[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"         "-nVNozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"        "-oTPCPG-TP"
[1] "opt"                    "-OPAGGREGRATED_CLUSTER"
[1] "tl" ""  
[1] "dx" ""  
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/PCPG-TP/11541607/PCPG-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/PCPG-TP/11589218/PCPG-TP.mergedcluster.txt"

nPatients in clinical file=132, in cluster file=179, common to both=132
[1]   8 132
[1] "CN_CNMF"
[1] 3
 1  2  3 
54 47 28 
 1  2  3 
54 47 28 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
28 66 38 
 1  2  3 
28 66 38 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3  4 
24 57 33 18 
 1  2  3  4 
24 57 33 18 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3  4 
28 58 28 18 
 1  2  3  4 
28 58 28 18 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3 
50 50 32 
 1  2  3 
50 50 32 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
 1  2  3  4 
48 49 15 20 
 1  2  3  4 
48 49 15 20 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
 1  2  3  4  5 
29 52  9 22 19 
 1  2  3  4  5 
29 52  9 22 19 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
 1  2  3  4 
63 37 15 16 
 1  2  3  4 
63 37 15 16 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "DCCUPLOADDATE"                         
 [6] "GENDER"                                
 [7] "RADIATIONTHERAPY"                      
 [8] "RADIATIONS.RADIATION.REGIMENINDICATION"
 [9] "RACE"                                  
[10] "ETHNICITY"                             
[11] "BATCHNUMBER"                           

Input Data has 11 rows and 132 columns.

[1] "Batch" "11"   
[1] "Last Follow UP"
TCGA-P7-A5NX TCGA-P7-A5NY TCGA-P8-A5KC TCGA-P8-A5KD TCGA-P8-A6RX TCGA-P8-A6RY 
         818          957          883           69           29          179 
TCGA-PR-A5PF TCGA-PR-A5PG TCGA-PR-A5PH TCGA-QR-A6GS TCGA-QT-A5XJ TCGA-QT-A5XK 
         240         2485          852           38         1102          211 
TCGA-QT-A5XL TCGA-QT-A5XM TCGA-QT-A5XN TCGA-QT-A5XO TCGA-QT-A5XP TCGA-QT-A69Q 
          55           22          766           70          134           24 
TCGA-QT-A7U0 TCGA-RM-A68T TCGA-RM-A68W TCGA-RT-A6Y9 TCGA-RT-A6YA TCGA-RT-A6YC 
          29         1178           28         2957         1249          246 
TCGA-RW-A67V TCGA-RW-A67W TCGA-RW-A67X TCGA-RW-A67Y TCGA-RW-A680 TCGA-RW-A681 
        2643          604           89          216         1013          724 
TCGA-RW-A684 TCGA-RW-A685 TCGA-RW-A686 TCGA-RW-A688 TCGA-RW-A689 TCGA-RW-A68A 
          32           26          405           37          356          397 
TCGA-RW-A68B TCGA-RW-A68C TCGA-RW-A68D TCGA-RW-A68F TCGA-RW-A68G TCGA-RW-A7CZ 
         242          191         2214          457           21          134 
TCGA-RW-A7D0 TCGA-RW-A8AZ TCGA-RX-A8JQ TCGA-S7-A7WL TCGA-S7-A7WM TCGA-S7-A7WN 
          54           NA           18          611          730          800 
TCGA-S7-A7WO TCGA-S7-A7WP TCGA-S7-A7WQ TCGA-S7-A7WR TCGA-S7-A7WT TCGA-S7-A7WU 
         715          441          346          909          912          601 
TCGA-S7-A7WV TCGA-S7-A7WW TCGA-S7-A7WX TCGA-S7-A7X0 TCGA-S7-A7X1 TCGA-S7-A7X2 
         527          324          358          185          240          371 
TCGA-SP-A6QC TCGA-SP-A6QD TCGA-SP-A6QF TCGA-SP-A6QG TCGA-SP-A6QH TCGA-SP-A6QI 
        3180         3087         2149         2040         1857         2983 
TCGA-SP-A6QJ TCGA-SP-A6QK TCGA-SQ-A6I4 TCGA-SQ-A6I6 TCGA-SR-A6MP TCGA-SR-A6MQ 
         274         3013           43            3         1558         1656 
TCGA-SR-A6MR TCGA-SR-A6MS TCGA-SR-A6MT TCGA-SR-A6MU TCGA-SR-A6MV TCGA-SR-A6MX 
        2020         2222         3247         3362         3269           NA 
TCGA-SR-A6MY TCGA-SR-A6MZ TCGA-SR-A6N0 TCGA-TT-A6YJ TCGA-TT-A6YK TCGA-TT-A6YN 
         750          345         1509          132          765          242 
TCGA-TT-A6YO TCGA-TT-A6YP TCGA-W2-A7H5 TCGA-W2-A7H7 TCGA-W2-A7HA TCGA-W2-A7HB 
         317          770          432          522           36          604 
TCGA-W2-A7HC TCGA-W2-A7HD TCGA-W2-A7HE TCGA-W2-A7HF TCGA-W2-A7HH TCGA-W2-A7UY 
         366          380          505          538          779          324 
TCGA-WB-A80K TCGA-WB-A80L TCGA-WB-A80M TCGA-WB-A80N TCGA-WB-A80O TCGA-WB-A80P 
         840          678          136          144          128         9219 
TCGA-WB-A80Q TCGA-WB-A80V TCGA-WB-A80Y TCGA-WB-A814 TCGA-WB-A815 TCGA-WB-A816 
        3880          887           NA         1000          182          531 
TCGA-WB-A817 TCGA-WB-A818 TCGA-WB-A819 TCGA-WB-A81A TCGA-WB-A81D TCGA-WB-A81E 
         992          795          234          371           24         1131 
TCGA-WB-A81F TCGA-WB-A81G TCGA-WB-A81H TCGA-WB-A81I TCGA-WB-A81J TCGA-WB-A81K 
         730          737         1294           34           57          595 
TCGA-WB-A81M TCGA-WB-A81N TCGA-WB-A81P TCGA-WB-A81Q TCGA-WB-A81R TCGA-WB-A81S 
         652         1406          395           NA           49          357 
TCGA-WB-A81T TCGA-WB-A81V TCGA-WB-A81W TCGA-WB-A821 TCGA-WB-A822 TCGA-XG-A823 
         288         2161         1719           41         2822          210 
Variable 1:'AGE':	nDistinctValues=57,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=4,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=119,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 8:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 9:'RACE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'ETHNICITY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'BATCH.NUMBER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"       "GENDER"    "RACE"      "ETHNICITY"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 132 columns, 1 survival variables, and 4 non-survival variables.
AGE, nv=57, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
RACE, nv=4, binary=FALSE, numeric=FALSE
ETHNICITY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = CN_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 52  2
  subtype2 46  1
  subtype3 27  1
subtype1 subtype2 subtype3 
      54       47       28 
subtype1 subtype2 subtype3 
       2        1        1 
$subtype1
TCGA-P7-A5NY TCGA-P8-A5KD TCGA-PR-A5PF TCGA-PR-A5PG TCGA-PR-A5PH TCGA-QT-A5XK 
       31.46         2.27         7.89        81.70        28.01         6.94 
TCGA-QT-A5XM TCGA-QT-A5XO TCGA-QT-A5XP TCGA-RT-A6Y9 TCGA-RW-A67V TCGA-RW-A67W 
        0.72         2.30         4.41        97.22        86.89        19.86 
TCGA-RW-A686 TCGA-RW-A688 TCGA-RW-A68B TCGA-RW-A7D0 TCGA-RX-A8JQ TCGA-S7-A7WM 
       13.32         1.22         7.96         1.78         0.59        24.00 
TCGA-S7-A7WN TCGA-S7-A7WR TCGA-S7-A7WX TCGA-S7-A7X2 TCGA-SP-A6QC TCGA-SP-A6QF 
       26.30        29.88        11.77        12.20       104.55        70.65 
TCGA-SP-A6QG TCGA-SP-A6QI TCGA-SP-A6QJ TCGA-SP-A6QK TCGA-SQ-A6I4 TCGA-SR-A6MQ 
       67.07        98.07         9.01        99.06         1.41        54.44 
TCGA-SR-A6MX TCGA-SR-A6MY TCGA-TT-A6YN TCGA-W2-A7H5 TCGA-W2-A7HA TCGA-W2-A7HB 
        3.12        24.66         7.96        14.20         1.18        19.86 
TCGA-W2-A7HC TCGA-W2-A7HD TCGA-W2-A7HE TCGA-W2-A7HF TCGA-WB-A80K TCGA-WB-A80O 
       12.03        12.49        16.60        17.69        27.62         4.21 
TCGA-WB-A80P TCGA-WB-A80V TCGA-WB-A80Y TCGA-WB-A819 TCGA-WB-A81D TCGA-WB-A81F 
      303.09        29.16        19.59         7.69         0.79        24.00 
TCGA-WB-A81G TCGA-WB-A81H TCGA-WB-A81N TCGA-WB-A81R TCGA-WB-A81T TCGA-WB-A81W 
       24.23        42.54        46.22         1.61         9.47        56.52 

