      219 
subtype1 subtype2 subtype3 
      40       54       27 
$subtype1
TCGA-CS-4938 TCGA-CS-4943 TCGA-CS-5393 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 
        4.70        18.15        40.18        17.95        12.43        46.95 
TCGA-CS-6667 TCGA-DB-5275 TCGA-DB-5277 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4XC 
        7.56        47.93        50.86        36.56        78.28        46.72 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A64X TCGA-DB-A75O TCGA-DB-A75P 
       39.78        37.45        33.57        18.51        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5143 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66G TCGA-DH-A7UT 
       19.96        46.06        42.05        27.81        17.19        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5853 TCGA-DU-5871 TCGA-DU-6399 TCGA-DU-6401 
       13.71        18.61        13.38        18.94        65.75        87.45 
TCGA-DU-6408 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7014 
      114.08        62.96       156.23        14.99       105.21       117.40 
TCGA-DU-7019 TCGA-DU-7299 TCGA-DU-7304 TCGA-DU-8167 TCGA-DU-A5TS TCGA-DU-A5TU 
       26.30        44.02        23.31        15.48        31.69        26.17 
TCGA-DU-A6S7 TCGA-DU-A76O TCGA-DU-A7T8 TCGA-DU-A7TI TCGA-E1-5302 TCGA-E1-5303 
       20.98        17.16       139.04        38.89        50.14        67.46 
TCGA-E1-5307 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YV 
       57.93        29.13        93.21         3.65        12.43        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-FG-5963 
       36.82       146.14        73.48       145.05        32.35        25.48 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8188 
       14.93        42.54        41.33        13.68        14.24        14.96 
TCGA-FG-8191 TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A70Y TCGA-FN-7833 
       32.61        23.70        14.76        21.53        28.54        27.52 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7474 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       11.54        40.11         3.75         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7482 TCGA-HT-7485 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7611 
       40.34       106.95         4.01        23.18       122.47        57.60 
TCGA-HT-7676 TCGA-HT-7686 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7693 
        0.16        42.74        31.69        14.96         0.10        17.52 
TCGA-HT-7855 TCGA-HT-7857 TCGA-HT-7873 TCGA-HT-7879 TCGA-HT-7884 TCGA-HT-7902 
       19.23         0.23        23.61         3.68        11.28        31.43 
TCGA-HT-8013 TCGA-HT-8018 TCGA-HT-8106 TCGA-HT-8111 TCGA-HT-8114 TCGA-HT-8563 
       63.55        37.87         0.10         0.23        34.19        28.27 
TCGA-HT-A5R7 TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A616 TCGA-HT-A618 TCGA-HT-A61B 
       20.22         0.10         2.70         1.81        16.83        17.52 
TCGA-HT-A74O TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7493 TCGA-HW-8319 TCGA-HW-8321 
        0.10        41.49        45.60        69.27        39.75        42.54 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-P5-A5EW TCGA-P5-A5EZ TCGA-P5-A5F1 
       20.81        20.71        19.00         6.71         2.30         5.88 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A733 TCGA-P5-A736 
        0.76         1.28        10.42        13.25        13.61         7.56 
TCGA-P5-A780 TCGA-QH-A65S TCGA-QH-A6CW TCGA-QH-A6X3 TCGA-QH-A6XA TCGA-S9-A6TS 
        2.37         2.53        13.61        10.29        16.50        62.17 
TCGA-S9-A6TU TCGA-S9-A6U1 TCGA-S9-A6U6 TCGA-S9-A6UA TCGA-S9-A6WG TCGA-S9-A6WO 
       87.12        25.81        35.15         5.85        85.55        18.61 
TCGA-S9-A6WQ TCGA-S9-A7IS TCGA-S9-A7J0 TCGA-S9-A7QX TCGA-S9-A7R3 TCGA-S9-A7R4 
       14.07         7.92        20.02        18.54        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF 
       98.63        18.71        20.48        48.33        34.78        65.39 
TCGA-TM-A84F TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TQ-A7RJ 
       59.05        30.44        28.08        24.16        40.83        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RR TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-VM-A8C8 TCGA-VM-A8CF 
       44.09        25.87        61.41        26.99        43.04        20.02 
TCGA-VM-A8CH TCGA-VV-A86M TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
       23.47        16.01        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       45.80        46.88        37.71 

$subtype2
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        7.69        43.89        21.01         6.38        17.69        23.84 
TCGA-DB-5270 TCGA-DB-A4X9 TCGA-DB-A64O TCGA-DH-A669 TCGA-DU-5847 TCGA-DU-5852 
      122.73        46.42        25.48        30.21        18.02         6.74 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5872 TCGA-DU-6392 TCGA-DU-6395 TCGA-DU-6402 
        8.45         6.81        17.49       211.17        49.02         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6410 
       11.64       133.74        19.89        16.83        94.52         7.96 
TCGA-DU-7006 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7290 TCGA-DU-7292 
       11.47         6.54         8.84        90.77        10.36         7.96 
TCGA-DU-7298 TCGA-DU-7301 TCGA-DU-7306 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       18.94        25.91        41.98         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TW 
       20.68        19.13        16.96        29.85        24.43        24.99 
TCGA-DU-A5TY TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A7TA TCGA-DU-A7TD TCGA-DU-A7TJ 
       33.96        11.41        26.76        84.33         7.50         0.56 
TCGA-E1-5304 TCGA-E1-A7YD TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
       41.13        14.30        19.46        16.18        21.30        23.90 
TCGA-E1-A7YQ TCGA-E1-A7Z2 TCGA-F6-A8O4 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6692 
       51.88        13.08         0.20        36.82        18.77        18.44 
TCGA-FG-7643 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A6J3 TCGA-FG-A70Z TCGA-FG-A711 
       20.09        10.72        18.38        22.26        10.78        48.69 
TCGA-FG-A87Q TCGA-HT-7473 TCGA-HT-7475 TCGA-HT-7606 TCGA-HT-7860 TCGA-HT-7882 
        5.72        16.54        17.42        17.29         0.49         3.72 
TCGA-HT-8011 TCGA-HT-8104 TCGA-HT-8108 TCGA-HT-8110 TCGA-HT-8564 TCGA-HT-A4DS 
       16.24        12.23         2.50        13.78        15.72         0.23 
TCGA-HT-A5R5 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A617 TCGA-HT-A619 
        0.13         0.07        27.35         5.33        16.14        21.40 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HW-8322 TCGA-HW-A5KK TCGA-KT-A7W1 
       17.65         2.43        10.52         6.18        12.76        14.40 
TCGA-P5-A5EV TCGA-P5-A5F0 TCGA-P5-A72U TCGA-QH-A6CS TCGA-QH-A6CV TCGA-QH-A6CX 
        0.23         4.11         0.23        19.33        14.53        12.23 
TCGA-QH-A6X9 TCGA-QH-A6XC TCGA-QH-A870 TCGA-RY-A83Z TCGA-RY-A845 TCGA-S9-A6TY 
        1.91         5.03        12.99         9.90        19.59        35.38 
TCGA-S9-A6U0 TCGA-S9-A6WM TCGA-S9-A7IQ TCGA-S9-A7IX TCGA-S9-A7IZ TCGA-S9-A7QW 
       24.39        19.86        36.13        26.93        19.99        15.06 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-TM-A7C3 TCGA-TM-A84B TCGA-TQ-A7RH TCGA-TQ-A7RI 
      169.84        10.39        54.77        24.92        15.98         2.04 
TCGA-TQ-A7RM TCGA-TQ-A7RP TCGA-VM-A8CD TCGA-VW-A8FI TCGA-WY-A85E 
       36.69        30.05         7.89         8.05        20.81 

$subtype3
TCGA-CS-4944 TCGA-CS-5390 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-6668 TCGA-CS-6669 
       10.62        64.64         0.10         9.96        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 
        6.61        81.96        75.25        72.92        91.13        44.52 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64P 
       18.84        30.21        72.95        31.63        24.20        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5144 
       12.10        11.24        17.88        31.82        63.88         8.02 
TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5870 
       17.19        54.25        23.21        14.56        17.46       182.33 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6400 
       15.16        52.11        22.42        75.16        46.06         1.22 
TCGA-DU-6542 TCGA-DU-7009 TCGA-DU-7018 TCGA-DU-7294 TCGA-DU-7300 TCGA-DU-7302 
        2.40       154.36        30.67        94.32        62.01        60.30 
TCGA-DU-7309 TCGA-DU-8164 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A6S2 TCGA-DU-A6S3 
        2.76        21.40        14.17        33.27        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7TB TCGA-DU-A7TC 
       95.11        22.29        21.30        17.98        51.52        37.38 
TCGA-DU-A7TG TCGA-E1-5305 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       44.42        79.99       134.27        78.21        95.57       130.78 
TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-FG-5962 
       75.02        15.32         0.76        39.48         0.23        47.77 
TCGA-FG-5964 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8181 
       52.21        15.35        17.88        22.55        20.61        28.34 
TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8189 TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A60K 
       16.01        20.09        22.52        38.27        18.71        17.82 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A710 TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-7467 
       15.02        16.44        36.66        20.45        18.64         0.10 
TCGA-HT-7468 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7483 
        6.67         0.13         0.03        75.19        95.93       172.77 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
        5.03        29.85         4.57         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
       56.09         0.23        14.27        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7687 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7694 TCGA-HT-7695 
        6.05         0.10         0.10         2.96         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       39.48        39.09        50.63        37.15         0.33         0.13 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8019 
        5.33        35.47         1.64         9.40         0.10        33.01 
TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8109 TCGA-HT-8113 TCGA-HT-A4DV TCGA-HT-A615 
        6.25         0.46         5.56        29.59        26.04        16.93 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7491 TCGA-HW-7495 
       15.35        11.05        56.58        13.45        68.32        35.44 
TCGA-HW-8320 TCGA-HW-A5KJ TCGA-IK-8125 TCGA-KT-A74X TCGA-P5-A5EX TCGA-P5-A5EY 
       40.01        10.55        42.77        14.40         7.99         2.37 
TCGA-P5-A5F2 TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A735 TCGA-P5-A737 
        7.63        11.64        10.95         9.01         9.60        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X 
       19.20         3.45         4.41        15.16        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X4 TCGA-QH-A6X5 
       14.04        14.83         2.20         9.17        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A86X TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       16.73        11.08        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A847 TCGA-S9-A6TV 
       30.87         5.46        28.08         2.07        30.67        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TZ TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U8 
       41.10        28.14        36.82        29.85        32.61        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WH TCGA-S9-A6WI 
       95.93       123.65        75.25       135.22        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WP TCGA-S9-A7IY TCGA-S9-A7J1 TCGA-S9-A7J2 
       31.10        26.47        18.64        23.51         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R8 TCGA-TM-A7C5 TCGA-TM-A84C 
       20.68        28.37        27.16        31.59        49.32        16.18 
TCGA-TM-A84G TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.64        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ 
       23.80        21.37        19.69        33.73        31.20        26.14 
TCGA-TQ-A7RU TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CE 
       33.93        31.36        43.20        13.51         0.10        39.16 
TCGA-VV-A829 TCGA-VW-A7QS TCGA-W9-A837 
       37.05        23.21        51.06 

subtype1 subtype2 subtype3 
    0.10     0.07     0.03 
subtype1 subtype2 subtype3 
  156.23   211.17   182.33 
subtype1 subtype2 subtype3 
   25.87    16.96    22.55 
[1] "0.1 - 156.2 (25.9)" "0.1 - 211.2 (17.0)" "0.0 - 182.3 (22.6)"
D3V2, continuous
D3V3, binary
          cls
clus         0   1
  subtype1  71 100
  subtype2  61  59
  subtype3  96 125
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   71  100
  subtype2   61   59
  subtype3   96  125
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       71       61       96
  MALE        100       59      125
[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"
D3V4, binary
          cls
clus         0   1
  subtype1  45 116
  subtype2  30  79
  subtype3 109  98
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   45  116
  subtype2   30   79
  subtype3  109   98
     clus
vv    subtype1 subtype2 subtype3
  NO        45       30      109
  YES      116       79       98
[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"
D3V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1         101               44                26
  subtype2          57               33                30
  subtype3          36               52               133
D3V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3
  ASTROCYTOMA            101       57       36
  OLIGOASTROCYTOMA        44       33       52
  OLIGODENDROGLIOMA       26       30      133
[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       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     0                         3
  subtype2                                1     3                        12
  subtype3                                0     5                         6
          vv
clus       WHITE
  subtype1   165
  subtype2   104
  subtype3   203
D3V7, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE        0        1        0
  ASIAN                                   0        3        5
  BLACK OR AFRICAN AMERICAN               3       12        6
  WHITE                                 165      104      203
[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"
D3V8, binary
          cls
clus         0   1
  subtype1  10 146
  subtype2   8 106
  subtype3  14 194
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   10  146
  subtype2    8  106
  subtype3   14  194
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO           10        8       14
  NOT HISPANIC OR LATINO      146      106      194
[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(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2        0   1
  subtype1 179  44
  subtype2  32  49
  subtype3 147  19
  subtype4  33   9
subtype1 subtype2 subtype3 subtype4 
     223       81      166       42 
subtype1 subtype2 subtype3 subtype4 
      44       49       19        9 
$subtype1
TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-5393 TCGA-CS-6290 TCGA-CS-6665 
        4.70        43.89        18.15        40.18        17.95        12.43 
TCGA-CS-6666 TCGA-CS-6667 TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5277 TCGA-DB-5280 
       46.95         7.56        81.96        47.93        50.86        36.56 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       78.28        46.42        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A64S TCGA-DB-A64X TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       33.57        27.45        18.51        11.24        17.88        30.74 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66G TCGA-DH-A7UT 
       63.88        46.06        42.05        27.81        17.19        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5851 TCGA-DU-5853 TCGA-DU-5855 TCGA-DU-5871 
       13.71        18.61        17.46        13.38         6.81        18.94 
TCGA-DU-5872 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6407 
       17.49        49.02        75.16        65.75        87.45        94.52 
TCGA-DU-6408 TCGA-DU-6542 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7011 
      114.08         2.40        62.96       156.23        14.99       105.21 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7019 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7304 
      117.40        90.77        26.30        44.02        25.91        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8163 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-A5TP 
       41.98         2.76        20.68        16.96        15.48        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S7 TCGA-DU-A76O 
       29.85        31.69        26.17        24.99        20.98        17.16 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TC TCGA-DU-A7TI TCGA-E1-5302 TCGA-E1-5303 
      139.04        84.33        37.38        38.89        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5322 TCGA-E1-A7YH TCGA-E1-A7YK 
       41.13        79.99        57.93       130.78        93.21        12.43 
TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-F6-A8O4 TCGA-FG-5965 
        0.76        36.82       145.05        32.35         0.20        36.82 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-7636 TCGA-FG-8185 TCGA-FG-8188 TCGA-FG-8191 
       14.93        42.54        17.88        14.24        14.96        32.61 
TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6J3 
       38.27        18.71        23.70        14.76        21.53        22.26 
TCGA-FG-A70Y TCGA-FG-A711 TCGA-FN-7833 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 
       28.54        48.69        27.52        40.11         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7482 
        3.75        17.42         6.54        24.26         6.38       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7606 
      172.77         4.01         5.03        23.18       122.47        17.29 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7676 TCGA-HT-7684 TCGA-HT-7686 
       45.99        56.09        57.60         0.16         6.05        42.74 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7693 TCGA-HT-7855 TCGA-HT-7858 
       31.69        14.96         0.10        17.52        19.23        50.63 
TCGA-HT-7873 TCGA-HT-7879 TCGA-HT-7884 TCGA-HT-8013 TCGA-HT-8108 TCGA-HT-8111 
       23.61         3.68        11.28        63.55         2.50         0.23 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A5R7 TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A616 
       34.19        28.27        20.22         0.10         2.70         1.81 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A74J TCGA-HT-A74O TCGA-HW-7489 TCGA-HW-7490 
       16.83        17.52        10.52         0.10        41.49        45.60 
TCGA-HW-7493 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-A5KL TCGA-HW-A5KM 
       69.27        39.75        40.01        42.54        20.81        20.71 
TCGA-IK-7675 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EZ TCGA-P5-A5F1 TCGA-P5-A5F2 
       19.00         0.23         6.71         2.30         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
        0.76        10.42        13.25         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A780 TCGA-QH-A65S TCGA-QH-A6CW TCGA-QH-A6X3 TCGA-QH-A6X9 
        7.56         2.37         2.53        13.61        10.29         1.91 
TCGA-QH-A6XA TCGA-QH-A870 TCGA-RY-A83Z TCGA-RY-A843 TCGA-RY-A845 TCGA-S9-A6TS 
       16.50        12.99         9.90         2.07        19.59        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TZ TCGA-S9-A6U1 TCGA-S9-A6U6 TCGA-S9-A6U8 
       87.12        18.77        36.82        25.81        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IS TCGA-S9-A7IZ TCGA-S9-A7J0 
       95.93        18.61        14.07         7.92        19.99        20.02 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
       15.06        18.54        99.06        30.05        98.63        31.59 
TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84F TCGA-TM-A84H 
       20.48        48.33        34.78        65.39        59.05        30.44 
TCGA-TM-A84I TCGA-TM-A84L TCGA-TM-A84Q TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RH 
       28.08        40.83        25.38        23.80        21.37        15.98 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RR TCGA-TQ-A7RV TCGA-TQ-A7RW 
       40.41        44.09        36.69        25.87        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A86M TCGA-WH-A86K 
       31.36        43.04        20.02        23.47        16.01        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E 
       20.81 