$subtype2
TCGA-P8-A5KC TCGA-P8-A6RX TCGA-P8-A6RY TCGA-QT-A5XL TCGA-QT-A69Q TCGA-QT-A7U0 
       29.03         0.95         5.88         1.81         0.79         0.95 
TCGA-RM-A68T TCGA-RM-A68W TCGA-RT-A6YC TCGA-RW-A684 TCGA-RW-A68D TCGA-RW-A68F 
       38.73         0.92         8.09         1.05        72.79        15.02 
TCGA-RW-A68G TCGA-RW-A7CZ TCGA-RW-A8AZ TCGA-S7-A7WO TCGA-S7-A7WP TCGA-S7-A7WT 
        0.69         4.41         2.89        23.51        14.50        29.98 
TCGA-S7-A7WU TCGA-S7-A7WV TCGA-S7-A7WW TCGA-S7-A7X0 TCGA-SP-A6QD TCGA-SR-A6MS 
       19.76        17.33        10.65         6.08       101.49        73.05 
TCGA-SR-A6MT TCGA-SR-A6MU TCGA-SR-A6N0 TCGA-TT-A6YK TCGA-TT-A6YO TCGA-TT-A6YP 
      106.75       110.53        49.61        25.15        10.42        25.32 
TCGA-W2-A7HH TCGA-WB-A80L TCGA-WB-A80M TCGA-WB-A80Q TCGA-WB-A814 TCGA-WB-A816 
       25.61        22.29         4.47       127.56        32.88        17.46 
TCGA-WB-A817 TCGA-WB-A81A TCGA-WB-A81E TCGA-WB-A81I TCGA-WB-A81J TCGA-WB-A81K 
       32.61        12.20        37.18         1.12         1.87        19.56 
TCGA-WB-A81M TCGA-WB-A81V TCGA-WB-A821 TCGA-WB-A822 TCGA-XG-A823 
       21.44        71.05         1.35        92.78         6.90 

$subtype3
TCGA-QR-A6GS TCGA-QT-A5XJ TCGA-QT-A5XN TCGA-RT-A6YA TCGA-RW-A67X TCGA-RW-A67Y 
        1.25        36.23        25.18        41.06         2.93         7.10 
TCGA-RW-A680 TCGA-RW-A681 TCGA-RW-A685 TCGA-RW-A689 TCGA-RW-A68A TCGA-RW-A68C 
       33.30        23.80         0.85        11.70        13.05         6.28 
TCGA-S7-A7WL TCGA-S7-A7WQ TCGA-S7-A7X1 TCGA-SQ-A6I6 TCGA-SR-A6MP TCGA-SR-A6MV 
       20.09        11.38         7.89         0.10        51.22       107.47 
TCGA-SR-A6MZ TCGA-TT-A6YJ TCGA-W2-A7H7 TCGA-W2-A7UY TCGA-WB-A80N TCGA-WB-A815 
       11.34         4.34        17.16        10.65         4.73         5.98 
TCGA-WB-A818 TCGA-WB-A81P TCGA-WB-A81Q TCGA-WB-A81S 
       26.14        12.99        24.82        11.74 

subtype1 subtype2 subtype3 
    0.59     0.69     0.10 
subtype1 subtype2 subtype3 
  303.09   127.56   107.47 
subtype1 subtype2 subtype3 
  17.145   17.460   11.720 
[1] "0.6 - 303.1 (17.1)" "0.7 - 127.6 (17.5)" "0.1 - 107.5 (11.7)"
D1V2, continuous
D1V3, binary
          cls
clus        0  1
  subtype1 31 23
  subtype2 26 21
  subtype3 16 12
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   31   23
  subtype2   26   21
  subtype3   16   12
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       31       26       16
  MALE         23       21       12
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     3                         4
  subtype2                                0     1                         3
  subtype3                                0     0                         2
          vv
clus       WHITE
  subtype1    45
  subtype2    42
  subtype3    25
D1V4, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE        1        0        0
  ASIAN                                   3        1        0
  BLACK OR AFRICAN AMERICAN               4        3        2
  WHITE                                  45       42       25
[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"
D1V5, binary
          cls
clus        0  1
  subtype1  0 45
  subtype2  2 36
  subtype3  0 18
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   45
  subtype2    2   36
  subtype3    0   18
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            0        2        0
  NOT HISPANIC OR LATINO       45       36       18
[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 = METHLYATION_CNMF
D2V1, survival
          sevent
clus2       0  1
  subtype1 26  2
  subtype2 64  2
  subtype3 38  0
subtype1 subtype2 subtype3 
      28       66       38 
subtype1 subtype2 subtype3 
       2        2        0 
$subtype1
TCGA-P7-A5NX TCGA-P8-A6RX TCGA-P8-A6RY TCGA-QT-A5XJ TCGA-QT-A5XL TCGA-QT-A7U0 
       26.89         0.95         5.88        36.23         1.81         0.95 
TCGA-RM-A68T TCGA-RM-A68W TCGA-RT-A6Y9 TCGA-RW-A680 TCGA-RW-A681 TCGA-RW-A68D 
       38.73         0.92        97.22        33.30        23.80        72.79 
TCGA-RW-A68F TCGA-RW-A7CZ TCGA-S7-A7WP TCGA-SP-A6QD TCGA-SP-A6QG TCGA-SR-A6MT 
       15.02         4.41        14.50       101.49        67.07       106.75 
TCGA-SR-A6MX TCGA-SR-A6N0 TCGA-W2-A7H7 TCGA-WB-A80P TCGA-WB-A81E TCGA-WB-A81G 
        3.12        49.61        17.16       303.09        37.18        24.23 
TCGA-WB-A81I TCGA-WB-A81Q TCGA-WB-A822 TCGA-XG-A823 
        1.12        24.82        92.78         6.90 