$subtype2
TCGA-CS-4941 TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-DH-5140 
        7.69        21.01         6.38        17.69        23.84        19.96 
TCGA-DU-5847 TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-6392 TCGA-DU-6402 TCGA-DU-6403 
       18.02         6.74         8.45       211.17         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-7006 TCGA-DU-7012 TCGA-DU-7013 
      133.74        19.89        16.83        11.47         6.54         8.84 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8165 TCGA-DU-A5TT 
       10.36         7.96         5.10        23.74        19.13        24.43 
TCGA-DU-A5TY TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A7TB TCGA-DU-A7TD TCGA-DU-A7TJ 
       33.96        11.41        26.76        51.52         7.50         0.56 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM 
       14.30        29.13         3.65        19.46        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YQ TCGA-E1-A7YV TCGA-E1-A7Z2 TCGA-FG-6688 TCGA-FG-6692 
       23.90        51.88        32.45        13.08        18.77        18.44 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A70Z TCGA-FG-A87N TCGA-FG-A87Q TCGA-HT-7469 
       10.72        18.38        10.78        18.64         5.72        11.54 
TCGA-HT-7857 TCGA-HT-7860 TCGA-HT-7882 TCGA-HT-8011 TCGA-HT-8104 TCGA-HT-8106 
        0.23         0.49         3.72        16.24        12.23         0.10 
TCGA-HT-8110 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A617 
       13.78        15.72         0.23        27.35         5.33        16.14 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HW-A5KK TCGA-KT-A7W1 TCGA-P5-A72U TCGA-QH-A6CV 
       17.65         2.43        12.76        14.40         0.23        14.53 
TCGA-QH-A6CX TCGA-QH-A6XC TCGA-S9-A6U0 TCGA-S9-A6UA TCGA-S9-A6WM TCGA-S9-A6WN 
       12.23         5.03        24.39         5.85        19.86        26.47 
TCGA-S9-A7IX TCGA-S9-A7R2 TCGA-S9-A89V TCGA-TM-A7C3 TCGA-TM-A84B TCGA-TM-A84C 
       26.93        10.39        18.71        54.77        24.92        16.18 
TCGA-TM-A84J TCGA-VM-A8CD TCGA-VW-A8FI 
       24.16         7.89         8.05 

$subtype3
TCGA-CS-4944 TCGA-CS-5390 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-6668 TCGA-CS-6670 
       10.62        64.64         0.10         9.96        49.94         6.61 
TCGA-DB-5274 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-A4XA TCGA-DB-A4XG TCGA-DB-A4XH 
       75.25        91.13        44.52        18.84        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64U TCGA-DB-A64V 
       24.20        30.12         5.98        31.40        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A75K TCGA-DH-5141 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66F 
       14.40        12.10        31.82         8.02        30.21        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DU-5849 TCGA-DU-5870 TCGA-DU-5874 TCGA-DU-6393 
       54.25        23.21        14.56       182.33        15.16        52.11 
TCGA-DU-6394 TCGA-DU-6397 TCGA-DU-6400 TCGA-DU-6410 TCGA-DU-7009 TCGA-DU-7018 
       22.42        46.06         1.22         7.96       154.36        30.67 
TCGA-DU-7294 TCGA-DU-7300 TCGA-DU-7302 TCGA-DU-8164 TCGA-DU-8168 TCGA-DU-A6S2 
       94.32        62.01        60.30        21.40        14.17        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76R TCGA-DU-A7T6 TCGA-E1-5311 
       21.57        95.11        22.29        21.30        17.98       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-A7YO TCGA-E1-A7YS TCGA-EZ-7264 TCGA-F6-A8O3 
       78.21        95.57        75.02        15.32        39.48         0.23 
TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-7634 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       47.77        52.21        15.35        40.08        22.55        20.61 
TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A710 
       16.01        20.09        17.82        15.02        16.44        36.66 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7471 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7605 
        0.10         6.67         0.13        75.19        95.93         4.57 
TCGA-HT-7608 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7677 TCGA-HT-7681 TCGA-HT-7687 
       22.06         0.23        14.27        16.24        44.68         0.10 
TCGA-HT-7692 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
        2.96         6.90        14.53        37.15         0.33         0.13 
TCGA-HT-7881 TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8105 TCGA-HT-8109 TCGA-HT-A4DV 
       35.47         1.64         9.40         6.25         5.56        26.04 
TCGA-HT-A5R9 TCGA-HT-A615 TCGA-HT-A619 TCGA-HT-A74K TCGA-HT-A74L TCGA-HW-7486 
        0.07        16.93        21.40        15.35        11.05        56.58 
TCGA-HW-7487 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-IK-8125 
       13.45        68.32        35.44         6.18        10.55        42.77 
TCGA-KT-A74X TCGA-P5-A5EX TCGA-P5-A5F0 TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A737 
       14.40         7.99         4.11        11.64        10.95        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X 
       19.20         3.45         4.41        15.16        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X4 TCGA-QH-A6X5 
       14.04        14.83         2.20         9.17        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A86X TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       16.73        11.08        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 TCGA-RY-A847 TCGA-S9-A6TW TCGA-S9-A6TX 
       30.87         5.46        28.08        30.67        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       35.38        29.85        32.61       123.65        75.25       135.22 
TCGA-S9-A6WH TCGA-S9-A6WL TCGA-S9-A6WP TCGA-S9-A7IQ TCGA-S9-A7IY TCGA-S9-A7J1 
       38.56        31.10        18.64        36.13        23.51         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-TM-A7C5 
        2.04        20.68        28.37        27.16       169.84        49.32 
TCGA-TM-A84G TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84S TCGA-TQ-A7RG TCGA-TQ-A7RI 
       40.64        24.79        33.24        14.93        19.69         2.04 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-VM-A8CA TCGA-VM-A8CB 
       33.73        31.20        26.14        33.93        13.51         0.10 
TCGA-VM-A8CE TCGA-VV-A829 TCGA-VW-A7QS TCGA-W9-A837 
       39.16        37.05        23.21        51.06 

$subtype4
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5276 TCGA-DB-A64O TCGA-DB-A75P TCGA-DU-7298 
       49.12       122.73        72.92        25.48        16.18        18.94 
TCGA-DU-8162 TCGA-DU-A7TG TCGA-E1-A7YY TCGA-E1-A7Z3 TCGA-FG-5963 TCGA-FG-6691 
       14.60        44.42       146.14        73.48        25.48        41.33 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8189 TCGA-FG-A713 TCGA-HT-7479 
       20.09        28.34        13.68        22.52        20.45        40.34 
TCGA-HT-7602 TCGA-HT-7607 TCGA-HT-7680 TCGA-HT-7691 TCGA-HT-7854 TCGA-HT-7856 
       29.85         3.16         0.76         0.10        39.48        39.09 
TCGA-HT-7880 TCGA-HT-7902 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8107 
        5.33        31.43         0.10        37.87        33.01         0.46 
TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-A5R5 TCGA-HT-A61A TCGA-P5-A5EY TCGA-P5-A5F6 
       29.59        13.74         0.13         6.38         2.37         1.28 
TCGA-QH-A6CS TCGA-S9-A6WG TCGA-S9-A6WI TCGA-TM-A84R TCGA-TQ-A7RP TCGA-VM-A8C9 
       19.33        85.55        84.99        18.61        30.05        43.20 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.10     0.07     0.10 
subtype1 subtype2 subtype3 subtype4 
  172.77   211.17   182.33   146.14 
subtype1 subtype2 subtype3 subtype4 
  25.380   14.530   21.815   25.480 
[1] "0.0 - 172.8 (25.4)" "0.1 - 211.2 (14.5)" "0.1 - 182.3 (21.8)"
[4] "0.1 - 146.1 (25.5)"
D4V2, continuous
D4V3, binary
          cls
clus         0   1
  subtype1  96 128
  subtype2  38  43
  subtype3  73  95
  subtype4  23  19
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   96  128
  subtype2   38   43
  subtype3   73   95
  subtype4   23   19
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       96       38       73       23
  MALE        128       43       95       19
[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"
D4V4, binary
          cls
clus         0   1
  subtype1  64 149
  subtype2  14  60
  subtype3  91  64
  subtype4  17  21
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   64  149
  subtype2   14   60
  subtype3   91   64
  subtype4   17   21
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        64       14       91       17
  YES      149       60       64       21
[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"
D4V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1         121               70                33
  subtype2          53               12                16
  subtype3           5               36               127
  subtype4          15               12                15
D4V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3 subtype4
  ASTROCYTOMA            121       53        5       15
  OLIGOASTROCYTOMA        70       12       36       12
  OLIGODENDROGLIOMA       33       16      127       15
[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       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     1                         6
  subtype2                                1     3                         6
  subtype3                                0     4                         5
  subtype4                                0     0                         4
          vv
clus       WHITE
  subtype1   215
  subtype2    71
  subtype3   153
  subtype4    36
D4V7, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE        0        1        0        0
  ASIAN                                   1        3        4        0
  BLACK OR AFRICAN AMERICAN               6        6        5        4
  WHITE                                 215       71      153       36
[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"
D4V8, binary
          cls
clus         0   1
  subtype1  14 194
  subtype2   2  75
  subtype3  13 144
  subtype4   3  36
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   14  194
  subtype2    2   75
  subtype3   13  144
  subtype4    3   36
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO           14        2       13        3
  NOT HISPANIC OR LATINO      194       75      144       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(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2        0   1
  subtype1  72  16
  subtype2  58  36
  subtype3 105  21
  subtype4  95  22
subtype1 subtype2 subtype3 subtype4 
      88       94      126      117 
subtype1 subtype2 subtype3 subtype4 
      16       36       21       22 
$subtype1
TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6665 TCGA-DB-5273 
        4.70        43.89        17.69        23.84        12.43        81.96 
TCGA-DB-5276 TCGA-DB-A4XF TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A75M TCGA-DB-A75O 
       72.92        33.57        27.81        29.23        17.88        30.74 
TCGA-DH-5143 TCGA-DH-A66D TCGA-DU-5854 TCGA-DU-5874 TCGA-DU-6395 TCGA-DU-7012 
       46.06        27.81         8.45        15.16        49.02         6.54 
TCGA-DU-7015 TCGA-DU-7301 TCGA-DU-7304 TCGA-DU-8161 TCGA-DU-8163 TCGA-DU-A5TR 
       90.77        25.91        23.31        23.74        20.68        29.85 
TCGA-DU-A5TS TCGA-E1-5302 TCGA-E1-5319 TCGA-E1-A7YN TCGA-E1-A7YW TCGA-E1-A7Z2 
       31.69        50.14        95.57        23.90        36.82        13.08 
TCGA-E1-A7Z3 TCGA-FG-6688 TCGA-FG-7634 TCGA-FG-8182 TCGA-FG-8186 TCGA-FG-8187 
       73.48        18.77        15.35        13.68        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8191 TCGA-FG-A4MW TCGA-FG-A60J TCGA-FG-A60L TCGA-HT-7468 
       14.96        32.61        18.38        14.76        21.53         6.67 
TCGA-HT-7472 TCGA-HT-7479 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7485 TCGA-HT-7602 
        0.03        40.34        95.93       106.95         4.01        29.85 
TCGA-HT-7611 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
       57.60        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7686 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7854 TCGA-HT-7873 TCGA-HT-7879 
       42.74         0.10         2.96        39.48        23.61         3.68 
TCGA-HT-8013 TCGA-HT-8111 TCGA-HT-8114 TCGA-HT-A5R5 TCGA-HT-A618 TCGA-HT-A74H 
       63.55         0.23        34.19         0.13        16.83         2.43 
TCGA-HT-A74J TCGA-HW-8319 TCGA-P5-A5EW TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F1 
       10.52        39.75         6.71         2.37         2.30         5.88 
TCGA-QH-A65S TCGA-QH-A65Z TCGA-QH-A6CU TCGA-S9-A6TX TCGA-S9-A6U5 TCGA-S9-A6WN 
        2.53        14.04        14.83        28.14        32.61        26.47 
TCGA-S9-A7IY TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RK TCGA-TQ-A7RV TCGA-VM-A8C9 
       23.51        19.69        15.98        44.09        61.41        43.20 
TCGA-VM-A8CA TCGA-VM-A8CE TCGA-VM-A8CH TCGA-WY-A85B 
       13.51        39.16        23.47        45.80 

$subtype2
TCGA-CS-4943 TCGA-CS-6666 TCGA-DB-5274 TCGA-DB-5277 TCGA-DB-A4XG TCGA-DB-A64Q 
       18.15        46.95        75.25        50.86        72.95         5.98 
TCGA-DB-A64R TCGA-DB-A64X TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-A66G TCGA-DU-5847 
       31.40        18.51        19.96        63.88        17.19        18.02 
TCGA-DU-5852 TCGA-DU-5855 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6396 TCGA-DU-6400 
        6.74         6.81        52.11        22.42        75.16         1.22 
TCGA-DU-6402 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6408 TCGA-DU-6410 
        7.04       133.74        19.89        16.83       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7013 
        2.40        11.47        62.96       156.23        14.99         8.84 
TCGA-DU-7290 TCGA-DU-8158 TCGA-DU-8165 TCGA-DU-8168 TCGA-DU-A5TT TCGA-DU-A5TU 
       10.36         5.10        19.13        14.17        24.43        26.17 
TCGA-DU-A5TY TCGA-DU-A6S8 TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A7T6 TCGA-DU-A7TA 
       33.96        22.29        26.76        17.16        17.98        84.33 
TCGA-DU-A7TD TCGA-DU-A7TJ TCGA-E1-5304 TCGA-E1-5318 TCGA-E1-5322 TCGA-E1-A7YI 
        7.50         0.56        41.13        78.21       130.78         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YS TCGA-EZ-7264 TCGA-FG-6691 TCGA-FG-7636 TCGA-FG-8185 
       19.46        15.32        39.48        41.33        17.88        14.24 
TCGA-FG-A4MT TCGA-FG-A6J3 TCGA-FG-A87N TCGA-HT-7469 TCGA-HT-7477 TCGA-HT-7604 
       38.27        22.26        18.64        11.54        24.26       122.47 
TCGA-HT-7606 TCGA-HT-7690 TCGA-HT-7857 TCGA-HT-7860 TCGA-HT-7882 TCGA-HT-8011 
       17.29         0.10         0.23         0.49         3.72        16.24 
TCGA-HT-8012 TCGA-HT-8104 TCGA-HT-A5R9 TCGA-HT-A615 TCGA-HT-A619 TCGA-HT-A61B 
        9.40        12.23         0.07        16.93        21.40        17.52 
TCGA-HW-7491 TCGA-HW-8322 TCGA-HW-A5KK TCGA-HW-A5KM TCGA-IK-7675 TCGA-P5-A735 
       68.32         6.18        12.76        20.71        19.00         9.60 
TCGA-QH-A6CV TCGA-RY-A83Z TCGA-RY-A845 TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U6 
       14.53         9.90        19.59        24.39        25.81        35.15 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A7IS TCGA-S9-A7J0 TCGA-TQ-A7RQ TCGA-TQ-A7RW 
       85.55        38.56         7.92        20.02        26.14        26.99 
TCGA-TQ-A8XE TCGA-VM-A8CB TCGA-VV-A829 TCGA-VW-A7QS 
       31.36         0.10        37.05        23.21 

$subtype3
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6668 
       10.62        40.18         0.10         9.96         6.38        49.94 
TCGA-CS-6670 TCGA-DB-5275 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4XA 
        6.61        47.93        44.52        36.56        78.28        18.84 
TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XH TCGA-DB-A64P TCGA-DB-A64S TCGA-DB-A75K 
       46.72        39.78        31.63        30.12        27.45        12.10 
TCGA-DB-A75L TCGA-DH-5141 TCGA-DH-5144 TCGA-DH-A66B TCGA-DH-A66F TCGA-DH-A7US 
       11.24        31.82         8.02        42.05        17.19        23.21 
TCGA-DU-5853 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6392 TCGA-DU-6397 
       13.38       182.33        18.94        17.49       211.17        46.06 
TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6403 TCGA-DU-6407 TCGA-DU-7011 TCGA-DU-7014 
       65.75        87.45        11.64        94.52       105.21       117.40 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7306 TCGA-DU-8167 TCGA-DU-A5TW TCGA-DU-A6S2 
       30.67        26.30        41.98        15.48        24.99        25.55 
TCGA-DU-A6S3 TCGA-DU-A76K TCGA-E1-5303 TCGA-E1-A7YL TCGA-E1-A7YQ TCGA-E1-A7YV 
       21.57        11.41        67.46        16.18        51.88        32.45 
TCGA-E1-A7Z6 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5964 TCGA-FG-7637 TCGA-FG-7638 
       32.35         0.23         0.20        52.21        40.08        22.55 
TCGA-FG-7641 TCGA-FG-A4MU TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A70Y TCGA-HT-7473 
       20.61        10.72        18.71        23.70        28.54        16.54 
TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7483 TCGA-HT-7601 TCGA-HT-7608 TCGA-HT-7609 
        6.54         6.38       172.77         5.03        22.06        45.99 
TCGA-HT-7616 TCGA-HT-7684 TCGA-HT-7689 TCGA-HT-7693 TCGA-HT-7855 TCGA-HT-7858 
        0.23         6.05        14.96        17.52        19.23        50.63 
TCGA-HT-7875 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8110 TCGA-HT-A74O TCGA-HW-7487 
        0.33         6.25         0.10        13.78         0.10        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-A5KJ TCGA-IK-8125 
       41.49        45.60        40.01        42.54        10.55        42.77 
TCGA-P5-A5EV TCGA-P5-A5F2 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        0.23         7.63         1.28         0.23        10.42        13.25 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A780 
       10.95         9.01         7.56        12.23        19.20         2.37 
TCGA-QH-A65X TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
       15.85        13.61        12.23        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-RY-A83X TCGA-RY-A83Y TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
       94.03        30.87         5.46        62.17        87.12        18.77 
TCGA-S9-A6U9 TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A7IZ TCGA-S9-A7J2 TCGA-S9-A7QX 
       95.93        75.25       135.22        19.99         2.04        18.54 
TCGA-S9-A7R1 TCGA-S9-A7R4 TCGA-S9-A7R8 TCGA-TM-A7C5 TCGA-TM-A84S TCGA-TQ-A7RF 
      169.84        30.05        31.59        49.32        14.93        21.37 
TCGA-TQ-A7RN TCGA-VM-A8C8 TCGA-VV-A86M TCGA-W9-A837 TCGA-WY-A85C TCGA-WY-A85D 
       33.73        43.04        16.01        51.06        46.88        37.71 