$subtype2
TCGA-P7-A5NY TCGA-P8-A5KD TCGA-PR-A5PF TCGA-PR-A5PG TCGA-QR-A6GS TCGA-QT-A5XK 
       31.46         2.27         7.89        81.70         1.25         6.94 
TCGA-QT-A5XN TCGA-QT-A5XO TCGA-QT-A5XP TCGA-QT-A69Q TCGA-RT-A6YA TCGA-RT-A6YC 
       25.18         2.30         4.41         0.79        41.06         8.09 
TCGA-RW-A67V TCGA-RW-A67W TCGA-RW-A67Y TCGA-RW-A685 TCGA-RW-A688 TCGA-RW-A689 
       86.89        19.86         7.10         0.85         1.22        11.70 
TCGA-RW-A68A TCGA-RW-A68B TCGA-RW-A68G TCGA-RW-A8AZ TCGA-RX-A8JQ TCGA-S7-A7WL 
       13.05         7.96         0.69         2.89         0.59        20.09 
TCGA-S7-A7WM TCGA-S7-A7WN TCGA-S7-A7WR TCGA-S7-A7WT TCGA-S7-A7WU TCGA-S7-A7WX 
       24.00        26.30        29.88        29.98        19.76        11.77 
TCGA-S7-A7X2 TCGA-SP-A6QC TCGA-SP-A6QF TCGA-SP-A6QI TCGA-SP-A6QJ TCGA-SQ-A6I4 
       12.20       104.55        70.65        98.07         9.01         1.41 
TCGA-SQ-A6I6 TCGA-SR-A6MP TCGA-SR-A6MS TCGA-SR-A6MY TCGA-TT-A6YJ TCGA-TT-A6YN 
        0.10        51.22        73.05        24.66         4.34         7.96 
TCGA-W2-A7HA TCGA-W2-A7HB TCGA-W2-A7HC TCGA-W2-A7HD TCGA-W2-A7HF TCGA-WB-A80M 
        1.18        19.86        12.03        12.49        17.69         4.47 
TCGA-WB-A80N TCGA-WB-A80O TCGA-WB-A80Q TCGA-WB-A80V TCGA-WB-A80Y TCGA-WB-A815 
        4.73         4.21       127.56        29.16        19.59         5.98 
TCGA-WB-A818 TCGA-WB-A819 TCGA-WB-A81D TCGA-WB-A81F TCGA-WB-A81J TCGA-WB-A81M 
       26.14         7.69         0.79        24.00         1.87        21.44 
TCGA-WB-A81P TCGA-WB-A81R TCGA-WB-A81S TCGA-WB-A81T TCGA-WB-A81V TCGA-WB-A81W 
       12.99         1.61        11.74         9.47        71.05        56.52 

$subtype3
TCGA-P8-A5KC TCGA-PR-A5PH TCGA-QT-A5XM TCGA-RW-A67X TCGA-RW-A684 TCGA-RW-A686 
       29.03        28.01         0.72         2.93         1.05        13.32 
TCGA-RW-A68C TCGA-RW-A7D0 TCGA-S7-A7WO TCGA-S7-A7WQ TCGA-S7-A7WV TCGA-S7-A7WW 
        6.28         1.78        23.51        11.38        17.33        10.65 
TCGA-S7-A7X0 TCGA-S7-A7X1 TCGA-SP-A6QH TCGA-SP-A6QK TCGA-SR-A6MQ TCGA-SR-A6MR 
        6.08         7.89        61.05        99.06        54.44        66.41 
TCGA-SR-A6MU TCGA-SR-A6MV TCGA-SR-A6MZ TCGA-TT-A6YK TCGA-TT-A6YO TCGA-TT-A6YP 
      110.53       107.47        11.34        25.15        10.42        25.32 
TCGA-W2-A7H5 TCGA-W2-A7HE TCGA-W2-A7HH TCGA-W2-A7UY TCGA-WB-A80K TCGA-WB-A80L 
       14.20        16.60        25.61        10.65        27.62        22.29 
TCGA-WB-A814 TCGA-WB-A816 TCGA-WB-A817 TCGA-WB-A81A TCGA-WB-A81H TCGA-WB-A81K 
       32.88        17.46        32.61        12.20        42.54        19.56 
TCGA-WB-A81N TCGA-WB-A821 
       46.22         1.35 

subtype1 subtype2 subtype3 
    0.92     0.10     0.72 
subtype1 subtype2 subtype3 
  303.09   127.56   110.53 
subtype1 subtype2 subtype3 
  24.525   11.900   18.510 
[1] "0.9 - 303.1 (24.5)" "0.1 - 127.6 (11.9)" "0.7 - 110.5 (18.5)"
D2V2, continuous
D2V3, binary
          cls
clus        0  1
  subtype1 14 14
  subtype2 38 28
  subtype3 23 15
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   14   14
  subtype2   38   28
  subtype3   23   15
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       14       38       23
  MALE         14       28       15
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     1                         2
  subtype2                                1     1                         5
  subtype3                                0     3                         2
          vv
clus       WHITE
  subtype1    24
  subtype2    57
  subtype3    33
D2V4, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE        0        1        0
  ASIAN                                   1        1        3
  BLACK OR AFRICAN AMERICAN               2        5        2
  WHITE                                  24       57       33
[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"
D2V5, binary
          cls
clus        0  1
  subtype1  2 19
  subtype2  0 51
  subtype3  1 31
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   19
  subtype2    0   51
  subtype3    1   31
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            2        0        1
  NOT HISPANIC OR LATINO       19       51       31
[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(3) Variable = MRNASEQ_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1 23  1
  subtype2 56  1
  subtype3 31  2
  subtype4 18  0
subtype1 subtype2 subtype3 subtype4 
      24       57       33       18 
subtype1 subtype2 subtype3 subtype4 
       1        1        2        0 
$subtype1
TCGA-P7-A5NX TCGA-QT-A5XJ TCGA-RM-A68T TCGA-RM-A68W TCGA-RT-A6Y9 TCGA-RW-A67Y 
       26.89        36.23        38.73         0.92        97.22         7.10 
TCGA-RW-A680 TCGA-RW-A681 TCGA-RW-A688 TCGA-RW-A68D TCGA-RW-A68F TCGA-RW-A7CZ 
       33.30        23.80         1.22        72.79        15.02         4.41 
TCGA-S7-A7WU TCGA-SP-A6QD TCGA-SP-A6QG TCGA-SR-A6MT TCGA-SR-A6MX TCGA-TT-A6YJ 
       19.76       101.49        67.07       106.75         3.12         4.34 
TCGA-W2-A7H7 TCGA-W2-A7HF TCGA-W2-A7HH TCGA-WB-A80P TCGA-WB-A81E TCGA-WB-A81G 
       17.16        17.69        25.61       303.09        37.18        24.23 