$subtype4
TCGA-CS-5390 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5278 TCGA-DB-A4X9 TCGA-DB-A4XB 
       64.64        49.12       122.73        91.13        46.42        30.21 
TCGA-DB-A4XE TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64W TCGA-DB-A75P TCGA-DU-5849 
       37.45        24.20        25.48        14.40        16.18        14.56 
TCGA-DU-5851 TCGA-DU-7009 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7300 
       17.46       154.36         7.96        94.32        18.94        62.01 
TCGA-DU-7302 TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-A5TP 
       60.30         2.76        14.60        21.40        16.96        33.27 
TCGA-DU-A76R TCGA-DU-A7TB TCGA-DU-A7TG TCGA-DU-A7TI TCGA-E1-5305 TCGA-E1-5307 
       21.30        51.52        44.42        38.89        79.99        57.93 
TCGA-E1-5311 TCGA-E1-A7YH TCGA-E1-A7YM TCGA-E1-A7YY TCGA-FG-5962 TCGA-FG-5963 
      134.27        93.21        21.30       146.14        47.77        25.48 
TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8189 
       36.82        14.93        42.54        20.09        28.34        22.52 
TCGA-FG-A6IZ TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A713 TCGA-FG-A87Q TCGA-HT-7467 
       15.02        10.78        36.66        20.45         5.72         0.10 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7480 TCGA-HT-7603 
       40.11         0.13         3.75        17.42        75.19        23.18 
TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7610 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7694 
        4.57         3.16        56.09         0.10        31.69         6.90 
TCGA-HT-7695 TCGA-HT-7856 TCGA-HT-7874 TCGA-HT-7877 TCGA-HT-7880 TCGA-HT-7881 
       14.53        39.09        37.15         0.13         5.33        35.47 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       11.28        31.43         1.64         0.10        37.87        33.01 
TCGA-HT-8107 TCGA-HT-8109 TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-8564 TCGA-HT-A4DV 
        0.46         5.56        29.59        13.74        15.72        26.04 
TCGA-HT-A5R7 TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A61A 
       20.22         0.10         2.70         1.81        16.14         6.38 
TCGA-HT-A74L TCGA-HW-7486 TCGA-HW-7493 TCGA-HW-7495 TCGA-KT-A74X TCGA-P5-A5EX 
       11.05        56.58        69.27        35.44        14.40         7.99 
TCGA-P5-A5F0 TCGA-P5-A5F4 TCGA-P5-A72Z TCGA-P5-A733 TCGA-P5-A77X TCGA-P5-A781 
        4.11         0.76        11.64        13.61         3.45         4.41 
TCGA-QH-A65V TCGA-QH-A6CS TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.62        19.33         2.20         9.17        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-R8-A6MO TCGA-RY-A843 
       16.73         1.91        16.50         5.03        32.65         2.07 
TCGA-S9-A6TY TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7J1 TCGA-S9-A7QZ 
       35.38        18.64        14.07        36.13         8.19        27.16 
TCGA-TM-A84R TCGA-TQ-A7RR TCGA-VM-A8CD 
       18.61        25.87         7.89 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.07     0.10     0.10 
subtype1 subtype2 subtype3 subtype4 
  106.95   156.23   211.17   154.36 
subtype1 subtype2 subtype3 subtype4 
  23.390   19.065   21.470   18.640 
[1] "0.0 - 107.0 (23.4)" "0.1 - 156.2 (19.1)" "0.1 - 211.2 (21.5)"
[4] "0.1 - 154.4 (18.6)"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 35 55
  subtype2 52 43
  subtype3 43 83
  subtype4 61 56
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   35   55
  subtype2   52   43
  subtype3   43   83
  subtype4   61   56
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       35       52       43       61
  MALE         55       43       83       56
[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"
D5V4, binary
          cls
clus        0  1
  subtype1 37 45
  subtype2 29 58
  subtype3 42 75
  subtype4 44 64
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   37   45
  subtype2   29   58
  subtype3   42   75
  subtype4   44   64
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        37       29       42       44
  YES       45       58       75       64
[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"
D5V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1          35               30                25
  subtype2          44               15                36
  subtype3          41               37                48
  subtype4          27               32                58
D5V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3 subtype4
  ASTROCYTOMA             35       44       41       27
  OLIGOASTROCYTOMA        30       15       37       32
  OLIGODENDROGLIOMA       25       36       48       58
[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       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     0                         6
  subtype2                                0     4                         3
  subtype3                                0     2                         5
  subtype4                                1     2                         4
          vv
clus       WHITE
  subtype1    82
  subtype2    85
  subtype3   117
  subtype4   109
D5V7, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE        0        0        0        1
  ASIAN                                   0        4        2        2
  BLACK OR AFRICAN AMERICAN               6        3        5        4
  WHITE                                  82       85      117      109
[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"
D5V8, binary
          cls
clus         0   1
  subtype1   8  76
  subtype2   6  83
  subtype3   7 111
  subtype4   5 107
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8   76
  subtype2    6   83
  subtype3    7  111
  subtype4    5  107
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            8        6        7        5
  NOT HISPANIC OR LATINO       76       83      111      107
[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(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2        0   1
  subtype1  75   8
  subtype2 128  30
  subtype3 127  57
subtype1 subtype2 subtype3 
      83      158      184 
subtype1 subtype2 subtype3 
       8       30       57 
$subtype1
TCGA-CS-4938 TCGA-CS-4944 TCGA-CS-6186 TCGA-CS-6665 TCGA-DB-5273 TCGA-DB-5274 
        4.70        10.62        17.69        12.43        81.96        75.25 
TCGA-DB-5276 TCGA-DB-A4XF TCGA-DB-A64Q TCGA-DB-A64V TCGA-DB-A64X TCGA-DB-A75M 
       72.92        33.57         5.98        29.23        18.51        17.88 
TCGA-DB-A75O TCGA-DH-5143 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7US 
       30.74        46.06        27.81        17.19        17.19        23.21 
TCGA-DU-5870 TCGA-DU-5874 TCGA-DU-7304 TCGA-DU-8163 TCGA-DU-A5TR TCGA-DU-A7TI 
      182.33        15.16        23.31        20.68        29.85        38.89 
TCGA-E1-5302 TCGA-E1-5319 TCGA-E1-A7Z3 TCGA-E1-A7Z6 TCGA-FG-6688 TCGA-FG-6691 
       50.14        95.57        73.48        32.35        18.77        41.33 
TCGA-FG-7636 TCGA-FG-8191 TCGA-FG-A4MY TCGA-FG-A60L TCGA-HT-7468 TCGA-HT-7472 
       17.88        32.61        23.70        21.53         6.67         0.03 
TCGA-HT-7479 TCGA-HT-7482 TCGA-HT-7485 TCGA-HT-7608 TCGA-HT-7611 TCGA-HT-7677 
       40.34       106.95         4.01        22.06        57.60        16.24 
TCGA-HT-7680 TCGA-HT-7686 TCGA-HT-7689 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7854 
        0.76        42.74        14.96         0.10         2.96        39.48 
TCGA-HT-7858 TCGA-HT-8111 TCGA-HT-8114 TCGA-HT-A5R5 TCGA-HT-A618 TCGA-HT-A74H 
       50.63         0.23        34.19         0.13        16.83         2.43 
TCGA-IK-8125 TCGA-P5-A5EW TCGA-P5-A5EZ TCGA-P5-A5F1 TCGA-P5-A72X TCGA-P5-A731 
       42.77         6.71         2.30         5.88        13.25         9.01 
TCGA-P5-A736 TCGA-P5-A737 TCGA-QH-A65S TCGA-QH-A6CW TCGA-R8-A6ML TCGA-S9-A6TS 
        7.56        12.23         2.53        13.61        94.03        62.17 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6WG TCGA-S9-A6WN TCGA-S9-A7IY TCGA-TM-A84S 
       32.61        35.15        85.55        26.47        23.51        14.93 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RK TCGA-TQ-A7RV TCGA-VM-A8C9 TCGA-VM-A8CA 
       19.69        15.98        44.09        61.41        43.20        13.51 
TCGA-VM-A8CE TCGA-VM-A8CH TCGA-W9-A837 TCGA-WY-A85B TCGA-WY-A85D 
       39.16        23.47        51.06        45.80        37.71 

$subtype2
TCGA-CS-4942 TCGA-CS-5390 TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5278 
       43.89        64.64        49.12         6.61       122.73        91.13 
TCGA-DB-A4X9 TCGA-DB-A4XB TCGA-DB-A4XE TCGA-DB-A4XH TCGA-DB-A64O TCGA-DB-A64U 
       46.42        30.21        37.45        31.63        25.48        27.81 
TCGA-DB-A64W TCGA-DB-A75P TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       14.40        16.18        14.56        17.46         6.74        13.38 
TCGA-DU-6395 TCGA-DU-6403 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7292 TCGA-DU-7294 
       49.02        11.64       154.36        14.99         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7300 TCGA-DU-7302 TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8164 
       18.94        62.01        60.30         2.76        14.60        21.40 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TS TCGA-DU-A6S3 
       16.96        15.48        14.17        33.27        31.69        21.57 
TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7TB TCGA-DU-A7TG TCGA-E1-5305 TCGA-E1-5307 
       17.16        21.30        51.52        44.42        79.99        57.93 
TCGA-E1-5311 TCGA-E1-A7YH TCGA-E1-A7YM TCGA-E1-A7YW TCGA-E1-A7YY TCGA-F6-A8O3 
      134.27        93.21        21.30        36.82       146.14         0.23 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-7634 
       47.77        25.48        36.82        14.93        42.54        15.35 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8186 
       22.55        20.61        20.09        28.34        13.68        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-A60J TCGA-FG-A6IZ TCGA-FG-A6J3 
       20.09        14.96        22.52        14.76        15.02        22.26 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A713 TCGA-FG-A87Q TCGA-HT-7467 TCGA-HT-7470 
       10.78        36.66        20.45         5.72         0.10        40.11 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7481 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7605 
        3.75        17.42        95.93        29.85        23.18         4.57 
TCGA-HT-7607 TCGA-HT-7610 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7681 TCGA-HT-7687 
        3.16        56.09        14.27         0.16        44.68         0.10 
TCGA-HT-7688 TCGA-HT-7690 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7856 TCGA-HT-7873 
       31.69         0.10         6.90        14.53        39.09        23.61 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 TCGA-HT-7902 
        0.13         3.68         5.33        35.47        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8107 
        1.64        63.55         0.10        37.87        33.01         0.46 
TCGA-HT-8109 TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-8564 TCGA-HT-A4DV TCGA-HT-A5R7 
        5.56        29.59        13.74        15.72        26.04        20.22 
TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A61A TCGA-HT-A74J 
        0.10         2.70         1.81        16.14         6.38        10.52 
TCGA-HT-A74L TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       11.05        56.58        13.45        69.27        35.44        39.75 
TCGA-HW-8322 TCGA-KT-A74X TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F4 
        6.18        14.40         7.99         2.37         4.11         0.76 
TCGA-P5-A72Z TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 
       11.64        13.61         9.60        19.20         3.45         4.41 
TCGA-QH-A65V TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CY TCGA-QH-A6CZ 
       12.62        14.04        19.33        14.83         2.20         9.17 
TCGA-QH-A6X4 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-R8-A6MK 
       14.53        16.73         1.91        16.50         5.03        88.83 
TCGA-R8-A6MO TCGA-RY-A843 TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6WE TCGA-S9-A6WP 
       32.65         2.07        28.14        35.38       135.22        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7J1 TCGA-S9-A7QZ TCGA-TM-A84R TCGA-TQ-A7RR 
       14.07        36.13         8.19        27.16        18.61        25.87 
TCGA-TQ-A7RW TCGA-VM-A8CD 
       26.99         7.89 

$subtype3
TCGA-CS-4943 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6188 
       18.15        40.18         0.10         9.96         6.38        23.84 
TCGA-CS-6666 TCGA-CS-6668 TCGA-DB-5275 TCGA-DB-5277 TCGA-DB-5279 TCGA-DB-5280 
       46.95        49.94        47.93        50.86        44.52        36.56 
TCGA-DB-5281 TCGA-DB-A4XA TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XG TCGA-DB-A64L 
       78.28        18.84        46.72        39.78        72.95        24.20 
TCGA-DB-A64P TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A75K TCGA-DB-A75L TCGA-DH-5140 
       30.12        31.40        27.45        12.10        11.24        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5144 TCGA-DH-A66B TCGA-DU-5847 TCGA-DU-5854 
       31.82        63.88         8.02        42.05        18.02         8.45 
TCGA-DU-5855 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 
        6.81        18.94        17.49       211.17        52.11        22.42 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 
       75.16        46.06        65.75         1.22        87.45         7.04 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 
      133.74        19.89        16.83        94.52       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7011 TCGA-DU-7012 
        2.40        11.47        62.96       156.23       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7301 TCGA-DU-7306 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8165 TCGA-DU-A5TT 
       25.91        41.98         5.10        23.74        19.13        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S8 TCGA-DU-A76K 
       26.17        24.99        33.96        25.55        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A7T6 TCGA-DU-A7TA TCGA-DU-A7TD TCGA-DU-A7TJ TCGA-E1-5303 
       26.76        17.98        84.33         7.50         0.56        67.46 
TCGA-E1-5304 TCGA-E1-5318 TCGA-E1-5322 TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YL 
       41.13        78.21       130.78         3.65        19.46        16.18 
TCGA-E1-A7YN TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YV TCGA-E1-A7Z2 TCGA-EZ-7264 
       23.90        51.88        15.32        32.45        13.08        39.48 
TCGA-F6-A8O4 TCGA-FG-5964 TCGA-FG-7637 TCGA-FG-8185 TCGA-FG-A4MT TCGA-FG-A4MU 
        0.20        52.21        40.08        14.24        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A70Y TCGA-FG-A87N TCGA-HT-7469 TCGA-HT-7471 
       18.38        18.71        28.54        18.64        11.54         0.13 
TCGA-HT-7473 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7480 TCGA-HT-7483 
       16.54         6.54        24.26         6.38        75.19       172.77 
TCGA-HT-7601 TCGA-HT-7604 TCGA-HT-7606 TCGA-HT-7609 TCGA-HT-7616 TCGA-HT-7684 
        5.03       122.47        17.29        45.99         0.23         6.05 
TCGA-HT-7693 TCGA-HT-7855 TCGA-HT-7857 TCGA-HT-7860 TCGA-HT-7874 TCGA-HT-7875 
       17.52        19.23         0.23         0.49        37.15         0.33 
TCGA-HT-7882 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        3.72        16.24         9.40        12.23         6.25         0.10 
TCGA-HT-8110 TCGA-HT-A5R9 TCGA-HT-A615 TCGA-HT-A619 TCGA-HT-A61B TCGA-HT-A74O 
       13.78         0.07        16.93        21.40        17.52         0.10 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-A5KJ 
       41.49        45.60        68.32        40.01        42.54        10.55 
TCGA-HW-A5KK TCGA-HW-A5KM TCGA-IK-7675 TCGA-P5-A5EV TCGA-P5-A5F2 TCGA-P5-A5F6 
       12.76        20.71        19.00         0.23         7.63         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A730 TCGA-P5-A780 TCGA-QH-A65X TCGA-QH-A6CV 
        0.23        10.42        10.95         2.37        15.85        14.53 
TCGA-QH-A6CX TCGA-QH-A6X5 TCGA-QH-A86X TCGA-QH-A870 TCGA-RY-A83X TCGA-RY-A83Y 
       12.23        16.34        11.08        12.99        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A845 TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6U0 TCGA-S9-A6U1 
        9.90        19.59        87.12        18.77        24.39        25.81 
TCGA-S9-A6U9 TCGA-S9-A6WD TCGA-S9-A6WH TCGA-S9-A7IS TCGA-S9-A7IZ TCGA-S9-A7J0 
       95.93        75.25        38.56         7.92        19.99        20.02 
TCGA-S9-A7J2 TCGA-S9-A7QX TCGA-S9-A7R1 TCGA-S9-A7R4 TCGA-S9-A7R8 TCGA-TM-A7C5 
        2.04        18.54       169.84        30.05        31.59        49.32 
TCGA-TQ-A7RF TCGA-TQ-A7RN TCGA-TQ-A7RQ TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8CB 
       21.37        33.73        26.14        31.36        43.04         0.10 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-WY-A85C 
       37.05        16.01        23.21        46.88 

subtype1 subtype2 subtype3 
    0.03     0.10     0.07 
subtype1 subtype2 subtype3 
  182.33   154.36   211.17 
subtype1 subtype2 subtype3 
  23.310   17.440   20.005 
[1] "0.0 - 182.3 (23.3)" "0.1 - 154.4 (17.4)" "0.1 - 211.2 (20.0)"
D6V2, continuous
D6V3, binary
          cls
clus         0   1
  subtype1  32  51
  subtype2  76  84
  subtype3  83 102
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   32   51
  subtype2   76   84
  subtype3   83  102
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       32       76       83
  MALE         51       84      102
[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"
D6V4, binary
          cls
clus         0   1
  subtype1  34  43
  subtype2  64  83
  subtype3  54 116
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   34   43
  subtype2   64   83
  subtype3   54  116
     clus
vv    subtype1 subtype2 subtype3
  NO        34       64       54
  YES       43       83      116
[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"
D6V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1          40               25                18
  subtype2          33               50                77
  subtype3          74               39                72
D6V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3
  ASTROCYTOMA             40       33       74
  OLIGOASTROCYTOMA        25       50       39
  OLIGODENDROGLIOMA       18       77       72
[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       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     0                         4
  subtype2                                1     3                         6
  subtype3                                0     5                         8
          vv
clus       WHITE
  subtype1    76
  subtype2   149
  subtype3   168
D6V7, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE        0        1        0
  ASIAN                                   0        3        5
  BLACK OR AFRICAN AMERICAN               4        6        8
  WHITE                                  76      149      168
[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"
D6V8, binary
          cls
clus         0   1
  subtype1   8  67
  subtype2   8 146
  subtype3  10 164
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8   67
  subtype2    8  146
  subtype3   10  164
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            8        8       10
  NOT HISPANIC OR LATINO       67      146      164
[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(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2        0   1
  subtype1 109  24
  subtype2  56  52
  subtype3  95  13
  subtype4 106  27
  subtype5  25   5
subtype1 subtype2 subtype3 subtype4 subtype5 
     133      108      108      133       30 
subtype1 subtype2 subtype3 subtype4 subtype5 
      24       52       13       27        5 
$subtype1
TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        4.70        43.89        18.15        17.95        46.95         7.56 
TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5280 TCGA-DB-A4X9 TCGA-DB-A4XD TCGA-DB-A64S 
       81.96        47.93        36.56        46.42        39.78        27.45 
TCGA-DB-A64X TCGA-DB-A75M TCGA-DB-A75O TCGA-DH-5142 TCGA-DH-A66D TCGA-DH-A7UU 
       18.51        17.88        30.74        63.88        27.81        13.71 
TCGA-DH-A7UV TCGA-DU-5853 TCGA-DU-5855 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6395 
       18.61        13.38         6.81        18.94        17.49        49.02 
TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-7014 TCGA-DU-7015 
       65.75        87.45        94.52       114.08       117.40        90.77 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7306 TCGA-DU-8163 TCGA-DU-8166 TCGA-DU-8167 
       44.02        25.91        41.98        20.68        16.96        15.48 
TCGA-DU-A5TS TCGA-DU-A5TW TCGA-DU-A6S7 TCGA-DU-A76O TCGA-DU-A7T8 TCGA-DU-A7TA 
       31.69        24.99        20.98        17.16       139.04        84.33 
TCGA-DU-A7TI TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5322 TCGA-E1-A7YW TCGA-E1-A7Z4 
       38.89        50.14        67.46       130.78        36.82       145.05 
TCGA-E1-A7Z6 TCGA-FG-5965 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7636 TCGA-FG-8182 
       32.35        36.82        42.54        41.33        17.88        13.68 
TCGA-FG-8185 TCGA-FG-8188 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A60J 
       14.24        14.96        32.61        38.27        18.71        14.76 
TCGA-FG-A60L TCGA-FG-A70Y TCGA-FN-7833 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7478 
       21.53        28.54        27.52         0.03        16.54         6.38 
TCGA-HT-7482 TCGA-HT-7485 TCGA-HT-7604 TCGA-HT-7609 TCGA-HT-7611 TCGA-HT-7676 
      106.95         4.01       122.47        45.99        57.60         0.16 
TCGA-HT-7693 TCGA-HT-7855 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7879 TCGA-HT-8013 
       17.52        19.23        50.63        23.61         3.68        63.55 
TCGA-HT-8108 TCGA-HT-8111 TCGA-HT-8114 TCGA-HT-A74O TCGA-HW-7490 TCGA-HW-8320 
        2.50         0.23        34.19         0.10        45.60        40.01 
TCGA-HW-8321 TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-P5-A5EV TCGA-P5-A5EW 
       42.54        20.81        20.71        19.00         0.23         6.71 
TCGA-P5-A5EZ TCGA-P5-A5F1 TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A733 TCGA-P5-A735 
        2.30         5.88        10.42        13.25        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A780 TCGA-QH-A6CW TCGA-QH-A6X3 TCGA-QH-A6XA TCGA-QH-A870 
        7.56         2.37        13.61        10.29        16.50        12.99 
TCGA-RY-A845 TCGA-S9-A6TU TCGA-S9-A6TZ TCGA-S9-A6U1 TCGA-S9-A6U9 TCGA-S9-A6WG 
       19.59        87.12        36.82        25.81        95.93        85.55 
TCGA-S9-A6WO TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R8 
       18.61        15.06        18.54        99.06        30.05        31.59 
TCGA-TM-A84H TCGA-TM-A84L TCGA-TM-A84Q TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RH 
       30.44        40.83        25.38        23.80        21.37        15.98 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8CH 
       40.41        44.09        26.99        31.36        43.04        23.47 
TCGA-VV-A86M TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       16.01        13.32        43.96        43.40        45.80        46.88 
TCGA-WY-A85D 
       37.71 

$subtype2
TCGA-CS-4941 TCGA-CS-4944 TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        7.69        10.62        21.01         6.38        17.69        23.84 
TCGA-CS-6665 TCGA-DH-5140 TCGA-DH-A66B TCGA-DU-5847 TCGA-DU-5852 TCGA-DU-5854 
       12.43        19.96        42.05        18.02         6.74         8.45 
TCGA-DU-6392 TCGA-DU-6396 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
      211.17        75.16         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7010 TCGA-DU-7012 TCGA-DU-7013 
       16.83        11.47        62.96        14.99         6.54         8.84 
TCGA-DU-7290 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8165 TCGA-DU-A5TP TCGA-DU-A5TR 
       10.36         5.10        23.74        19.13        33.27        29.85 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TY TCGA-DU-A76L TCGA-DU-A7TD TCGA-DU-A7TJ 
       24.43        26.17        33.96        26.76         7.50         0.56 
TCGA-E1-5304 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       41.13        14.30        29.13         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YN TCGA-E1-A7YQ TCGA-E1-A7YV TCGA-FG-5963 TCGA-FG-6688 
       16.18        23.90        51.88        32.45        25.48        18.77 
TCGA-FG-6692 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A6J3 TCGA-FG-A70Z TCGA-FG-A87N 
       18.44        10.72        18.38        22.26        10.78        18.64 
TCGA-FG-A87Q TCGA-HT-7469 TCGA-HT-7477 TCGA-HT-7601 TCGA-HT-7680 TCGA-HT-7686 
        5.72        11.54        24.26         5.03         0.76        42.74 
TCGA-HT-7691 TCGA-HT-7854 TCGA-HT-7857 TCGA-HT-7860 TCGA-HT-7882 TCGA-HT-8011 
        0.10        39.48         0.23         0.49         3.72        16.24 
TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8110 TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A5RA 
       12.23         0.10        13.78        28.27         0.23        27.35 
TCGA-HT-A5RC TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HW-A5KK 
        5.33        16.14        16.83        17.52        17.65        12.76 
TCGA-KT-A7W1 TCGA-P5-A5EX TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A730 TCGA-QH-A6CS 
       14.40         7.99         1.28         0.23        10.95        19.33 
TCGA-QH-A6CV TCGA-QH-A6CX TCGA-RY-A83Z TCGA-S9-A6TV TCGA-S9-A6U0 TCGA-S9-A6UA 
       14.53        12.23         9.90        18.77        24.39         5.85 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7R2 TCGA-S9-A7R7 
       19.86        26.47         7.92        26.93        10.39        98.63 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       18.71        20.48        54.77        24.92        16.18        59.05 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TQ-A7RM TCGA-VM-A8C9 TCGA-VM-A8CD TCGA-VW-A8FI 
       28.08        24.16        36.69        43.20         7.89         8.05 

$subtype3
TCGA-CS-5390 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-6668 TCGA-DB-5274 TCGA-DB-A4XA 
       64.64         0.10         9.96        49.94        75.25        18.84 
TCGA-DB-A4XG TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64U TCGA-DB-A75K 
       72.95        30.12         5.98        31.40        27.81        12.10 
TCGA-DH-5141 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US 
       31.82         8.02        30.21        17.19        54.25        23.21 
TCGA-DU-5870 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6397 TCGA-DU-6400 
      182.33        15.16        52.11        22.42        46.06         1.22 
TCGA-DU-6410 TCGA-DU-7018 TCGA-DU-7294 TCGA-DU-8164 TCGA-DU-8168 TCGA-DU-A6S8 
        7.96        30.67        94.32        21.40        14.17        22.29 
TCGA-DU-A7T6 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-A7YO TCGA-E1-A7YS TCGA-EZ-7264 
       17.98        78.21        95.57        75.02        15.32        39.48 
TCGA-F6-A8O3 TCGA-FG-7634 TCGA-FG-7637 TCGA-FG-8186 TCGA-FG-A60K TCGA-FG-A6IZ 
        0.23        15.35        40.08        16.01        17.82        15.02 
TCGA-FG-A6J1 TCGA-FG-A710 TCGA-HT-7468 TCGA-HT-7471 TCGA-HT-7481 TCGA-HT-7606 
       16.44        36.66         6.67         0.13        95.93        17.29 
TCGA-HT-7616 TCGA-HT-7677 TCGA-HT-7687 TCGA-HT-7692 TCGA-HT-8012 TCGA-HT-8105 
        0.23        16.24         0.10         2.96         9.40         6.25 
TCGA-HT-A5R9 TCGA-HT-A615 TCGA-HT-A619 TCGA-HT-A74K TCGA-HT-A74L TCGA-HW-7491 
        0.07        16.93        21.40        15.35        11.05        68.32 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-KT-A74X TCGA-P5-A72Z TCGA-P5-A737 TCGA-P5-A77W 
        6.18        10.55        14.40        11.64        12.23        19.20 
TCGA-QH-A65R TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6X4 TCGA-QH-A6X8 TCGA-QH-A86X 
       15.16        15.85        14.04        14.53        16.73        11.08 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y 
       88.83        94.03        32.65        59.38        30.87         5.46 
TCGA-RY-A840 TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6UB 
       28.08        41.10        28.14        29.85        32.61       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WH TCGA-S9-A6WP TCGA-S9-A7J0 TCGA-S9-A7J1 
       75.25       135.22        38.56        18.64        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QZ TCGA-TM-A7C5 TCGA-TM-A84G TCGA-TM-A84M 
        2.04        20.68        27.16        49.32        40.64        24.79 
TCGA-TM-A84O TCGA-TM-A84S TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RN TCGA-TQ-A7RO 
       33.24        14.93        19.69         2.04        33.73        31.20 
TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VV-A829 TCGA-VW-A7QS 
       26.14        33.93         0.10        39.16        37.05        23.21 

$subtype4
TCGA-CS-5393 TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5276 TCGA-DB-5277 
       40.18        49.12         6.61       122.73        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5281 TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XE 
       91.13        44.52        78.28        30.21        46.72        37.45 
TCGA-DB-A4XF TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64W TCGA-DB-A75L TCGA-DB-A75P 
       33.57        31.63        24.20        14.40        11.24        16.18 
TCGA-DH-5143 TCGA-DH-A66G TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-6542 TCGA-DU-7008 
       46.06        17.19        14.56        17.46         2.40       156.23 
TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7019 TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-7300 
      154.36       105.21        26.30         7.96        18.94        62.01 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-A6S2 TCGA-DU-A6S3 
       60.30        23.31         2.76        14.60        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A76K TCGA-DU-A76R TCGA-DU-A7TC TCGA-DU-A7TG TCGA-E1-5305 
       95.11        11.41        21.30        37.38        44.42        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-A7YU TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
       57.93       134.27         0.76       146.14        13.08        73.48 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-6689 TCGA-FG-7638 TCGA-FG-7641 
        0.20        47.77        52.21        14.93        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8189 TCGA-FG-A711 TCGA-FG-A713 TCGA-HT-7467 
       20.09        28.34        22.52        48.69        20.45         0.10 
TCGA-HT-7470 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7480 TCGA-HT-7483 
       40.11         3.75        17.42         6.54        75.19       172.77 
TCGA-HT-7603 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7610 TCGA-HT-7681 
       23.18         4.57         3.16        22.06        56.09        44.68 
TCGA-HT-7688 TCGA-HT-7690 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7856 TCGA-HT-7874 
       31.69         0.10         6.90        14.53        39.09        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-8010 TCGA-HT-8015 
        0.33         0.13         5.33        35.47         1.64         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8107 TCGA-HT-8109 TCGA-HT-8113 TCGA-HT-8558 
       37.87        33.01         0.46         5.56        29.59        13.74 
TCGA-HT-8564 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5RB TCGA-HT-A616 
       15.72        26.04         0.13        20.22         0.10         1.81 
TCGA-HT-A61A TCGA-HT-A74J TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7493 TCGA-HW-7495 
        6.38        10.52        13.45        41.49        69.27        35.44 
TCGA-HW-8319 TCGA-IK-8125 TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F2 TCGA-P5-A5F4 
       39.75        42.77         2.37         4.11         7.63         0.76 
TCGA-P5-A731 TCGA-P5-A77X TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X9 TCGA-QH-A6XC 
        9.01         3.45         2.20         9.17         1.91         5.03 
TCGA-RY-A843 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TY TCGA-S9-A6U6 TCGA-S9-A6WI 
        2.07        30.67        62.17        35.38        35.15        84.99 
TCGA-S9-A6WL TCGA-S9-A7IQ TCGA-S9-A7IZ TCGA-S9-A7R1 TCGA-TM-A7C4 TCGA-TM-A7CA 
       31.10        36.13        19.99       169.84        48.33        34.78 
TCGA-TM-A7CF TCGA-TM-A84R TCGA-TQ-A7RV TCGA-VM-A8CA TCGA-W9-A837 TCGA-WY-A859 
       65.39        18.61        61.41        13.51        51.06        39.88 
TCGA-WY-A85E 
       20.81 

$subtype5
TCGA-DB-A64O TCGA-DB-A64V TCGA-DH-A7UT TCGA-DU-A7TB TCGA-E1-A7YH TCGA-E1-A7YM 
       25.48        29.23        17.46        51.52        93.21        21.30 
TCGA-FG-8187 TCGA-FG-A4MY TCGA-HT-7479 TCGA-HT-7602 TCGA-HT-7620 TCGA-HT-7684 
       20.09        23.70        40.34        29.85        14.27         6.05 
TCGA-HT-7689 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-A614 TCGA-HT-A74H TCGA-HW-7486 
       14.96        11.28        31.43         2.70         2.43        56.58 
TCGA-P5-A781 TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A6CU TCGA-QH-A6X5 TCGA-S9-A6U8 
        4.41         2.53        12.62        14.83        16.34        98.24 
TCGA-S9-A6WQ TCGA-S9-A7IY TCGA-S9-A7QY TCGA-TQ-A7RP TCGA-TQ-A7RR TCGA-VM-A8CF 
       14.07        23.51        28.37        30.05        25.87        20.02 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.03     0.10     0.07     0.10     2.43 
subtype1 subtype2 subtype3 subtype4 subtype5 
  145.05   211.17   182.33   172.77    98.24 
subtype1 subtype2 subtype3 subtype4 subtype5 
  25.910   17.175   21.040   23.310   20.695 
[1] "0.0 - 145.1 (25.9)" "0.1 - 211.2 (17.2)" "0.1 - 182.3 (21.0)"
[4] "0.1 - 172.8 (23.3)" "2.4 - 98.2 (20.7)" 
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 52 81
  subtype2 53 56
  subtype3 51 58
  subtype4 61 73
  subtype5 13 17
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   52   81
  subtype2   53   56
  subtype3   51   58
  subtype4   61   73
  subtype5   13   17
        clus
vv       subtype1 subtype2 subtype3 subtype4 subtype5
  FEMALE       52       53       51       61       13
  MALE         81       56       58       73       17
[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"
D7V4, binary
          cls
clus        0  1
  subtype1 42 84
  subtype2 18 81
  subtype3 59 42
  subtype4 54 71
  subtype5 13 16
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   42   84
  subtype2   18   81
  subtype3   59   42
  subtype4   54   71
  subtype5   13   16
     clus
vv    subtype1 subtype2 subtype3 subtype4 subtype5
  NO        42       18       59       54       13
  YES       84       81       42       71       16
[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"
D7V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1          69               41                23
  subtype2          77               17                15
  subtype3           3               21                85
  subtype4          36               38                60
  subtype5           9               13                 8
D7V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3 subtype4 subtype5
  ASTROCYTOMA             69       77        3       36        9
  OLIGOASTROCYTOMA        41       17       21       38       13
  OLIGODENDROGLIOMA       23       15       85       60        8
[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       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     0                         6
  subtype2                                1     2                         6
  subtype3                                0     4                         2
  subtype4                                0     1                         6
  subtype5                                0     1                         1
          vv
clus       WHITE
  subtype1   125
  subtype2    99
  subtype3    99
  subtype4   124
  subtype5    28
D7V7, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4 subtype5
  AMERICAN INDIAN OR ALASKA NATIVE        0        1        0        0        0
  ASIAN                                   0        2        4        1        1
  BLACK OR AFRICAN AMERICAN               6        6        2        6        1
  WHITE                                 125       99       99      124       28
[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"
D7V8, binary
          cls
clus         0   1
  subtype1   8 113
  subtype2   3 100
  subtype3  11  90
  subtype4   7 120
  subtype5   3  26
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8  113
  subtype2    3  100
  subtype3   11   90
  subtype4    7  120
  subtype5    3   26
                        clus
vv                       subtype1 subtype2 subtype3 subtype4 subtype5
  HISPANIC OR LATINO            8        3       11        7        3
  NOT HISPANIC OR LATINO      113      100       90      120       26
[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(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1 108  26
  subtype2  32  39
  subtype3  32   4
  subtype4  48  20
  subtype5  78  12
  subtype6  29  11
  subtype7  64   9
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 
     134       71       36       68       90       40       73 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 
      26       39        4       20       12       11        9 
$subtype1
TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-6290 TCGA-CS-6666 
        4.70        43.89        18.15        10.62        17.95        46.95 
TCGA-CS-6667 TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5280 TCGA-DB-A4XD TCGA-DB-A64S 
        7.56        81.96        47.93        36.56        39.78        27.45 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DH-A66D TCGA-DH-A7UT TCGA-DH-A7UV TCGA-DU-5853 
       17.88        30.74        27.81        17.46        18.61        13.38 
TCGA-DU-5855 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6399 
        6.81        18.94        17.49        49.02        75.16        65.75 
TCGA-DU-6401 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7019 
       87.45        94.52       114.08       117.40        90.77        26.30 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7306 TCGA-DU-8163 TCGA-DU-8167 TCGA-DU-A5TS 
       44.02        25.91        41.98        20.68        15.48        31.69 
TCGA-DU-A5TW TCGA-DU-A6S7 TCGA-DU-A76O TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-E1-5302 
       24.99        20.98        17.16       139.04        84.33        50.14 
TCGA-E1-5303 TCGA-E1-5322 TCGA-E1-A7YH TCGA-E1-A7YW TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       67.46       130.78        93.21        36.82       145.05        32.35 
TCGA-FG-5965 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8188 
       36.82        42.54        41.33        13.68        14.24        14.96 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L 
       32.61        38.27        18.71        23.70        14.76        21.53 
TCGA-FG-A70Y TCGA-FN-7833 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7479 TCGA-HT-7482 
       28.54        27.52         0.03        16.54        40.34       106.95 
TCGA-HT-7485 TCGA-HT-7604 TCGA-HT-7609 TCGA-HT-7611 TCGA-HT-7676 TCGA-HT-7684 
        4.01       122.47        45.99        57.60         0.16         6.05 
TCGA-HT-7689 TCGA-HT-7693 TCGA-HT-7855 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7879 
       14.96        17.52        19.23        50.63        23.61         3.68 
TCGA-HT-7902 TCGA-HT-8013 TCGA-HT-8108 TCGA-HT-8111 TCGA-HT-8114 TCGA-HT-A614 
       31.43        63.55         2.50         0.23        34.19         2.70 
TCGA-HT-A74O TCGA-HW-7490 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-A5KL TCGA-HW-A5KM 
        0.10        45.60        40.01        42.54        20.81        20.71 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EZ TCGA-P5-A5F1 TCGA-P5-A72W TCGA-P5-A72X 
        0.23         6.71         2.30         5.88        10.42        13.25 
TCGA-P5-A733 TCGA-P5-A736 TCGA-P5-A780 TCGA-QH-A65S TCGA-QH-A6CW TCGA-QH-A6X3 
       13.61         7.56         2.37         2.53        13.61        10.29 
TCGA-QH-A870 TCGA-S9-A6TU TCGA-S9-A6TZ TCGA-S9-A6U1 TCGA-S9-A6U8 TCGA-S9-A6U9 
       12.99        87.12        36.82        25.81        98.24        95.93 
TCGA-S9-A6WG TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7QX TCGA-S9-A7R3 TCGA-S9-A7R4 
       85.55        18.61        14.07        18.54        99.06        30.05 
TCGA-S9-A7R8 TCGA-TM-A84H TCGA-TM-A84L TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RH 
       31.59        30.44        40.83        23.80        21.37        15.98 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RR TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       40.41        44.09        25.87        26.99        31.36        43.04 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A86M TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A85B 
       20.02        23.47        16.01        13.32        43.96        45.80 
TCGA-WY-A85C TCGA-WY-A85D 
       46.88        37.71 