$subtype2
TCGA-P7-A5NY TCGA-P8-A5KD TCGA-PR-A5PG TCGA-QR-A6GS TCGA-QT-A5XK TCGA-QT-A5XM 
       31.46         2.27        81.70         1.25         6.94         0.72 
TCGA-QT-A5XN TCGA-QT-A5XP TCGA-RT-A6YA TCGA-RT-A6YC TCGA-RW-A67W TCGA-RW-A684 
       25.18         4.41        41.06         8.09        19.86         1.05 
TCGA-RW-A689 TCGA-RW-A68A TCGA-RW-A68B TCGA-RW-A7D0 TCGA-RX-A8JQ TCGA-S7-A7WL 
       11.70        13.05         7.96         1.78         0.59        20.09 
TCGA-S7-A7WM TCGA-S7-A7WN TCGA-S7-A7WR TCGA-S7-A7WT TCGA-S7-A7WX TCGA-S7-A7X2 
       24.00        26.30        29.88        29.98        11.77        12.20 
TCGA-SP-A6QC TCGA-SP-A6QF TCGA-SP-A6QI TCGA-SP-A6QJ TCGA-SQ-A6I4 TCGA-SQ-A6I6 
      104.55        70.65        98.07         9.01         1.41         0.10 
TCGA-SR-A6MP TCGA-SR-A6MQ TCGA-SR-A6MY TCGA-TT-A6YN TCGA-W2-A7H5 TCGA-W2-A7HA 
       51.22        54.44        24.66         7.96        14.20         1.18 
TCGA-W2-A7HB TCGA-W2-A7HC TCGA-W2-A7HD TCGA-WB-A80M TCGA-WB-A80N TCGA-WB-A80O 
       19.86        12.03        12.49         4.47         4.73         4.21 
TCGA-WB-A80V TCGA-WB-A818 TCGA-WB-A819 TCGA-WB-A81D TCGA-WB-A81F TCGA-WB-A81J 
       29.16        26.14         7.69         0.79        24.00         1.87 
TCGA-WB-A81M TCGA-WB-A81N TCGA-WB-A81P TCGA-WB-A81Q TCGA-WB-A81R TCGA-WB-A81S 
       21.44        46.22        12.99        24.82         1.61        11.74 
TCGA-WB-A81T TCGA-WB-A81V TCGA-WB-A81W 
        9.47        71.05        56.52 

$subtype3
TCGA-P8-A5KC TCGA-P8-A6RX TCGA-P8-A6RY TCGA-PR-A5PF TCGA-PR-A5PH TCGA-QT-A5XL 
       29.03         0.95         5.88         7.89        28.01         1.81 
TCGA-QT-A69Q TCGA-QT-A7U0 TCGA-RW-A67V TCGA-RW-A67X TCGA-RW-A686 TCGA-RW-A68C 
        0.79         0.95        86.89         2.93        13.32         6.28 
TCGA-RW-A8AZ TCGA-S7-A7WP TCGA-S7-A7WQ TCGA-S7-A7X0 TCGA-S7-A7X1 TCGA-SP-A6QH 
        2.89        14.50        11.38         6.08         7.89        61.05 
TCGA-SR-A6MR TCGA-SR-A6MS TCGA-SR-A6MV TCGA-TT-A6YK TCGA-TT-A6YP TCGA-W2-A7UY 
       66.41        73.05       107.47        25.15        25.32        10.65 
TCGA-WB-A80L TCGA-WB-A80Q TCGA-WB-A80Y TCGA-WB-A814 TCGA-WB-A815 TCGA-WB-A81A 
       22.29       127.56        19.59        32.88         5.98        12.20 
TCGA-WB-A81I TCGA-WB-A821 TCGA-WB-A822 
        1.12         1.35        92.78 

$subtype4
TCGA-QT-A5XO TCGA-RW-A685 TCGA-RW-A68G TCGA-S7-A7WO TCGA-S7-A7WV TCGA-S7-A7WW 
        2.30         0.85         0.69        23.51        17.33        10.65 
TCGA-SP-A6QK TCGA-SR-A6MU TCGA-SR-A6MZ TCGA-SR-A6N0 TCGA-TT-A6YO TCGA-W2-A7HE 
       99.06       110.53        11.34        49.61        10.42        16.60 
TCGA-WB-A80K TCGA-WB-A816 TCGA-WB-A817 TCGA-WB-A81H TCGA-WB-A81K TCGA-XG-A823 
       27.62        17.46        32.61        42.54        19.56         6.90 

subtype1 subtype2 subtype3 subtype4 
    0.92     0.10     0.79     0.69 
subtype1 subtype2 subtype3 subtype4 
  303.09   104.55   127.56   110.53 
subtype1 subtype2 subtype3 subtype4 
  24.920   12.490   12.200   17.395 
[1] "0.9 - 303.1 (24.9)" "0.1 - 104.5 (12.5)" "0.8 - 127.6 (12.2)"
[4] "0.7 - 110.5 (17.4)"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1 17  7
  subtype2 30 27
  subtype3 16 17
  subtype4 12  6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   17    7
  subtype2   30   27
  subtype3   16   17
  subtype4   12    6
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       17       30       16       12
  MALE          7       27       17        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"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     1                         3
  subtype2                                1     2                         3
  subtype3                                0     1                         1
  subtype4                                0     1                         2
          vv
clus       WHITE
  subtype1    18
  subtype2    50
  subtype3    31
  subtype4    15
D3V4, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE        0        1        0        0
  ASIAN                                   1        2        1        1
  BLACK OR AFRICAN AMERICAN               3        3        1        2
  WHITE                                  18       50       31       15
[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"
D3V5, binary
          cls
clus        0  1
  subtype1  1 14
  subtype2  0 47
  subtype3  0 26
  subtype4  2 14
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   14
  subtype2    0   47
  subtype3    0   26
  subtype4    2   14
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            1        0        0        2
  NOT HISPANIC OR LATINO       14       47       26       14
[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(4) Variable = MRNASEQ_CHIERARCHICAL
D4V1, survival
          sevent
clus2       0  1
  subtype1 26  2
  subtype2 57  1
  subtype3 27  1
  subtype4 18  0
subtype1 subtype2 subtype3 subtype4 
      28       58       28       18 
subtype1 subtype2 subtype3 subtype4 
       2        1        1        0 
$subtype1
TCGA-P7-A5NX TCGA-P8-A5KC TCGA-P8-A6RY TCGA-PR-A5PF TCGA-PR-A5PH TCGA-QT-A5XJ 
       26.89        29.03         5.88         7.89        28.01        36.23 
TCGA-QT-A69Q TCGA-RT-A6Y9 TCGA-RW-A67V TCGA-RW-A681 TCGA-RW-A686 TCGA-RW-A68D 
        0.79        97.22        86.89        23.80        13.32        72.79 
TCGA-RW-A8AZ TCGA-S7-A7WT TCGA-S7-A7WU TCGA-SR-A6MR TCGA-SR-A6MS TCGA-SR-A6MT 
        2.89        29.98        19.76        66.41        73.05       106.75 
TCGA-W2-A7HH TCGA-WB-A80K TCGA-WB-A80M TCGA-WB-A80Q TCGA-WB-A80Y TCGA-WB-A815 
       25.61        27.62         4.47       127.56        19.59         5.98 
TCGA-WB-A81A TCGA-WB-A81E TCGA-WB-A81I TCGA-WB-A81M 
       12.20        37.18         1.12        21.44 