$subtype2
TCGA-CS-4941 TCGA-CS-6186 TCGA-CS-6188 TCGA-DB-A64O TCGA-DU-5847 TCGA-DU-5852 
        7.69        17.69        23.84        25.48        18.02         6.74 
TCGA-DU-5854 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
        8.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-7006 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7290 TCGA-DU-8158 TCGA-DU-8161 
       11.47         6.54         8.84        10.36         5.10        23.74 
TCGA-DU-8165 TCGA-DU-A5TT TCGA-DU-A5TY TCGA-DU-A76L TCGA-DU-A7TD TCGA-DU-A7TJ 
       19.13        24.43        33.96        26.76         7.50         0.56 
TCGA-E1-A7YD TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YN TCGA-E1-A7YQ TCGA-FG-6688 
       14.30        19.46        16.18        23.90        51.88        18.77 
TCGA-FG-6692 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A70Z TCGA-FG-A87Q TCGA-HT-7469 
       18.44        10.72        18.38        10.78         5.72        11.54 
TCGA-HT-7680 TCGA-HT-7691 TCGA-HT-7857 TCGA-HT-7860 TCGA-HT-7882 TCGA-HT-8011 
        0.76         0.10         0.23         0.49         3.72        16.24 
TCGA-HT-8104 TCGA-HT-8110 TCGA-HT-A4DS TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A617 
       12.23        13.78         0.23        27.35         5.33        16.14 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HW-A5KK TCGA-KT-A7W1 TCGA-P5-A5EX TCGA-P5-A5F6 
       17.65         2.43        12.76        14.40         7.99         1.28 
TCGA-P5-A72U TCGA-QH-A6CS TCGA-QH-A6CV TCGA-QH-A6CX TCGA-S9-A6U0 TCGA-S9-A6UA 
        0.23        19.33        14.53        12.23        24.39         5.85 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A7R2 TCGA-S9-A89V TCGA-TM-A7C3 TCGA-TM-A84B 
       19.86        26.47        10.39        18.71        54.77        24.92 
TCGA-TM-A84C TCGA-TQ-A7RP TCGA-VM-A8C9 TCGA-VM-A8CD TCGA-VW-A8FI 
       16.18        30.05        43.20         7.89         8.05 

$subtype3
TCGA-CS-5390 TCGA-CS-6668 TCGA-DB-5279 TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A64R 
       64.64        49.94        44.52        72.95        24.20        31.40 
TCGA-DH-5144 TCGA-DH-A7UR TCGA-DU-5874 TCGA-DU-6400 TCGA-DU-6410 TCGA-DU-7294 
        8.02        54.25        15.16         1.22         7.96        94.32 
TCGA-DU-8168 TCGA-DU-A6S8 TCGA-E1-5311 TCGA-E1-A7YO TCGA-EZ-7264 TCGA-F6-A8O3 
       14.17        22.29       134.27        75.02        39.48         0.23 
TCGA-FG-A6J1 TCGA-FG-A710 TCGA-HT-7687 TCGA-HT-8012 TCGA-HT-8105 TCGA-HT-A5R9 
       16.44        36.66         0.10         9.40         6.25         0.07 
TCGA-HW-A5KJ TCGA-P5-A77W TCGA-QH-A65R TCGA-QH-A86X TCGA-R8-A73M TCGA-S9-A6WH 
       10.55        19.20        15.16        11.08        59.38        38.56 
TCGA-S9-A6WL TCGA-S9-A7R1 TCGA-TM-A84G TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-VM-A8CB 
       31.10       169.84        40.64        31.20        26.14         0.10 

$subtype4
TCGA-CS-5393 TCGA-CS-5395 TCGA-CS-5397 TCGA-DB-5270 TCGA-DB-5276 TCGA-DB-5277 
       40.18        21.01         6.38       122.73        72.92        50.86 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XE TCGA-DB-A4XF 
       78.28        46.42        30.21        46.72        37.45        33.57 
TCGA-DB-A64X TCGA-DB-A75L TCGA-DB-A75P TCGA-DH-5143 TCGA-DH-A66G TCGA-DU-6542 
       18.51        11.24        16.18        46.06        17.19         2.40 
TCGA-DU-7008 TCGA-DU-7011 TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-7304 TCGA-DU-8162 
      156.23       105.21         7.96        18.94        23.31        14.60 
TCGA-DU-8166 TCGA-DU-A76K TCGA-DU-A7TI TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-A7YM 
       16.96        11.41        38.89        79.99        57.93        21.30 
TCGA-E1-A7YU TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-F6-A8O4 TCGA-FG-6689 TCGA-FG-7636 
        0.76        13.08        73.48         0.20        14.93        17.88 
TCGA-FG-7643 TCGA-FG-A711 TCGA-HT-7476 TCGA-HT-7483 TCGA-HT-7690 TCGA-HT-7854 
       20.09        48.69         6.54       172.77         0.10        39.48 
TCGA-HT-7884 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8564 TCGA-HT-A5R5 TCGA-HT-A74J 
       11.28         0.10        37.87        15.72         0.13        10.52 
TCGA-HW-7493 TCGA-P5-A5EY TCGA-P5-A5F2 TCGA-P5-A731 TCGA-P5-A735 TCGA-QH-A6X9 
       69.27         2.37         7.63         9.01         9.60         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-RY-A843 TCGA-RY-A845 TCGA-S9-A6TS TCGA-S9-A6U6 
       16.50         5.03         2.07        19.59        62.17        35.15 
TCGA-S9-A7IX TCGA-S9-A7IZ TCGA-S9-A7QW TCGA-TM-A7CA TCGA-TQ-A7RV TCGA-VM-A8CA 
       26.93        19.99        15.06        34.78        61.41        13.51 
TCGA-WY-A85A TCGA-WY-A85E 
       43.40        20.81 

$subtype5
TCGA-CS-5394 TCGA-CS-5396 TCGA-DB-5274 TCGA-DB-A4XA TCGA-DB-A4XH TCGA-DB-A64P 
        0.10         9.96        75.25        18.84        31.63        30.12 
TCGA-DB-A64Q TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A75K TCGA-DH-5141 TCGA-DH-A669 
        5.98        27.81        29.23        12.10        31.82        30.21 
TCGA-DH-A66F TCGA-DH-A7US TCGA-DU-5870 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6397 
       17.19        23.21       182.33        52.11        22.42        46.06 
TCGA-DU-7018 TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7TB TCGA-E1-5318 TCGA-E1-5319 
       30.67        21.30        17.98        51.52        78.21        95.57 
TCGA-E1-A7YS TCGA-FG-5964 TCGA-FG-7634 TCGA-FG-7637 TCGA-FG-8186 TCGA-FG-8187 
       15.32        52.21        15.35        40.08        16.01        20.09 
TCGA-FG-A60K TCGA-FG-A6IZ TCGA-HT-7468 TCGA-HT-7471 TCGA-HT-7602 TCGA-HT-7608 
       17.82        15.02         6.67         0.13        29.85        22.06 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7677 TCGA-HT-7692 TCGA-HT-A4DV TCGA-HT-A615 
        0.23        14.27        16.24         2.96        26.04        16.93 
TCGA-HT-A619 TCGA-HT-A74K TCGA-HT-A74L TCGA-HW-7486 TCGA-HW-7491 TCGA-HW-8322 
       21.40        15.35        11.05        56.58        68.32         6.18 
TCGA-KT-A74X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A737 TCGA-P5-A781 TCGA-QH-A65V 
       14.40        11.64        10.95        12.23         4.41        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       15.85        14.04        14.83        14.53        16.34        16.73 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 
       88.83        94.03        32.65        30.87         5.46        28.08 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6UB TCGA-S9-A6WD 
       41.10        28.14        29.85        32.61       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WP TCGA-S9-A7IY TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
      135.22        18.64        23.51         8.19         2.04        20.68 
TCGA-S9-A7QY TCGA-TM-A7C5 TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84S TCGA-TQ-A7RG 
       28.37        49.32        24.79        33.24        14.93        19.69 
TCGA-TQ-A7RI TCGA-TQ-A7RN TCGA-TQ-A7RU TCGA-VM-A8CE TCGA-VV-A829 TCGA-VW-A7QS 
        2.04        33.73        33.93        39.16        37.05        23.21 

$subtype6
TCGA-CS-6665 TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-A66B TCGA-DH-A7UU TCGA-DU-6392 
       12.43        19.96        63.88        42.05        13.71       211.17 
TCGA-DU-7007 TCGA-DU-7010 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TU TCGA-E1-5304 
       62.96        14.99        33.27        29.85        26.17        41.13 
TCGA-E1-A7YE TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YV TCGA-FG-5963 TCGA-FG-A6J3 
       29.13         3.65        12.43        32.45        25.48        22.26 
TCGA-FG-A87N TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7601 TCGA-HT-7606 TCGA-HT-7686 
       18.64        24.26         6.38         5.03        17.29        42.74 
TCGA-HT-8106 TCGA-HT-8563 TCGA-HT-A618 TCGA-HT-A61B TCGA-IK-7675 TCGA-RY-A83Z 
        0.10        28.27        16.83        17.52        19.00         9.90 
TCGA-S9-A6TV TCGA-S9-A7IS TCGA-S9-A7J0 TCGA-S9-A7R7 TCGA-S9-A89Z TCGA-TM-A84F 
       18.77         7.92        20.02        98.63        20.48        59.05 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84Q TCGA-TQ-A7RM 
       28.08        24.16        25.38        36.69 

$subtype7
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5278 TCGA-DB-A64W TCGA-DU-5849 TCGA-DU-5851 
       49.12         6.61        91.13        14.40        14.56        17.46 
TCGA-DU-7009 TCGA-DU-7300 TCGA-DU-7302 TCGA-DU-7309 TCGA-DU-8164 TCGA-DU-A6S2 
      154.36        62.01        60.30         2.76        21.40        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A7TC TCGA-DU-A7TG TCGA-E1-A7YY TCGA-FG-5962 
       21.57        95.11        37.38        44.42       146.14        47.77 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8181 TCGA-FG-8189 TCGA-FG-A713 TCGA-HT-7467 
       22.55        20.61        28.34        22.52        20.45         0.10 
TCGA-HT-7470 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7603 
       40.11         3.75        17.42        75.19        95.93        23.18 
TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7610 TCGA-HT-7681 TCGA-HT-7688 TCGA-HT-7694 
        4.57         3.16        56.09        44.68        31.69         6.90 
TCGA-HT-7695 TCGA-HT-7856 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7880 
       14.53        39.09        37.15         0.33         0.13         5.33 
TCGA-HT-7881 TCGA-HT-8010 TCGA-HT-8019 TCGA-HT-8107 TCGA-HT-8109 TCGA-HT-8113 
       35.47         1.64        33.01         0.46         5.56        29.59 
TCGA-HT-8558 TCGA-HT-A5R7 TCGA-HT-A5RB TCGA-HT-A616 TCGA-HT-A61A TCGA-HW-7487 
       13.74        20.22         0.10         1.81         6.38        13.45 
TCGA-HW-7489 TCGA-HW-7495 TCGA-HW-8319 TCGA-IK-8125 TCGA-P5-A5F0 TCGA-P5-A5F4 
       41.49        35.44        39.75        42.77         4.11         0.76 
TCGA-P5-A77X TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-RY-A847 TCGA-S9-A6TY TCGA-S9-A6WI 
        3.45         2.20         9.17        30.67        35.38        84.99 
TCGA-S9-A7IQ TCGA-S9-A7QZ TCGA-TM-A7C4 TCGA-TM-A7CF TCGA-TM-A84R TCGA-W9-A837 
       36.13        27.16        48.33        65.39        18.61        51.06 
TCGA-WY-A859 
       39.88 

subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 
    0.03     0.10     0.07     0.10     0.10     0.10     0.10 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 
  145.05   133.74   169.84   172.77   182.33   211.17   154.36 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 
  26.645   14.300   25.170   19.790   21.730   23.210   23.180 
[1] "0.0 - 145.1 (26.6)" "0.1 - 133.7 (14.3)" "0.1 - 169.8 (25.2)"
[4] "0.1 - 172.8 (19.8)" "0.1 - 182.3 (21.7)" "0.1 - 211.2 (23.2)"
[7] "0.1 - 154.4 (23.2)"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 53 81
  subtype2 34 37
  subtype3 22 14
  subtype4 32 36
  subtype5 35 56
  subtype6 19 22
  subtype7 35 39
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   53   81
  subtype2   34   37
  subtype3   22   14
  subtype4   32   36
  subtype5   35   56
  subtype6   19   22
  subtype7   35   39
        clus
vv       subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7
  FEMALE       53       34       22       32       35       19       35
  MALE         81       37       14       36       56       22       39
[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"
D8V4, binary
          cls
clus        0  1
  subtype1 42 83
  subtype2 12 51
  subtype3 20 10
  subtype4 22 42
  subtype5 51 37
  subtype6  5 35
  subtype7 34 36
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   42   83
  subtype2   12   51
  subtype3   20   10
  subtype4   22   42
  subtype5   51   37
  subtype6    5   35
  subtype7   34   36
     clus
vv    subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7
  NO        42       12       20       22       51        5       34
  YES       83       51       10       42       37       35       36
[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"
D8V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1          65               46                23
  subtype2          46               12                13
  subtype3           1                3                32
  subtype4          37               22                 9
  subtype5           3               25                63
  subtype6          33                5                 3
  subtype7           9               17                48
D8V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3 subtype4 subtype5 subtype6
  ASTROCYTOMA             65       46        1       37        3       33
  OLIGOASTROCYTOMA        46       12        3       22       25        5
  OLIGODENDROGLIOMA       23       13       32        9       63        3
                   clus
vv                  subtype7
  ASTROCYTOMA              9
  OLIGOASTROCYTOMA        17
  OLIGODENDROGLIOMA       48
[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       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     0                         6
  subtype2                                1     1                         6
  subtype3                                0     1                         1
  subtype4                                0     1                         3
  subtype5                                0     4                         2
  subtype6                                0     1                         0
  subtype7                                0     0                         3
          vv
clus       WHITE
  subtype1   126
  subtype2    62
  subtype3    31
  subtype4    62
  subtype5    83
  subtype6    40
  subtype7    71
D8V7, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4 subtype5
  AMERICAN INDIAN OR ALASKA NATIVE        0        1        0        0        0
  ASIAN                                   0        1        1        1        4
  BLACK OR AFRICAN AMERICAN               6        6        1        3        2
  WHITE                                 126       62       31       62       83
                                  clus
vv                                 subtype6 subtype7
  AMERICAN INDIAN OR ALASKA NATIVE        0        0
  ASIAN                                   1        0
  BLACK OR AFRICAN AMERICAN               0        3
  WHITE                                  40       71
[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"
D8V8, binary
          cls
clus         0   1
  subtype1   9 112
  subtype2   3  64
  subtype3   3  29
  subtype4   4  58
  subtype5   8  78
  subtype6   2  39
  subtype7   3  69
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    9  112
  subtype2    3   64
  subtype3    3   29
  subtype4    4   58
  subtype5    8   78
  subtype6    2   39
  subtype7    3   69
                        clus
vv                       subtype1 subtype2 subtype3 subtype4 subtype5 subtype6
  HISPANIC OR LATINO            9        3        3        4        8        2
  NOT HISPANIC OR LATINO      112       64       29       58       78       39
                        clus
vv                       subtype7
  HISPANIC OR LATINO            3
  NOT HISPANIC OR LATINO       69
[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 106  30
  subtype2  68  38
  subtype3 147  37
  subtype4  67  15
subtype1 subtype2 subtype3 subtype4 
     136      106      184       82 
subtype1 subtype2 subtype3 subtype4 
      30       38       37       15 
$subtype1
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4944 TCGA-CS-5395 TCGA-CS-6186 
        4.70         7.69        43.89        10.62        21.01        17.69 
TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-DB-5274 TCGA-DB-5276 TCGA-DB-5280 
       17.95        46.95         7.56        75.25        72.92        36.56 
TCGA-DB-A4XA TCGA-DB-A4XD TCGA-DB-A64O TCGA-DB-A64V TCGA-DB-A75O TCGA-DH-5140 
       18.84        39.78        25.48        29.23        30.74        19.96 
TCGA-DH-5141 TCGA-DH-A66F TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5854 TCGA-DU-5855 
       31.82        17.19        18.61        18.02         8.45         6.81 
TCGA-DU-5872 TCGA-DU-6396 TCGA-DU-6407 TCGA-DU-6542 TCGA-DU-7012 TCGA-DU-7014 
       17.49        75.16        94.52         2.40         6.54       117.40 
TCGA-DU-7290 TCGA-DU-7301 TCGA-DU-7306 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8165 
       10.36        25.91        41.98         5.10        23.74        19.13 
TCGA-DU-A5TT TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S7 TCGA-E1-5318 TCGA-E1-5319 
       24.43        24.99        33.96        20.98        78.21        95.57 
TCGA-E1-A7YD TCGA-E1-A7YH TCGA-E1-A7YJ TCGA-E1-A7YN TCGA-E1-A7YQ TCGA-E1-A7Z4 
       14.30        93.21        19.46        23.90        51.88       145.05 
TCGA-FG-6688 TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-8182 TCGA-FG-8188 TCGA-FG-8191 
       18.77        41.33        15.35        13.68        14.96        32.61 
TCGA-FG-A4MT TCGA-FG-A4MY TCGA-FG-A60L TCGA-FG-A70Y TCGA-FG-A87Q TCGA-FN-7833 
       38.27        23.70        21.53        28.54         5.72        27.52 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7479 TCGA-HT-7482 TCGA-HT-7485 TCGA-HT-7601 
        0.03        16.54        40.34       106.95         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7604 TCGA-HT-7606 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7611 
       29.85       122.47        17.29        22.06        45.99        57.60 
TCGA-HT-7680 TCGA-HT-7689 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7858 TCGA-HT-7860 
        0.76        14.96        39.48        19.23        50.63         0.49 
TCGA-HT-8011 TCGA-HT-8013 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8563 TCGA-HT-A4DS 
       16.24        63.55        13.78         0.23        28.27         0.23 
TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74K TCGA-HT-A74O TCGA-HW-7490 TCGA-HW-8320 
       16.14        17.65        15.35         0.10        45.60        40.01 
TCGA-HW-A5KK TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EZ TCGA-P5-A5F1 TCGA-P5-A5F6 
       12.76         0.23         6.71         2.30         5.88         1.28 
TCGA-P5-A72W TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A735 TCGA-P5-A736 TCGA-QH-A65S 
       10.42        11.64        10.95         9.60         7.56         2.53 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6X3 TCGA-QH-A870 TCGA-RY-A83X 
       19.33        14.83        14.53        10.29        12.99        30.87 
TCGA-RY-A840 TCGA-S9-A6TU TCGA-S9-A6TX TCGA-S9-A6U5 TCGA-S9-A6U8 TCGA-S9-A6U9 
       28.08        87.12        28.14        32.61        98.24        95.93 
TCGA-S9-A6WD TCGA-S9-A6WM TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IY TCGA-S9-A7QX 
       75.25        19.86        18.61        14.07        23.51        18.54 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R8 TCGA-TM-A84B TCGA-TM-A84S TCGA-TM-A84T 
       10.39        99.06        31.59        24.92        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RP TCGA-VM-A8CF TCGA-VV-A829 
       21.37        44.09        36.69        30.05        20.02        37.05 
TCGA-VV-A86M TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A85D 
       16.01        13.32        43.96        37.71 

$subtype2
TCGA-CS-4943 TCGA-CS-6188 TCGA-CS-6665 TCGA-DB-5273 TCGA-DB-A4XE TCGA-DB-A4XF 
       18.15        23.84        12.43        81.96        37.45        33.57 
TCGA-DB-A64S TCGA-DB-A64X TCGA-DH-5142 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66G 
       27.45        18.51        63.88        42.05        27.81        17.19 
TCGA-DH-A7UU TCGA-DU-6392 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6404 
       13.71       211.17        65.75        87.45         7.04       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6408 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7013 
       19.89        16.83       114.08        11.47        62.96         8.84 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TU TCGA-DU-A76L TCGA-DU-A7T8 TCGA-DU-A7TD 
       33.27        29.85        26.17        26.76       139.04         7.50 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5322 TCGA-E1-A7YI 
        0.56        50.14        67.46        41.13       130.78         3.65 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YV TCGA-E1-A7YW TCGA-FG-5963 TCGA-FG-6692 
       12.43        16.18        32.45        36.82        25.48        18.44 
TCGA-FG-7636 TCGA-FG-8185 TCGA-FG-A4MU TCGA-FG-A4MX TCGA-FG-A60J TCGA-FG-A6J3 
       17.88        14.24        10.72        18.71        14.76        22.26 
TCGA-FG-A70Z TCGA-FG-A87N TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7477 TCGA-HT-7478 
       10.78        18.64         6.67        11.54        24.26         6.38 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7857 
        6.05        42.74         0.10         0.10        17.52         0.23 
TCGA-HT-7873 TCGA-HT-7879 TCGA-HT-7882 TCGA-HT-8106 TCGA-HT-8114 TCGA-HT-A5RA 
       23.61         3.68         3.72         0.10        34.19        27.35 
TCGA-HT-A5RC TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61B TCGA-HW-A5KL TCGA-HW-A5KM 
        5.33        16.83        21.40        17.52        20.81        20.71 
TCGA-IK-7675 TCGA-KT-A7W1 TCGA-P5-A5EX TCGA-P5-A72U TCGA-QH-A6CX TCGA-RY-A845 
       19.00        14.40         7.99         0.23        12.23        19.59 
TCGA-S9-A6TV TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6UA TCGA-S9-A6WG 
       18.77        36.82        24.39        25.81         5.85        85.55 
TCGA-S9-A6WN TCGA-S9-A7IS TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A89V TCGA-S9-A89Z 
       26.47         7.92        30.05        98.63        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A84C TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84O 
       54.77        16.18        28.08        24.16        40.83        33.24 
TCGA-TM-A84Q TCGA-TQ-A7RH TCGA-TQ-A7RW TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CH 
       25.38        15.98        26.99        43.04        43.20        23.47 
TCGA-VW-A8FI TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85E 
        8.05        45.80        46.88        20.81 

$subtype3
TCGA-CS-5390 TCGA-CS-5393 TCGA-CS-5397 TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 
       64.64        40.18         6.38        49.12         6.61       122.73 
TCGA-DB-5278 TCGA-DB-5281 TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XG TCGA-DB-A4XH 
       91.13        78.28        30.21        46.72        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64R TCGA-DB-A64U TCGA-DB-A64W TCGA-DB-A75L TCGA-DB-A75P 
       24.20        31.40        27.81        14.40        11.24        16.18 
TCGA-DH-5143 TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DU-5849 TCGA-DU-5851 
       46.06        54.25        23.21        17.46        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5871 TCGA-DU-6393 TCGA-DU-6403 TCGA-DU-6410 
        6.74        13.38        18.94        52.11        11.64         7.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7019 TCGA-DU-7292 TCGA-DU-7298 
      156.23       154.36        14.99        26.30         7.96        18.94 
TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7309 TCGA-DU-8162 
       44.02        62.01        60.30        23.31         2.76        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-A5TS TCGA-DU-A6S2 
       20.68        21.40        16.96        15.48        31.69        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76O TCGA-DU-A7T6 
       21.57        95.11        22.29        11.41        17.16        17.98 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TG TCGA-DU-A7TI TCGA-E1-5305 TCGA-E1-5307 
       51.52        37.38        44.42        38.89        79.99        57.93 
TCGA-E1-5311 TCGA-E1-A7YM TCGA-E1-A7YU TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
      134.27        21.30         0.76       146.14        13.08        73.48 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-7638 
        0.20        47.77        52.21        36.82        14.93        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8189 
       20.61        20.09        28.34        16.01        20.09        22.52 
TCGA-FG-A4MW TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-HT-7467 TCGA-HT-7470 
       18.38        36.66        48.69        20.45         0.10        40.11 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7603 
        3.75        17.42         6.54        75.19        95.93        23.18 
TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7610 TCGA-HT-7620 TCGA-HT-7681 TCGA-HT-7687 
        4.57         3.16        56.09        14.27        44.68         0.10 
TCGA-HT-7688 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7856 TCGA-HT-7874 TCGA-HT-7875 
       31.69         6.90        14.53        39.09        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        0.13         5.33        35.47        11.28        31.43         1.64 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8107 
        0.10        37.87        33.01        12.23         6.25         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-8564 TCGA-HT-A4DV 
        2.50         5.56        29.59        13.74        15.72        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
        0.13        20.22         0.10         2.70        16.93         1.81 
TCGA-HT-A61A TCGA-HT-A74H TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7493 
        6.38         2.43        56.58        13.45        41.49        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8321 TCGA-IK-8125 TCGA-P5-A5EY TCGA-P5-A5F0 
       35.44        39.75        42.54        42.77         2.37         4.11 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72X TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A77X 
        7.63         0.76        13.25         9.01        13.61         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65V TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X4 
        2.37         4.41        12.62         2.20         9.17        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-R8-A6MK TCGA-RY-A843 
       16.34         1.91        16.50         5.03        88.83         2.07 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TY TCGA-S9-A6U6 TCGA-S9-A6WI TCGA-S9-A6WL 
       30.67        62.17        35.38        35.15        84.99        31.10 
TCGA-S9-A6WP TCGA-S9-A7IQ TCGA-S9-A7IX TCGA-S9-A7IZ TCGA-S9-A7J3 TCGA-S9-A7QW 
       18.64        36.13        26.93        19.99        20.68        15.06 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84F 
       28.37        27.16        48.33        34.78        65.39        59.05 
TCGA-TM-A84R TCGA-TQ-A7RJ TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RV TCGA-VM-A8CA 
       18.61        40.41        26.14        25.87        61.41        13.51 
TCGA-VM-A8CD TCGA-W9-A837 TCGA-WY-A859 TCGA-WY-A85A 
        7.89        51.06        39.88        43.40 

$subtype4
TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-6668 TCGA-DB-5275 TCGA-DB-5277 TCGA-DB-5279 
        0.10         9.96        49.94        47.93        50.86        44.52 
TCGA-DB-A4X9 TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A75K TCGA-DH-5144 TCGA-DH-A669 
       46.42        30.12         5.98        12.10         8.02        30.21 
TCGA-DU-5870 TCGA-DU-5874 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6397 TCGA-DU-6400 
      182.33        15.16        22.42        49.02        46.06         1.22 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7294 TCGA-DU-8168 TCGA-DU-A76R TCGA-DU-A7TA 
       90.77        30.67        94.32        14.17        21.30        84.33 
TCGA-E1-A7YE TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       29.13        75.02        15.32        32.35        39.48         0.23 
TCGA-FG-6690 TCGA-FG-7637 TCGA-FG-A60K TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-HT-7471 
       42.54        40.08        17.82        15.02        16.44         0.13 
TCGA-HT-7483 TCGA-HT-7616 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7692 TCGA-HT-8012 
      172.77         0.23         0.16        16.24         2.96         9.40 
TCGA-HT-A5R9 TCGA-HT-A74L TCGA-HW-7491 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-KT-A74X 
        0.07        11.05        68.32         6.18        10.55        14.40 
TCGA-P5-A737 TCGA-P5-A77W TCGA-QH-A65R TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6X8 
       12.23        19.20        15.16        15.85        14.04        16.73 
TCGA-QH-A86X TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83Y TCGA-RY-A83Z 
       11.08        94.03        32.65        59.38         5.46         9.90 
TCGA-S9-A6TW TCGA-S9-A6U2 TCGA-S9-A6UB TCGA-S9-A6WE TCGA-S9-A6WH TCGA-S9-A7J0 
       41.10        29.85       123.65       135.22        38.56        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7R1 TCGA-TM-A7C5 TCGA-TM-A84G TCGA-TM-A84H 
        8.19         2.04       169.84        49.32        40.64        30.44 
TCGA-TM-A84M TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RU 
       24.79        19.69         2.04        33.73        31.20        33.93 
TCGA-TQ-A8XE TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VW-A7QS 
       31.36         0.10        39.16        23.21 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.10     0.10     0.07 
subtype1 subtype2 subtype3 subtype4 
  145.05   211.17   156.23   182.33 
subtype1 subtype2 subtype3 subtype4 
  19.990   20.810   20.990   22.815 
[1] "0.0 - 145.1 (20.0)" "0.1 - 211.2 (20.8)" "0.1 - 156.2 (21.0)"
[4] "0.1 - 182.3 (22.8)"
D9V2, continuous
D9V3, binary
          cls
clus        0  1
  subtype1 59 78
  subtype2 44 62
  subtype3 89 96
  subtype4 38 45
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   59   78
  subtype2   44   62
  subtype3   89   96
  subtype4   38   45
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       59       44       89       38
  MALE         78       62       96       45
[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"
D9V4, binary
          cls
clus        0  1
  subtype1 44 81
  subtype2 27 76
  subtype3 73 99
  subtype4 40 36
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   44   81
  subtype2   27   76
  subtype3   73   99
  subtype4   40   36
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        44       27       73       40
  YES       81       76       99       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"
D9V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1          69               36                32
  subtype2          65               22                19
  subtype3          54               50                81
  subtype4           5               19                59
D9V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3 subtype4
  ASTROCYTOMA             69       65       54        5
  OLIGOASTROCYTOMA        36       22       50       19
  OLIGODENDROGLIOMA       32       19       81       59
[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       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     1                        10
  subtype2                                0     2                         3
  subtype3                                0     2                         6
  subtype4                                0     3                         2
          vv
clus       WHITE
  subtype1   122
  subtype2   100
  subtype3   174
  subtype4    75
D9V7, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE        1        0        0        0
  ASIAN                                   1        2        2        3
  BLACK OR AFRICAN AMERICAN              10        3        6        2
  WHITE                                 122      100      174       75
[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"
D9V8, binary
          cls
clus         0   1
  subtype1   8 119
  subtype2   4  93
  subtype3  12 165
  subtype4   8  68
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8  119
  subtype2    4   93
  subtype3   12  165
  subtype4    8   68
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            8        4       12        8
  NOT HISPANIC OR LATINO      119       93      165       68
[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(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1 180  40
  subtype2 150  35
  subtype3  58  45
subtype1 subtype2 subtype3 
     220      185      103 
subtype1 subtype2 subtype3 
      40       35       45 
$subtype1
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5390 
        4.70         7.69        43.89        18.15        10.62        64.64 
TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-6186 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        0.10         9.96        17.69        17.95        46.95         7.56 
TCGA-CS-6668 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
       49.94        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5280 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE 
       36.56        46.42        18.84        30.21        39.78        37.45 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A75K 
       30.12         5.98        27.45        27.81        29.23        12.10 
TCGA-DB-A75O TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5144 TCGA-DH-A669 
       30.74        19.96        31.82        63.88         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A7UT TCGA-DH-A7UV TCGA-DU-5855 
       42.05        27.81        17.19        17.46        18.61         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
      182.33        18.94        17.49        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-7014 
       46.06        65.75        87.45        94.52       114.08       117.40 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7306 
       90.77        30.67        94.32        44.02        25.91        41.98 
TCGA-DU-8163 TCGA-DU-A5TW TCGA-DU-A6S7 TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TA 
       20.68        24.99        20.98        21.30       139.04        84.33 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       50.14        67.46        41.13        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YW TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       14.30        29.13        93.21        36.82       145.05        32.35 
TCGA-EZ-7264 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-7637 TCGA-FG-8182 
       39.48        42.54        41.33        15.35        40.08        13.68 
TCGA-FG-8185 TCGA-FG-8188 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A4MY 
       14.24        14.96        32.61        38.27        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A70Y TCGA-FN-7833 
       14.76        17.82        21.53        15.02        28.54        27.52 
TCGA-HT-7468 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7479 TCGA-HT-7482 
        6.67         0.13         0.03        16.54        40.34       106.95 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7604 TCGA-HT-7606 TCGA-HT-7608 
        4.01         5.03        29.85       122.47        17.29        22.06 
TCGA-HT-7609 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       45.99        57.60         0.23         0.16        16.24         0.76 
TCGA-HT-7684 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7855 
        6.05        14.96         0.10         2.96        17.52        19.23 
TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7879 TCGA-HT-8013 TCGA-HT-8111 TCGA-HT-8114 
       50.63        23.61         3.68        63.55         0.23        34.19 
TCGA-HT-8563 TCGA-HT-A614 TCGA-HT-A619 TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       28.27         2.70        21.40        15.35        11.05         0.10 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-8320 TCGA-HW-8322 TCGA-HW-A5KL TCGA-KT-A74X 
       45.60        68.32        40.01         6.18        20.81        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EZ TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F6 
        0.23         6.71         2.30         5.88         7.63         1.28 
TCGA-P5-A72W TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A735 TCGA-P5-A736 
       10.42        11.64        10.95         9.01         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A780 TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65Z 
       12.23        19.20         2.37         2.53        12.62        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6X3 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A86X 
       19.33        14.83        10.29        16.34        16.73        11.08 
TCGA-QH-A870 TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 
       12.99        94.03        32.65        30.87         5.46        28.08 
TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TZ TCGA-S9-A6U1 
       30.67        87.12        41.10        28.14        36.82        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UB TCGA-S9-A6WD 
       29.85        32.61        98.24        95.93       123.65        75.25 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IY TCGA-S9-A7J1 TCGA-S9-A7J2 
       18.61        18.64        14.07        23.51         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QX TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-TM-A84B TCGA-TM-A84G 
       20.68        18.54        99.06        30.05        24.92        40.64 
TCGA-TM-A84H TCGA-TM-A84L TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84S TCGA-TM-A84T 
       30.44        40.83        33.24        25.38        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RK TCGA-TQ-A7RM 
       21.37        19.69        15.98         2.04        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RP TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-VM-A8C8 
       33.73        30.05        25.87        33.93        26.99        43.04 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A85B TCGA-WY-A85D 
       13.32        43.96        45.80        37.71 