$subtype2
TCGA-P7-A5NY TCGA-P8-A5KD TCGA-PR-A5PG TCGA-QR-A6GS TCGA-QT-A5XK TCGA-QT-A5XM 
       31.46         2.27        81.70         1.25         6.94         0.72 
TCGA-QT-A5XN TCGA-QT-A5XO TCGA-QT-A5XP TCGA-RT-A6YA TCGA-RT-A6YC TCGA-RW-A67W 
       25.18         2.30         4.41        41.06         8.09        19.86 
TCGA-RW-A67Y TCGA-RW-A684 TCGA-RW-A688 TCGA-RW-A689 TCGA-RW-A68A TCGA-RW-A68B 
        7.10         1.05         1.22        11.70        13.05         7.96 
TCGA-RW-A7D0 TCGA-RX-A8JQ TCGA-S7-A7WL TCGA-S7-A7WM TCGA-S7-A7WN TCGA-S7-A7WR 
        1.78         0.59        20.09        24.00        26.30        29.88 
TCGA-S7-A7WX TCGA-S7-A7X2 TCGA-SP-A6QC TCGA-SP-A6QF TCGA-SP-A6QI TCGA-SP-A6QJ 
       11.77        12.20       104.55        70.65        98.07         9.01 
TCGA-SQ-A6I6 TCGA-SR-A6MP TCGA-SR-A6MQ TCGA-SR-A6MY TCGA-TT-A6YJ TCGA-TT-A6YN 
        0.10        51.22        54.44        24.66         4.34         7.96 
TCGA-W2-A7H5 TCGA-W2-A7HA TCGA-W2-A7HB TCGA-W2-A7HC TCGA-W2-A7HD TCGA-W2-A7HF 
       14.20         1.18        19.86        12.03        12.49        17.69 
TCGA-WB-A80N TCGA-WB-A80O TCGA-WB-A80V TCGA-WB-A818 TCGA-WB-A819 TCGA-WB-A81D 
        4.73         4.21        29.16        26.14         7.69         0.79 
TCGA-WB-A81F TCGA-WB-A81J TCGA-WB-A81N TCGA-WB-A81P TCGA-WB-A81Q TCGA-WB-A81R 
       24.00         1.87        46.22        12.99        24.82         1.61 
TCGA-WB-A81S TCGA-WB-A81T TCGA-WB-A81V TCGA-WB-A81W 
       11.74         9.47        71.05        56.52 

$subtype3
TCGA-P8-A6RX TCGA-QT-A5XL TCGA-QT-A7U0 TCGA-RM-A68T TCGA-RM-A68W TCGA-RW-A67X 
        0.95         1.81         0.95        38.73         0.92         2.93 
TCGA-RW-A680 TCGA-RW-A68C TCGA-RW-A68F TCGA-RW-A7CZ TCGA-S7-A7WP TCGA-S7-A7WQ 
       33.30         6.28        15.02         4.41        14.50        11.38 
TCGA-S7-A7X0 TCGA-S7-A7X1 TCGA-SP-A6QD TCGA-SP-A6QG TCGA-SP-A6QH TCGA-SR-A6MV 
        6.08         7.89       101.49        67.07        61.05       107.47 
TCGA-SR-A6MX TCGA-TT-A6YK TCGA-TT-A6YP TCGA-W2-A7H7 TCGA-W2-A7UY TCGA-WB-A80P 
        3.12        25.15        25.32        17.16        10.65       303.09 
TCGA-WB-A814 TCGA-WB-A81G TCGA-WB-A821 TCGA-WB-A822 
       32.88        24.23         1.35        92.78 

$subtype4
TCGA-RW-A685 TCGA-RW-A68G TCGA-S7-A7WO TCGA-S7-A7WV TCGA-S7-A7WW TCGA-SP-A6QK 
        0.85         0.69        23.51        17.33        10.65        99.06 
TCGA-SQ-A6I4 TCGA-SR-A6MU TCGA-SR-A6MZ TCGA-SR-A6N0 TCGA-TT-A6YO TCGA-W2-A7HE 
        1.41       110.53        11.34        49.61        10.42        16.60 
TCGA-WB-A80L TCGA-WB-A816 TCGA-WB-A817 TCGA-WB-A81H TCGA-WB-A81K TCGA-XG-A823 
       22.29        17.46        32.61        42.54        19.56         6.90 

subtype1 subtype2 subtype3 subtype4 
    0.79     0.10     0.92     0.69 
subtype1 subtype2 subtype3 subtype4 
  127.56   104.55   303.09   110.53 
subtype1 subtype2 subtype3 subtype4 
  26.250   12.115   14.760   17.395 
[1] "0.8 - 127.6 (26.2)" "0.1 - 104.5 (12.1)" "0.9 - 303.1 (14.8)"
[4] "0.7 - 110.5 (17.4)"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 16 12
  subtype2 34 24
  subtype3 13 15
  subtype4 12  6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   16   12
  subtype2   34   24
  subtype3   13   15
  subtype4   12    6
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       16       34       13       12
  MALE         12       24       15        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"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     1                         1
  subtype2                                1     2                         5
  subtype3                                0     1                         2
  subtype4                                0     1                         1
          vv
clus       WHITE
  subtype1    26
  subtype2    48
  subtype3    24
  subtype4    16
D4V4, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE        0        1        0        0
  ASIAN                                   1        2        1        1
  BLACK OR AFRICAN AMERICAN               1        5        2        1
  WHITE                                  26       48       24       16
[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"
D4V5, binary
          cls
clus        0  1
  subtype1  1 20
  subtype2  0 46
  subtype3  0 21
  subtype4  2 14
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   20
  subtype2    0   46
  subtype3    0   21
  subtype4    2   14
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            1        0        0        2
  NOT HISPANIC OR LATINO       20       46       21       14
[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 = MIRSEQ_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 46  4
  subtype2 50  0
  subtype3 32  0
subtype1 subtype2 subtype3 
      50       50       32 
subtype1 subtype2 subtype3 
       4        0        0 
$subtype1
TCGA-P7-A5NX TCGA-P8-A5KC TCGA-P8-A6RX TCGA-PR-A5PF TCGA-QT-A5XJ TCGA-QT-A5XL 
       26.89        29.03         0.95         7.89        36.23         1.81 
TCGA-QT-A7U0 TCGA-RM-A68W TCGA-RT-A6Y9 TCGA-RW-A67X TCGA-RW-A680 TCGA-RW-A681 
        0.95         0.92        97.22         2.93        33.30        23.80 
TCGA-RW-A68C TCGA-RW-A68D TCGA-RW-A68F TCGA-RW-A7CZ TCGA-RW-A8AZ TCGA-S7-A7WP 
        6.28        72.79        15.02         4.41         2.89        14.50 
TCGA-S7-A7WQ TCGA-S7-A7WU TCGA-S7-A7X0 TCGA-S7-A7X1 TCGA-SP-A6QD TCGA-SP-A6QG 
       11.38        19.76         6.08         7.89       101.49        67.07 
TCGA-SP-A6QH TCGA-SQ-A6I4 TCGA-SR-A6MP TCGA-SR-A6MR TCGA-SR-A6MT TCGA-SR-A6MV 
       61.05         1.41        51.22        66.41       106.75       107.47 
TCGA-SR-A6MX TCGA-TT-A6YK TCGA-TT-A6YP TCGA-W2-A7H7 TCGA-W2-A7HA TCGA-W2-A7HH 
        3.12        25.15        25.32        17.16         1.18        25.61 
TCGA-W2-A7UY TCGA-WB-A80K TCGA-WB-A80P TCGA-WB-A80Q TCGA-WB-A80Y TCGA-WB-A814 
       10.65        27.62       303.09       127.56        19.59        32.88 
TCGA-WB-A81A TCGA-WB-A81E TCGA-WB-A81G TCGA-WB-A81I TCGA-WB-A81P TCGA-WB-A81Q 
       12.20        37.18        24.23         1.12        12.99        24.82 
TCGA-WB-A821 TCGA-WB-A822 
        1.35        92.78 