$subtype2
TCGA-CS-5393 TCGA-CS-5397 TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5278 
       40.18         6.38        49.12         6.61       122.73        91.13 
TCGA-DB-5279 TCGA-DB-5281 TCGA-DB-A4XC TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       44.52        78.28        46.72        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64R TCGA-DB-A64W TCGA-DB-A75L TCGA-DB-A75P TCGA-DH-5143 
       24.20        31.40        14.40        11.24        16.18        46.06 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5853 
       17.19        54.25        23.21        14.56        17.46        13.38 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6400 TCGA-DU-6410 TCGA-DU-7008 TCGA-DU-7009 
       15.16        52.11         1.22         7.96       156.23       154.36 
TCGA-DU-7019 TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-7300 TCGA-DU-7302 TCGA-DU-7304 
       26.30         7.96        18.94        62.01        60.30        23.31 
TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8168 TCGA-DU-A5TS 
        2.76        14.60        21.40        16.96        14.17        31.69 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76O TCGA-DU-A7T6 
       25.55        21.57        95.11        22.29        17.16        17.98 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TG TCGA-DU-A7TI TCGA-E1-5305 TCGA-E1-5307 
       51.52        37.38        44.42        38.89        79.99        57.93 
TCGA-E1-5311 TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YY 
      134.27        21.30        75.02        15.32         0.76       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5964 
       13.08        73.48         0.23         0.20        47.77        52.21 
TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       36.82        14.93        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8189 TCGA-FG-A6J1 TCGA-FG-A710 
       28.34        16.01        20.09        22.52        16.44        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-HT-7467 TCGA-HT-7470 TCGA-HT-7474 TCGA-HT-7475 
       48.69        20.45         0.10        40.11         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7483 TCGA-HT-7603 
        6.54        24.26        75.19        95.93       172.77        23.18 
TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7610 TCGA-HT-7620 TCGA-HT-7681 TCGA-HT-7687 
        4.57         3.16        56.09        14.27        44.68         0.10 
TCGA-HT-7688 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7856 TCGA-HT-7874 TCGA-HT-7875 
       31.69         6.90        14.53        39.09        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        0.13         5.33        35.47        11.28        31.43         1.64 
TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8107 
        9.40         0.10        37.87        33.01         6.25         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-A4DV TCGA-HT-A5R5 
        2.50         5.56        29.59        13.74        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RB TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A618 
       20.22         0.07         0.10        16.93         1.81        16.83 
TCGA-HT-A61A TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7493 TCGA-HW-7495 
        6.38        56.58        13.45        41.49        69.27        35.44 
TCGA-HW-8319 TCGA-HW-A5KJ TCGA-IK-8125 TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F4 
       39.75        10.55        42.77         2.37         4.11         0.76 
TCGA-P5-A72X TCGA-P5-A733 TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65X 
       13.25        13.61         3.45         4.41        15.16        15.85 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X4 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-R8-A73M 
        2.20         9.17        14.53         1.91        16.50        59.38 
TCGA-RY-A843 TCGA-RY-A845 TCGA-S9-A6TS TCGA-S9-A6TY TCGA-S9-A6U6 TCGA-S9-A6WE 
        2.07        19.59        62.17        35.38        35.15       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A7IQ TCGA-S9-A7IX 
       85.55        38.56        84.99        31.10        36.13        26.93 
TCGA-S9-A7IZ TCGA-S9-A7QW TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-TM-A7C4 
       19.99        15.06        28.37        27.16       169.84        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84F TCGA-TM-A84M TCGA-TM-A84R 
       49.32        34.78        65.39        59.05        24.79        18.61 
TCGA-TQ-A7RJ TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-TQ-A7RV TCGA-TQ-A8XE TCGA-VM-A8CA 
       40.41        31.20        26.14        61.41        31.36        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-W9-A837 TCGA-WY-A859 TCGA-WY-A85A 
        0.10         7.89        51.06        39.88        43.40 

$subtype3
TCGA-CS-5395 TCGA-CS-6188 TCGA-CS-6665 TCGA-DB-A64O TCGA-DB-A64X TCGA-DH-A7UU 
       21.01        23.84        12.43        25.48        18.51        13.71 
TCGA-DU-5847 TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-6392 TCGA-DU-6402 TCGA-DU-6403 
       18.02         6.74         8.45       211.17         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
      133.74        19.89        16.83         2.40        11.47        62.96 
TCGA-DU-7010 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7290 TCGA-DU-8158 TCGA-DU-8161 
       14.99         6.54         8.84        10.36         5.10        23.74 
TCGA-DU-8165 TCGA-DU-8167 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU 
       19.13        15.48        33.27        29.85        24.43        26.17 
TCGA-DU-A5TY TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A7TD TCGA-DU-A7TJ TCGA-E1-A7YI 
       33.96        11.41        26.76         7.50         0.56         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YN TCGA-E1-A7YQ TCGA-E1-A7YV 
       19.46        12.43        16.18        23.90        51.88        32.45 
TCGA-FG-5963 TCGA-FG-6688 TCGA-FG-6692 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A6J3 
       25.48        18.77        18.44        10.72        18.38        22.26 
TCGA-FG-A70Z TCGA-FG-A87N TCGA-FG-A87Q TCGA-HT-7469 TCGA-HT-7478 TCGA-HT-7686 
       10.78        18.64         5.72        11.54         6.38        42.74 
TCGA-HT-7691 TCGA-HT-7854 TCGA-HT-7857 TCGA-HT-7860 TCGA-HT-7882 TCGA-HT-8011 
        0.10        39.48         0.23         0.49         3.72        16.24 
TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8110 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A5RA 
       12.23         0.10        13.78        15.72         0.23        27.35 
TCGA-HT-A5RC TCGA-HT-A617 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HW-8321 
        5.33        16.14        17.52        17.65         2.43        42.54 
TCGA-HW-A5KK TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A7W1 TCGA-P5-A5EX TCGA-P5-A72U 
       12.76        20.71        19.00        14.40         7.99         0.23 
TCGA-QH-A6CV TCGA-QH-A6CX TCGA-QH-A6XC TCGA-R8-A6MK TCGA-RY-A83Z TCGA-S9-A6TV 
       14.53        12.23         5.03        88.83         9.90        18.77 
TCGA-S9-A6U0 TCGA-S9-A6UA TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A7IS TCGA-S9-A7J0 
       24.39         5.85        19.86        26.47         7.92        20.02 
TCGA-S9-A7R2 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       10.39        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A84C TCGA-TM-A84I TCGA-TM-A84J TCGA-VM-A8C9 TCGA-VW-A8FI TCGA-WY-A85C 
       16.18        28.08        24.16        43.20         8.05        46.88 
TCGA-WY-A85E 
       20.81 

subtype1 subtype2 subtype3 
    0.03     0.07     0.10 
subtype1 subtype2 subtype3 
  182.33   172.77   211.17 
subtype1 subtype2 subtype3 
  24.955   22.550   16.830 
[1] "0.0 - 182.3 (25.0)" "0.1 - 172.8 (22.6)" "0.1 - 211.2 (16.8)"
D10V2, continuous
D10V3, binary
          cls
clus         0   1
  subtype1  91 131
  subtype2  90  96
  subtype3  49  54
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   91  131
  subtype2   90   96
  subtype3   49   54
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       91       90       49
  MALE        131       96       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"
D10V4, binary
          cls
clus         0   1
  subtype1  91 118
  subtype2  76  96
  subtype3  17  78
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   91  118
  subtype2   76   96
  subtype3   17   78
     clus
vv    subtype1 subtype2 subtype3
  NO        91       76       17
  YES      118       96       78
[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"
D10V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1          76               67                79
  subtype2          48               44                94
  subtype3          69               16                18
D10V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3
  ASTROCYTOMA             76       48       69
  OLIGOASTROCYTOMA        67       44       16
  OLIGODENDROGLIOMA       79       94       18
[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       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     3                         7
  subtype2                                0     3                         8
  subtype3                                1     2                         6
          vv
clus       WHITE
  subtype1   208
  subtype2   170
  subtype3    93
D10V7, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE        0        0        1
  ASIAN                                   3        3        2
  BLACK OR AFRICAN AMERICAN               7        8        6
  WHITE                                 208      170       93
[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"
D10V8, binary
          cls
clus         0   1
  subtype1  17 188
  subtype2  12 164
  subtype3   3  93
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   17  188
  subtype2   12  164
  subtype3    3   93
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO           17       12        3
  NOT HISPANIC OR LATINO      188      164       93
[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(11) Variable = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2        0   1
  subtype1 124  61
  subtype2 135  24
  subtype3 125  35
subtype1 subtype2 subtype3 
     185      159      160 
subtype1 subtype2 subtype3 
      61       24       35 
$subtype1
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4944 TCGA-CS-5395 TCGA-CS-6186 TCGA-CS-6188 
        4.70         7.69        10.62        21.01        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-DB-5273 TCGA-DB-5276 TCGA-DB-5279 
       17.95        46.95         7.56        81.96        72.92        44.52 
TCGA-DB-A64O TCGA-DB-A75O TCGA-DU-5847 TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-5855 
       25.48        30.74        18.02         6.74         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
      182.33        18.94        17.49        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       46.06        65.75        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6542 TCGA-DU-7006 
       19.89        16.83        94.52       114.08         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7290 TCGA-DU-7301 
       62.96         6.54         8.84       117.40        10.36        25.91 
TCGA-DU-7306 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8163 TCGA-DU-8165 TCGA-DU-8167 
       41.98         5.10        23.74        20.68        19.13        15.48 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TY TCGA-DU-A6S7 TCGA-DU-A76L 
       33.27        29.85        24.43        33.96        20.98        26.76 
TCGA-DU-A7TD TCGA-DU-A7TJ TCGA-E1-5319 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YJ 
        7.50         0.56        95.57        14.30        29.13        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YN TCGA-E1-A7YQ TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       12.43        16.18        23.90        51.88       145.05        32.35 
TCGA-FG-5963 TCGA-FG-6688 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       25.48        18.77        42.54        41.33        18.44        15.35 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8188 TCGA-FG-8191 TCGA-FG-A4MU TCGA-FG-A87N 
       13.68        14.24        14.96        32.61        10.72        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7469 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        5.72        27.52        11.54         0.13         0.03        16.54 
TCGA-HT-7479 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       40.34       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7604 TCGA-HT-7606 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7611 TCGA-HT-7616 
      122.47        17.29        22.06        45.99        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7684 TCGA-HT-7686 
       14.27         0.16        16.24         0.76         6.05        42.74 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7854 
       14.96         0.10         0.10         2.96        17.52        39.48 
TCGA-HT-7855 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7879 
       19.23         0.23        50.63         0.49        23.61         3.68 
TCGA-HT-7882 TCGA-HT-8011 TCGA-HT-8013 TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8110 
        3.72        16.24        63.55        12.23         0.10        13.78 
TCGA-HT-8111 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A5RA TCGA-HT-A5RC 
        0.23        34.19        28.27         0.23        27.35         5.33 
TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74K TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7490 
       16.14        17.65        15.35         0.10        56.58        45.60 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-A5KK TCGA-IK-7675 TCGA-KT-A7W1 TCGA-P5-A5EX 
       40.01        42.54        12.76        19.00        14.40         7.99 
TCGA-P5-A5F1 TCGA-P5-A72U TCGA-P5-A72X TCGA-P5-A730 TCGA-P5-A780 TCGA-QH-A6CS 
        5.88         0.23        13.25        10.95         2.37        19.33 
TCGA-QH-A6CV TCGA-QH-A6CX TCGA-QH-A6X3 TCGA-QH-A870 TCGA-RY-A83Z TCGA-RY-A840 
       14.53        12.23        10.29        12.99         9.90        28.08 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U5 
       87.12        18.77        41.10        36.82        24.39        32.61 
TCGA-S9-A6UA TCGA-S9-A6WG TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A7R2 TCGA-S9-A7R3 
        5.85        85.55        19.86        26.47        10.39        99.06 
TCGA-S9-A7R7 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A84B TCGA-TM-A84C 
       98.63        18.71        20.48        54.77        24.92        16.18 
TCGA-TM-A84I TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84S TCGA-TQ-A7RF TCGA-TQ-A7RP 
       28.08        33.24        25.38        14.93        21.37        30.05 
TCGA-TQ-A7RW TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CD TCGA-VM-A8CF TCGA-VV-A829 
       26.99        43.04        43.20         7.89        20.02        37.05 
TCGA-VW-A8FI TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A85B TCGA-WY-A85D 
        8.05        13.32        43.96        45.80        37.71 

$subtype2
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-5390 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-6668 
       43.89        18.15        64.64         0.10         9.96        49.94 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5277 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       75.25        47.93        50.86        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       30.21        46.72        39.78        37.45        33.57        72.95 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 
       18.51        12.10        19.96        31.82        63.88        46.06 
TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A7US 
        8.02        30.21        42.05        27.81        17.19        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-6393 TCGA-DU-7008 TCGA-DU-7015 
       17.46        13.71        18.61        52.11       156.23        90.77 
TCGA-DU-7018 TCGA-DU-7299 TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S8 
       30.67        44.02        31.69        26.17        24.99        22.29 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
      139.04        84.33        50.14        67.46        41.13        79.99 
TCGA-E1-5318 TCGA-E1-5322 TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YO TCGA-E1-A7YS 
       78.21       130.78        93.21         3.65        75.02        15.32 
TCGA-E1-A7YW TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-FG-7637 TCGA-FG-A4MT TCGA-FG-A4MX 
       36.82        39.48         0.23        40.08        38.27        18.71 
TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       23.70        14.76        17.82        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A710 TCGA-HT-7468 TCGA-HT-7477 TCGA-HT-A5R5 
       22.26        28.54        36.66         6.67        24.26         0.13 
TCGA-HT-A5R9 TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A619 TCGA-HT-A61B 
        0.07         0.10         2.70        16.93        21.40        17.52 
TCGA-HT-A74L TCGA-HW-7491 TCGA-HW-A5KJ TCGA-HW-A5KL TCGA-HW-A5KM TCGA-KT-A74X 
       11.05        68.32        10.55        20.81        20.71        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EZ TCGA-P5-A5F2 TCGA-P5-A72W TCGA-P5-A72Z 
        0.23         6.71         2.30         7.63        10.42        11.64 
TCGA-P5-A735 TCGA-P5-A737 TCGA-P5-A77W TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        9.60        12.23        19.20        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       15.85        14.04        14.83        14.53        16.34        16.73 
TCGA-QH-A86X TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       11.08        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A843 TCGA-S9-A6TX TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U8 
        5.46         2.07        28.14        25.81        29.85        98.24 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WH TCGA-S9-A6WO TCGA-S9-A6WP 
      123.65        75.25       135.22        38.56        18.61        18.64 
TCGA-S9-A7IY TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       23.51        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7R1 TCGA-S9-A7R4 TCGA-S9-A7R8 TCGA-TM-A7C5 TCGA-TM-A84G 
       18.54       169.84        30.05        31.59        49.32        40.64 
TCGA-TM-A84H TCGA-TM-A84M TCGA-TM-A84T TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       30.44        24.79        23.80        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ 
       40.41        44.09        36.69        33.73        31.20        26.14 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A8XE TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VM-A8CH 
       33.93        61.41        31.36         0.10        39.16        23.47 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-WY-A85C 
       16.01        23.21        46.88 

$subtype3
TCGA-CS-5393 TCGA-CS-5397 TCGA-CS-6665 TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 
       40.18         6.38        12.43        49.12         6.61       122.73 
TCGA-DB-5278 TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64W TCGA-DB-A75L TCGA-DB-A75P 
       91.13        31.63        24.20        14.40        11.24        16.18 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5853 TCGA-DU-5874 
       17.19        54.25        14.56        17.46        13.38        15.16 
TCGA-DU-6392 TCGA-DU-6400 TCGA-DU-6410 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7019 
      211.17         1.22         7.96       154.36        14.99        26.30 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7300 TCGA-DU-7302 TCGA-DU-7304 
        7.96        94.32        18.94        62.01        60.30        23.31 
TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8168 TCGA-DU-A6S2 
        2.76        14.60        21.40        16.96        14.17        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A76K TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       21.57        95.11        11.41        17.16        21.30        17.98 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TG TCGA-DU-A7TI TCGA-E1-5307 TCGA-E1-5311 
       51.52        37.38        44.42        38.89        57.93       134.27 
TCGA-E1-A7YM TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
       21.30         0.76        32.45       146.14        13.08        73.48 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-7636 
        0.20        47.77        52.21        36.82        14.93        17.88 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8186 TCGA-FG-8187 
       22.55        20.61        20.09        28.34        16.01        20.09 
TCGA-FG-8189 TCGA-FG-A4MW TCGA-FG-A70Z TCGA-FG-A711 TCGA-FG-A713 TCGA-HT-7467 
       22.52        18.38        10.78        48.69        20.45         0.10 
TCGA-HT-7470 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7480 
       40.11         3.75        17.42         6.54         6.38        75.19 
TCGA-HT-7481 TCGA-HT-7603 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7610 TCGA-HT-7681 
       95.93        23.18         4.57         3.16        56.09        44.68 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7856 TCGA-HT-7874 
        0.10        31.69         6.90        14.53        39.09        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 TCGA-HT-7902 
        0.33         0.13         5.33        35.47        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8105 
        1.64         9.40         0.10        37.87        33.01         6.25 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-8564 
        0.46         2.50         5.56        29.59        13.74        15.72 
TCGA-HT-A4DV TCGA-HT-A5R7 TCGA-HT-A616 TCGA-HT-A618 TCGA-HT-A61A TCGA-HT-A74H 
       26.04        20.22         1.81        16.83         6.38         2.43 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8322 
       13.45        41.49        69.27        35.44        39.75         6.18 
TCGA-IK-8125 TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F4 TCGA-P5-A731 TCGA-P5-A733 
       42.77         2.37         4.11         0.76         9.01        13.61 
TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X9 TCGA-QH-A6XA 
        3.45         4.41         2.20         9.17         1.91        16.50 
TCGA-QH-A6XC TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TY TCGA-S9-A6U6 
        5.03        19.59        30.67        62.17        35.38        35.15 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       84.99        31.10        14.07        36.13         7.92        26.93 
TCGA-S9-A7IZ TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF 
       19.99        28.37        27.16        48.33        34.78        65.39 
TCGA-TM-A84F TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84R TCGA-TQ-A7RR TCGA-VM-A8CA 
       59.05        24.16        40.83        18.61        25.87        13.51 
TCGA-W9-A837 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85E 
       51.06        39.88        43.40        20.81 

subtype1 subtype2 subtype3 
    0.03     0.07     0.10 
subtype1 subtype2 subtype3 
  182.33   169.84   211.17 
subtype1 subtype2 subtype3 
  19.130   24.990   20.155 
[1] "0.0 - 182.3 (19.1)" "0.1 - 169.8 (25.0)" "0.1 - 211.2 (20.2)"
D11V2, continuous
D11V3, binary
          cls
clus         0   1
  subtype1  70 115
  subtype2  76  85
  subtype3  83  78
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   70  115
  subtype2   76   85
  subtype3   83   78
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       70       76       83
  MALE        115       85       78
[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"
D11V4, binary
          cls
clus         0   1
  subtype1  45 126
  subtype2  72  78
  subtype3  66  86
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   45  126
  subtype2   72   78
  subtype3   66   86
     clus
vv    subtype1 subtype2 subtype3
  NO        45       72       66
  YES      126       78       86
[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"
D11V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1          95               43                47
  subtype2          50               41                70
  subtype3          46               42                73
D11V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3
  ASTROCYTOMA             95       50       46
  OLIGOASTROCYTOMA        43       41       42
  OLIGODENDROGLIOMA       47       70       73
[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       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     2                         9
  subtype2                                0     4                         6
  subtype3                                0     2                         6
          vv
clus       WHITE
  subtype1   169
  subtype2   147
  subtype3   151
D11V7, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE        1        0        0
  ASIAN                                   2        4        2
  BLACK OR AFRICAN AMERICAN               9        6        6
  WHITE                                 169      147      151
[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"
D11V8, binary
          cls
clus         0   1
  subtype1   6 165
  subtype2  20 128
  subtype3   6 148
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  165
  subtype2   20  128
  subtype3    6  148
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            6       20        6
  NOT HISPANIC OR LATINO      165      128      148
[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  75  14
  subtype2 115  22
  subtype3 152  37
  subtype4  42  47
subtype1 subtype2 subtype3 subtype4 
      89      137      189       89 
subtype1 subtype2 subtype3 subtype4 
      14       22       37       47 
$subtype1
TCGA-CS-4938 TCGA-CS-4944 TCGA-CS-6186 TCGA-CS-6666 TCGA-CS-6667 TCGA-DB-A4XD 
        4.70        10.62        17.69        46.95         7.56        39.78 
TCGA-DB-A64S TCGA-DB-A75O TCGA-DH-A7UV TCGA-DU-6396 TCGA-DU-6542 TCGA-DU-7014 
       27.45        30.74        18.61        75.16         2.40       117.40 
TCGA-DU-7015 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7306 TCGA-DU-A5TW TCGA-DU-A6S7 
       90.77        44.02        25.91        41.98        24.99        20.98 
TCGA-DU-A7TA TCGA-E1-5303 TCGA-E1-A7YD TCGA-E1-A7YW TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       84.33        67.46        14.30        36.82       145.05        32.35 
TCGA-FG-6691 TCGA-FG-8185 TCGA-FG-8188 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MY 
       41.33        14.24        14.96        32.61        38.27        23.70 
TCGA-FN-7833 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7479 TCGA-HT-7482 TCGA-HT-7485 
       27.52         0.03        16.54        40.34       106.95         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7604 TCGA-HT-7606 TCGA-HT-7609 TCGA-HT-7611 
        5.03        29.85       122.47        17.29        45.99        57.60 
TCGA-HT-7680 TCGA-HT-7684 TCGA-HT-7689 TCGA-HT-7693 TCGA-HT-7855 TCGA-HT-7858 
        0.76         6.05        14.96        17.52        19.23        50.63 
TCGA-HT-7873 TCGA-HT-7879 TCGA-HT-8013 TCGA-HT-8111 TCGA-HT-8563 TCGA-HT-A74O 
       23.61         3.68        63.55         0.23        28.27         0.10 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EZ 
       20.81        20.71        19.00         0.23         6.71         2.30 
TCGA-P5-A5F1 TCGA-P5-A72W TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A780 TCGA-QH-A6X3 
        5.88        10.42        11.64        10.95         2.37        10.29 
TCGA-QH-A870 TCGA-RY-A840 TCGA-S9-A6TU TCGA-S9-A6TZ TCGA-S9-A6U1 TCGA-S9-A6WO 
       12.99        28.08        87.12        36.82        25.81        18.61 
TCGA-S9-A7QX TCGA-S9-A7R3 TCGA-S9-A7R8 TCGA-TM-A84B TCGA-TM-A84T TCGA-TQ-A7RF 
       18.54        99.06        31.59        24.92        23.80        21.37 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-VM-A8C8 TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
       44.09        36.69        43.04        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A85B TCGA-WY-A85D 
       16.01        13.32        43.96        45.80        37.71 

$subtype2
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-5390 TCGA-CS-5394 TCGA-CS-5396 
        7.69        43.89        18.15        64.64         0.10         9.96 
TCGA-CS-6668 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
       49.94        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5281 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A64P TCGA-DB-A64Q 
       78.28        18.84        30.21        46.72        30.12         5.98 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64X TCGA-DB-A75K TCGA-DH-5140 TCGA-DH-5141 
       27.81        29.23        18.51        12.10        19.96        31.82 
TCGA-DH-5142 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F 
       63.88         8.02        30.21        42.05        27.81        17.19 
TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DU-7018 TCGA-DU-A5TP TCGA-DU-A5TR 
       23.21        17.46        13.71        30.67        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A7T8 TCGA-E1-5302 TCGA-E1-5304 TCGA-E1-5311 
       31.69        26.17       139.04        50.14        41.13       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YS 
       78.21        95.57       130.78        29.13        93.21        15.32 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-FG-6690 TCGA-FG-7634 TCGA-FG-7637 TCGA-FG-A4MX 
       39.48         0.23        42.54        15.35        40.08        18.71 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A70Y TCGA-HT-7468 
       14.76        17.82        21.53        15.02        28.54         6.67 
TCGA-HT-7477 TCGA-HT-7483 TCGA-HT-7608 TCGA-HT-7616 TCGA-HT-7677 TCGA-HT-7692 
       24.26       172.77        22.06         0.23        16.24         2.96 
TCGA-HT-8114 TCGA-HT-A4DV TCGA-HT-A5R9 TCGA-HT-A615 TCGA-HT-A619 TCGA-HT-A61B 
       34.19        26.04         0.07        16.93        21.40        17.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-8320 TCGA-HW-A5KJ 
       15.35        11.05        45.60        68.32        40.01        10.55 
TCGA-KT-A74X TCGA-P5-A5F2 TCGA-P5-A72X TCGA-P5-A735 TCGA-P5-A77W TCGA-QH-A65S 
       14.40         7.63        13.25         9.60        19.20         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6X4 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A86X TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
       16.34        16.73        11.08        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       59.38        30.87         5.46        18.77        41.10        28.14 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U8 TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       29.85        32.61        98.24       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IY TCGA-S9-A7J0 TCGA-S9-A7J1 
       85.55        18.64        14.07        23.51        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7QW TCGA-S9-A7R4 TCGA-TM-A7C5 TCGA-TM-A84G TCGA-TM-A84H 
        2.04        15.06        30.05        49.32        40.64        30.44 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84S TCGA-TQ-A7RG TCGA-TQ-A7RI 
       24.79        33.24        25.38        14.93        19.69         2.04 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-TQ-A8XE 
       33.73        31.20        25.87        33.93        26.99        31.36 
TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VW-A7QS TCGA-WY-A85C TCGA-WY-A85E 
        0.10        39.16        23.21        46.88        20.81 

$subtype3
TCGA-CS-5393 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 
       40.18        17.95        12.43        49.12         6.61       122.73 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-A4X9 TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       91.13        44.52        46.42        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64R TCGA-DB-A64W TCGA-DB-A75L TCGA-DH-5143 
       31.63        24.20        31.40        14.40        11.24        46.06 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5853 TCGA-DU-5855 
       17.19        54.25        14.56        17.46        13.38         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
      182.33        18.94        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 
       22.42        49.02        46.06        65.75         1.22        87.45 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7019 
       94.52       114.08         7.96       156.23       154.36        26.30 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7300 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7309 
       94.32        18.94        62.01        60.30        23.31         2.76 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       14.60        20.68        21.40        16.96        15.48        14.17 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76O TCGA-DU-A76R 
       25.55        21.57        95.11        22.29        17.16        21.30 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TG TCGA-DU-A7TI TCGA-E1-5305 TCGA-E1-5307 
       51.52        37.38        44.42        38.89        79.99        57.93 
TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YU TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
       21.30        75.02         0.76       146.14        13.08        73.48 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-7636 
        0.20        47.77        52.21        36.82        14.93        17.88 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8186 
       22.55        20.61        20.09        28.34        13.68        16.01 
TCGA-FG-8187 TCGA-FG-8189 TCGA-FG-A6J1 TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       20.09        22.52        16.44        36.66        48.69        20.45 
TCGA-HT-7467 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.10        40.11         0.13         3.75        17.42         6.54 
TCGA-HT-7478 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7603 TCGA-HT-7605 TCGA-HT-7607 
        6.38        75.19        95.93        23.18         4.57         3.16 
TCGA-HT-7610 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7681 TCGA-HT-7687 TCGA-HT-7688 
       56.09        14.27         0.16        44.68         0.10        31.69 
TCGA-HT-7690 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7856 TCGA-HT-7874 TCGA-HT-7875 
        0.10         6.90        14.53        39.09        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        0.13         5.33        35.47        11.28        31.43         1.64 
TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8107 
        9.40         0.10        37.87        33.01         6.25         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-A5R5 TCGA-HT-A5R7 
        2.50         5.56        29.59        13.74         0.13        20.22 
TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A616 TCGA-HT-A618 TCGA-HT-A61A TCGA-HW-7486 
        0.10         2.70         1.81        16.83         6.38        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8321 
       13.45        41.49        69.27        35.44        39.75        42.54 
TCGA-HW-8322 TCGA-IK-8125 TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F4 TCGA-P5-A731 
        6.18        42.77         2.37         4.11         0.76         9.01 
TCGA-P5-A733 TCGA-P5-A737 TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A6CY 
       13.61        12.23         3.45         4.41        15.16         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        9.17         1.91        16.50         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TY TCGA-S9-A6U6 TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       62.17        35.38        35.15        38.56        84.99        31.10 
TCGA-S9-A7IQ TCGA-S9-A7IX TCGA-S9-A7IZ TCGA-S9-A7J3 TCGA-S9-A7QY TCGA-S9-A7QZ 
       36.13        26.93        19.99        20.68        28.37        27.16 
TCGA-S9-A7R1 TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84F TCGA-TM-A84L 
      169.84        48.33        34.78        65.39        59.05        40.83 
TCGA-TM-A84R TCGA-TQ-A7RH TCGA-TQ-A7RJ TCGA-TQ-A7RQ TCGA-TQ-A7RV TCGA-VM-A8CA 
       18.61        15.98        40.41        26.14        61.41        13.51 
TCGA-W9-A837 TCGA-WY-A859 TCGA-WY-A85A 
       51.06        39.88        43.40 

$subtype4
TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6188 TCGA-DB-A64O TCGA-DB-A75P TCGA-DU-5847 
       21.01         6.38        23.84        25.48        16.18        18.02 
TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        6.74         8.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7010 TCGA-DU-7012 TCGA-DU-7013 
       16.83        11.47        62.96        14.99         6.54         8.84 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8165 TCGA-DU-A5TT 
       10.36         7.96         5.10        23.74        19.13        24.43 
TCGA-DU-A5TY TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A7T6 TCGA-DU-A7TD TCGA-DU-A7TJ 
       33.96        11.41        26.76        17.98         7.50         0.56 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YN TCGA-E1-A7YQ 
        3.65        19.46        12.43        16.18        23.90        51.88 
TCGA-E1-A7YV TCGA-FG-5963 TCGA-FG-6688 TCGA-FG-6692 TCGA-FG-A4MU TCGA-FG-A4MW 
       32.45        25.48        18.77        18.44        10.72        18.38 
TCGA-FG-A6J3 TCGA-FG-A70Z TCGA-FG-A87N TCGA-FG-A87Q TCGA-HT-7469 TCGA-HT-7686 
       22.26        10.78        18.64         5.72        11.54        42.74 
TCGA-HT-7691 TCGA-HT-7854 TCGA-HT-7857 TCGA-HT-7860 TCGA-HT-7882 TCGA-HT-8011 
        0.10        39.48         0.23         0.49         3.72        16.24 
TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8110 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A5RA 
       12.23         0.10        13.78        15.72         0.23        27.35 
TCGA-HT-A5RC TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74H TCGA-HW-A5KK TCGA-KT-A7W1 
        5.33        16.14        17.65         2.43        12.76        14.40 
TCGA-P5-A5EX TCGA-P5-A72U TCGA-QH-A6CV TCGA-QH-A6CX TCGA-QH-A6XC TCGA-RY-A83Z 
        7.99         0.23        14.53        12.23         5.03         9.90 
TCGA-S9-A6U0 TCGA-S9-A6UA TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A7IS TCGA-S9-A7R2 
       24.39         5.85        19.86        26.47         7.92        10.39 
TCGA-S9-A7R7 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A84C TCGA-TM-A84I 
       98.63        18.71        20.48        54.77        16.18        28.08 
TCGA-TM-A84J TCGA-TQ-A7RP TCGA-VM-A8C9 TCGA-VM-A8CD TCGA-VW-A8FI 
       24.16        30.05        43.20         7.89         8.05 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.07     0.10     0.10 
subtype1 subtype2 subtype3 subtype4 
  145.05   172.77   211.17   133.74 
subtype1 subtype2 subtype3 subtype4 
   23.70    26.04    22.29    15.72 
[1] "0.0 - 145.1 (23.7)" "0.1 - 172.8 (26.0)" "0.1 - 211.2 (22.3)"
[4] "0.1 - 133.7 (15.7)"
D12V2, continuous
D12V3, binary
          cls
clus        0  1
  subtype1 35 55
  subtype2 54 84
  subtype3 96 94
  subtype4 44 45
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   35   55
  subtype2   54   84
  subtype3   96   94
  subtype4   44   45
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       35       54       96       44
  MALE         55       84       94       45
[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"
D12V4, binary
          cls
clus         0   1
  subtype1  32  51
  subtype2  60  72
  subtype3  77 101
  subtype4  14  66
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   32   51
  subtype2   60   72
  subtype3   77  101
  subtype4   14   66
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        32       60       77       14
  YES       51       72      101       66
[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"
D12V5, continuous
          vv
clus       ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  subtype1          49               26                15
  subtype2          36               37                65
  subtype3          45               51                94
  subtype4          61               12                16
D12V6, multiclass
                   clus
vv                  subtype1 subtype2 subtype3 subtype4
  ASTROCYTOMA             49       36       45       61
  OLIGOASTROCYTOMA        26       37       51       12
  OLIGODENDROGLIOMA       15       65       94       16
[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       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     0                         2
  subtype2                                0     4                         5
  subtype3                                0     2                         7
  subtype4                                1     2                         7
          vv
clus       WHITE
  subtype1    86
  subtype2   127
  subtype3   177
  subtype4    77
D12V7, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE        0        0        0        1
  ASIAN                                   0        4        2        2
  BLACK OR AFRICAN AMERICAN               2        5        7        7
  WHITE                                  86      127      177       77
[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"
D12V8, binary
          cls
clus         0   1
  subtype1   7  73
  subtype2  11 116
  subtype3  11 172
  subtype4   3  80
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7   73
  subtype2   11  116
  subtype3   11  172
  subtype4    3   80
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            7       11       11        3
  NOT HISPANIC OR LATINO       73      116      172       80
[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"