$subtype2
TCGA-P7-A5NY TCGA-P8-A5KD TCGA-PR-A5PG TCGA-QR-A6GS TCGA-QT-A5XK TCGA-QT-A5XN 
       31.46         2.27        81.70         1.25         6.94        25.18 
TCGA-RT-A6YA TCGA-RT-A6YC TCGA-RW-A67W TCGA-RW-A67Y TCGA-RW-A684 TCGA-RW-A688 
       41.06         8.09        19.86         7.10         1.05         1.22 
TCGA-RW-A689 TCGA-RW-A68A TCGA-RW-A68B TCGA-RW-A7D0 TCGA-RX-A8JQ TCGA-S7-A7WL 
       11.70        13.05         7.96         1.78         0.59        20.09 
TCGA-S7-A7WM TCGA-S7-A7WN TCGA-S7-A7WR TCGA-S7-A7WT TCGA-S7-A7X2 TCGA-SP-A6QC 
       24.00        26.30        29.88        29.98        12.20       104.55 
TCGA-SP-A6QF TCGA-SP-A6QI TCGA-SP-A6QJ TCGA-SQ-A6I6 TCGA-SR-A6MQ TCGA-SR-A6MY 
       70.65        98.07         9.01         0.10        54.44        24.66 
TCGA-TT-A6YJ TCGA-TT-A6YN TCGA-W2-A7H5 TCGA-W2-A7HB TCGA-W2-A7HC TCGA-W2-A7HD 
        4.34         7.96        14.20        19.86        12.03        12.49 
TCGA-W2-A7HF TCGA-WB-A80M TCGA-WB-A80N TCGA-WB-A80V TCGA-WB-A818 TCGA-WB-A819 
       17.69         4.47         4.73        29.16        26.14         7.69 
TCGA-WB-A81D TCGA-WB-A81F TCGA-WB-A81J TCGA-WB-A81M TCGA-WB-A81N TCGA-WB-A81R 
        0.79        24.00         1.87        21.44        46.22         1.61 
TCGA-WB-A81V TCGA-WB-A81W 
       71.05        56.52 

$subtype3
TCGA-P8-A6RY TCGA-PR-A5PH TCGA-QT-A5XM TCGA-QT-A5XO TCGA-QT-A5XP TCGA-QT-A69Q 
        5.88        28.01         0.72         2.30         4.41         0.79 
TCGA-RM-A68T TCGA-RW-A67V TCGA-RW-A685 TCGA-RW-A686 TCGA-RW-A68G TCGA-S7-A7WO 
       38.73        86.89         0.85        13.32         0.69        23.51 
TCGA-S7-A7WV TCGA-S7-A7WW TCGA-S7-A7WX TCGA-SP-A6QK TCGA-SR-A6MS TCGA-SR-A6MU 
       17.33        10.65        11.77        99.06        73.05       110.53 
TCGA-SR-A6MZ TCGA-SR-A6N0 TCGA-TT-A6YO TCGA-W2-A7HE TCGA-WB-A80L TCGA-WB-A80O 
       11.34        49.61        10.42        16.60        22.29         4.21 
TCGA-WB-A815 TCGA-WB-A816 TCGA-WB-A817 TCGA-WB-A81H TCGA-WB-A81K TCGA-WB-A81S 
        5.98        17.46        32.61        42.54        19.56        11.74 
TCGA-WB-A81T TCGA-XG-A823 
        9.47         6.90 

subtype1 subtype2 subtype3 
    0.92     0.10     0.69 
subtype1 subtype2 subtype3 
  303.09   104.55   110.53 
subtype1 subtype2 subtype3 
  21.780   13.625   12.545 
[1] "0.9 - 303.1 (21.8)" "0.1 - 104.5 (13.6)" "0.7 - 110.5 (12.5)"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 28 22
  subtype2 28 22
  subtype3 19 13
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   28   22
  subtype2   28   22
  subtype3   19   13
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       28       28       19
  MALE         22       22       13
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     2                         2
  subtype2                                0     2                         3
  subtype3                                0     1                         4
          vv
clus       WHITE
  subtype1    44
  subtype2    43
  subtype3    27
D5V4, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE        1        0        0
  ASIAN                                   2        2        1
  BLACK OR AFRICAN AMERICAN               2        3        4
  WHITE                                  44       43       27
[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"
D5V5, binary
          cls
clus        0  1
  subtype1  1 39
  subtype2  0 38
  subtype3  2 24
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   39
  subtype2    0   38
  subtype3    2   24
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            1        0        2
  NOT HISPANIC OR LATINO       39       38       24
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = MIRSEQ_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 45  3
  subtype2 48  1
  subtype3 15  0
  subtype4 20  0
subtype1 subtype2 subtype3 subtype4 
      48       49       15       20 
subtype1 subtype2 subtype3 subtype4 
       3        1        0        0 
$subtype1
TCGA-P7-A5NX TCGA-P8-A5KC TCGA-P8-A6RX TCGA-P8-A6RY TCGA-PR-A5PF TCGA-QT-A5XJ 
       26.89        29.03         0.95         5.88         7.89        36.23 
TCGA-QT-A5XL TCGA-QT-A7U0 TCGA-RM-A68W TCGA-RT-A6Y9 TCGA-RW-A67X TCGA-RW-A680 
        1.81         0.95         0.92        97.22         2.93        33.30 
TCGA-RW-A681 TCGA-RW-A686 TCGA-RW-A68C TCGA-RW-A68D TCGA-RW-A68F TCGA-RW-A7CZ 
       23.80        13.32         6.28        72.79        15.02         4.41 
TCGA-RW-A8AZ TCGA-RX-A8JQ TCGA-S7-A7WP TCGA-S7-A7WQ TCGA-S7-A7WU TCGA-S7-A7X0 
        2.89         0.59        14.50        11.38        19.76         6.08 
TCGA-S7-A7X1 TCGA-SP-A6QD TCGA-SP-A6QG TCGA-SP-A6QH TCGA-SQ-A6I4 TCGA-SR-A6MR 
        7.89       101.49        67.07        61.05         1.41        66.41 
TCGA-SR-A6MT TCGA-SR-A6MV TCGA-SR-A6MX TCGA-TT-A6YK TCGA-TT-A6YP TCGA-W2-A7H7 
      106.75       107.47         3.12        25.15        25.32        17.16 
TCGA-W2-A7UY TCGA-WB-A80K TCGA-WB-A80P TCGA-WB-A80Q TCGA-WB-A80Y TCGA-WB-A814 
       10.65        27.62       303.09       127.56        19.59        32.88 
TCGA-WB-A81E TCGA-WB-A81G TCGA-WB-A81I TCGA-WB-A81P TCGA-WB-A821 TCGA-WB-A822 
       37.18        24.23         1.12        12.99         1.35        92.78 

$subtype2
TCGA-P7-A5NY TCGA-P8-A5KD TCGA-PR-A5PG TCGA-QR-A6GS TCGA-QT-A5XK TCGA-QT-A5XN 
       31.46         2.27        81.70         1.25         6.94        25.18 
TCGA-RT-A6YA TCGA-RT-A6YC TCGA-RW-A67W TCGA-RW-A67Y TCGA-RW-A684 TCGA-RW-A688 
       41.06         8.09        19.86         7.10         1.05         1.22 
TCGA-RW-A68A TCGA-RW-A68B TCGA-RW-A7D0 TCGA-S7-A7WL TCGA-S7-A7WM TCGA-S7-A7WN 
       13.05         7.96         1.78        20.09        24.00        26.30 
TCGA-S7-A7WX TCGA-S7-A7X2 TCGA-SP-A6QC TCGA-SP-A6QF TCGA-SP-A6QI TCGA-SP-A6QJ 
       11.77        12.20       104.55        70.65        98.07         9.01 
TCGA-SQ-A6I6 TCGA-SR-A6MP TCGA-SR-A6MQ TCGA-SR-A6MY TCGA-TT-A6YJ TCGA-TT-A6YN 
        0.10        51.22        54.44        24.66         4.34         7.96 
TCGA-W2-A7H5 TCGA-W2-A7HA TCGA-W2-A7HC TCGA-W2-A7HD TCGA-W2-A7HF TCGA-W2-A7HH 
       14.20         1.18        12.03        12.49        17.69        25.61 
TCGA-WB-A80O TCGA-WB-A80V TCGA-WB-A818 TCGA-WB-A819 TCGA-WB-A81D TCGA-WB-A81F 
        4.21        29.16        26.14         7.69         0.79        24.00 
TCGA-WB-A81J TCGA-WB-A81N TCGA-WB-A81Q TCGA-WB-A81R TCGA-WB-A81S TCGA-WB-A81V 
        1.87        46.22        24.82         1.61        11.74        71.05 
TCGA-WB-A81W 
       56.52 

$subtype3
TCGA-PR-A5PH TCGA-QT-A5XM TCGA-QT-A5XP TCGA-QT-A69Q TCGA-RW-A67V TCGA-RW-A68G 
       28.01         0.72         4.41         0.79        86.89         0.69 
TCGA-S7-A7WR TCGA-S7-A7WT TCGA-SR-A6MS TCGA-WB-A80L TCGA-WB-A80M TCGA-WB-A815 
       29.88        29.98        73.05        22.29         4.47         5.98 
TCGA-WB-A81A TCGA-WB-A81K TCGA-WB-A81M 
       12.20        19.56        21.44 

$subtype4
TCGA-QT-A5XO TCGA-RM-A68T TCGA-RW-A685 TCGA-RW-A689 TCGA-S7-A7WO TCGA-S7-A7WV 
        2.30        38.73         0.85        11.70        23.51        17.33 
TCGA-S7-A7WW TCGA-SP-A6QK TCGA-SR-A6MU TCGA-SR-A6MZ TCGA-SR-A6N0 TCGA-TT-A6YO 
       10.65        99.06       110.53        11.34        49.61        10.42 
TCGA-W2-A7HB TCGA-W2-A7HE TCGA-WB-A80N TCGA-WB-A816 TCGA-WB-A817 TCGA-WB-A81H 
       19.86        16.60         4.73        17.46        32.61        42.54 
TCGA-WB-A81T TCGA-XG-A823 
        9.47         6.90 

subtype1 subtype2 subtype3 subtype4 
    0.59     0.10     0.69     0.85 
subtype1 subtype2 subtype3 subtype4 
  303.09   104.55    86.89   110.53 
subtype1 subtype2 subtype3 subtype4 
  18.375   13.050   19.560   16.965 
[1] "0.6 - 303.1 (18.4)" "0.1 - 104.5 (13.1)" "0.7 - 86.9 (19.6)" 
[4] "0.8 - 110.5 (17.0)"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 24 24
  subtype2 31 18
  subtype3  8  7
  subtype4 12  8
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   24   24
  subtype2   31   18
  subtype3    8    7
  subtype4   12    8
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       24       31        8       12
  MALE         24       18        7        8
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     2                         2
  subtype2                                1     2                         3
  subtype3                                0     0                         1
  subtype4                                0     1                         3
          vv
clus       WHITE
  subtype1    43
  subtype2    41
  subtype3    14
  subtype4    16
D6V4, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE        0        1        0        0
  ASIAN                                   2        2        0        1
  BLACK OR AFRICAN AMERICAN               2        3        1        3
  WHITE                                  43       41       14       16
[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"
D6V5, binary
          cls
clus        0  1
  subtype1  1 36
  subtype2  0 39
  subtype3  0 10
  subtype4  2 16
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   36
  subtype2    0   39
  subtype3    0   10
  subtype4    2   16
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            1        0        0        2
  NOT HISPANIC OR LATINO       36       39       10       16
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = MIRSEQ_MATURE_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 29  0
  subtype2 51  1
  subtype3  8  1
  subtype4 21  1
  subtype5 18  1
subtype1 subtype2 subtype3 subtype4 subtype5 
      29       52        9       22       19 
subtype1 subtype2 subtype3 subtype4 subtype5 
       0        1        1        1        1 
$subtype1
TCGA-P7-A5NX TCGA-P8-A6RY TCGA-PR-A5PF TCGA-PR-A5PH TCGA-QT-A5XJ TCGA-QT-A5XM 
       26.89         5.88         7.89        28.01        36.23         0.72 
TCGA-QT-A5XP TCGA-QT-A69Q TCGA-RT-A6Y9 TCGA-RT-A6YA TCGA-RW-A67V TCGA-RW-A67Y 
        4.41         0.79        97.22        41.06        86.89         7.10 
TCGA-RW-A680 TCGA-RW-A681 TCGA-RW-A68F TCGA-RW-A68G TCGA-S7-A7WR TCGA-S7-A7WT 
       33.30        23.80        15.02         0.69        29.88        29.98 
TCGA-S7-A7WU TCGA-SR-A6MS TCGA-WB-A80K TCGA-WB-A80L TCGA-WB-A80M TCGA-WB-A80Q 
       19.76        73.05        27.62        22.29         4.47       127.56 
TCGA-WB-A815 TCGA-WB-A81A TCGA-WB-A81K TCGA-WB-A81M TCGA-WB-A81S 
        5.98        12.20        19.56        21.44        11.74 

$subtype2
TCGA-P7-A5NY TCGA-P8-A5KD TCGA-PR-A5PG TCGA-QT-A5XK TCGA-QT-A5XN TCGA-QT-A5XO 
       31.46         2.27        81.70         6.94        25.18         2.30 
TCGA-RT-A6YC TCGA-RW-A67W TCGA-RW-A684 TCGA-RW-A685 TCGA-RW-A688 TCGA-RW-A689 
        8.09        19.86         1.05         0.85         1.22        11.70 
TCGA-RW-A68A TCGA-RX-A8JQ TCGA-S7-A7WL TCGA-S7-A7WM TCGA-S7-A7WN TCGA-S7-A7X2 
       13.05         0.59        20.09        24.00        26.30        12.20 
TCGA-SP-A6QC TCGA-SP-A6QF TCGA-SP-A6QI TCGA-SP-A6QJ TCGA-SP-A6QK TCGA-SQ-A6I4 
      104.55        70.65        98.07         9.01        99.06         1.41 
TCGA-SQ-A6I6 TCGA-SR-A6MP TCGA-SR-A6MQ TCGA-SR-A6MU TCGA-SR-A6MY TCGA-SR-A6MZ 
        0.10        51.22        54.44       110.53        24.66        11.34 
TCGA-TT-A6YJ TCGA-TT-A6YN TCGA-W2-A7H5 TCGA-W2-A7HB TCGA-W2-A7HC TCGA-W2-A7HD 
        4.34         7.96        14.20        19.86        12.03        12.49 
TCGA-W2-A7HE TCGA-W2-A7HF TCGA-WB-A80N TCGA-WB-A80V TCGA-WB-A818 TCGA-WB-A819 
       16.60        17.69         4.73        29.16        26.14         7.69 
TCGA-WB-A81D TCGA-WB-A81F TCGA-WB-A81J TCGA-WB-A81N TCGA-WB-A81P TCGA-WB-A81Q 
        0.79        24.00         1.87        46.22        12.99        24.82 
TCGA-WB-A81R TCGA-WB-A81T TCGA-WB-A81V TCGA-WB-A81W 
        1.61         9.47        71.05        56.52 

$subtype3
TCGA-P8-A5KC TCGA-QR-A6GS TCGA-QT-A7U0 TCGA-RW-A68B TCGA-RW-A7D0 TCGA-RW-A8AZ 
       29.03         1.25         0.95         7.96         1.78         2.89 
TCGA-S7-A7WX TCGA-W2-A7HA TCGA-WB-A80O 
       11.77         1.18         4.21 

$subtype4
TCGA-P8-A6RX TCGA-QT-A5XL TCGA-RW-A67X TCGA-RW-A686 TCGA-RW-A68D TCGA-RW-A7CZ 
        0.95         1.81         2.93        13.32        72.79         4.41 
TCGA-S7-A7WP TCGA-S7-A7WQ TCGA-S7-A7X0 TCGA-S7-A7X1 TCGA-SP-A6QD TCGA-SP-A6QG 
       14.50        11.38         6.08         7.89       101.49        67.07 
TCGA-SR-A6MR TCGA-SR-A6MT TCGA-SR-A6MV TCGA-TT-A6YP TCGA-W2-A7HH TCGA-W2-A7UY 
       66.41       106.75       107.47        25.32        25.61        10.65 
TCGA-WB-A80Y TCGA-WB-A814 TCGA-WB-A81E TCGA-WB-A821 
       19.59        32.88        37.18         1.35 

$subtype5
TCGA-RM-A68T TCGA-RM-A68W TCGA-RW-A68C TCGA-S7-A7WO TCGA-S7-A7WV TCGA-S7-A7WW 
       38.73         0.92         6.28        23.51        17.33        10.65 
TCGA-SP-A6QH TCGA-SR-A6MX TCGA-SR-A6N0 TCGA-TT-A6YK TCGA-TT-A6YO TCGA-W2-A7H7 
       61.05         3.12        49.61        25.15        10.42        17.16 
TCGA-WB-A80P TCGA-WB-A816 TCGA-WB-A817 TCGA-WB-A81G TCGA-WB-A81H TCGA-WB-A822 
      303.09        17.46        32.61        24.23        42.54        92.78 
TCGA-XG-A823 
        6.90 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.69     0.10     0.95     0.95     0.92 
subtype1 subtype2 subtype3 subtype4 subtype5 
  127.56   110.53    29.03   107.47   303.09 
subtype1 subtype2 subtype3 subtype4 subtype5 
  21.440   13.625    2.890   17.045   23.510 
[1] "0.7 - 127.6 (21.4)" "0.1 - 110.5 (13.6)" "0.9 - 29.0 (2.9)"  
[4] "0.9 - 107.5 (17.0)" "0.9 - 303.1 (23.5)"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 19 10
  subtype2 29 23
  subtype3  4  5
  subtype4 14  8
  subtype5  9 10
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   19   10
  subtype2   29   23
  subtype3    4    5
  subtype4   14    8
  subtype5    9   10
        clus
vv       subtype1 subtype2 subtype3 subtype4 subtype5
  FEMALE       19       29        4       14        9
  MALE         10       23        5        8       10
[1] 2 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     0                         2
  subtype2                                0     3                         4
  subtype3                                1     0                         0
  subtype4                                0     1                         1
  subtype5                                0     1                         2
          vv
clus       WHITE
  subtype1    27
  subtype2    44
  subtype3     7
  subtype4    19
  subtype5    16
D7V4, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4 subtype5
  AMERICAN INDIAN OR ALASKA NATIVE        0        0        1        0        0
  ASIAN                                   0        3        0        1        1
  BLACK OR AFRICAN AMERICAN               2        4        0        1        2
  WHITE                                  27       44        7       19       16
[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"
D7V5, binary
          cls
clus        0  1
  subtype1  1 19
  subtype2  0 44
  subtype3  0  5
  subtype4  0 17
  subtype5  2 15
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   19
  subtype2    0   44
  subtype3    0    5
  subtype4    0   17
  subtype5    2   15
                        clus
vv                       subtype1 subtype2 subtype3 subtype4 subtype5
  HISPANIC OR LATINO            1        0        0        0        2
  NOT HISPANIC OR LATINO       19       44        5       17       15
[1] 2 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(8) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 61  2
  subtype2 35  2
  subtype3 15  0
  subtype4 16  0
subtype1 subtype2 subtype3 subtype4 
      63       37       15       16 
subtype1 subtype2 subtype3 subtype4 
       2        2        0        0 
$subtype1
TCGA-P7-A5NX TCGA-P7-A5NY TCGA-P8-A5KD TCGA-P8-A6RY TCGA-PR-A5PG TCGA-QR-A6GS 
       26.89        31.46         2.27         5.88        81.70         1.25 
TCGA-QT-A5XK TCGA-QT-A5XN TCGA-QT-A5XO TCGA-RT-A6Y9 TCGA-RT-A6YA TCGA-RT-A6YC 
        6.94        25.18         2.30        97.22        41.06         8.09 
TCGA-RW-A67W TCGA-RW-A67Y TCGA-RW-A681 TCGA-RW-A684 TCGA-RW-A688 TCGA-RW-A68A 
       19.86         7.10        23.80         1.05         1.22        13.05 
TCGA-RW-A68B TCGA-RW-A68F TCGA-RW-A7D0 TCGA-RX-A8JQ TCGA-S7-A7WL TCGA-S7-A7WM 
        7.96        15.02         1.78         0.59        20.09        24.00 
TCGA-S7-A7WN TCGA-S7-A7WU TCGA-S7-A7WX TCGA-S7-A7X2 TCGA-SP-A6QC TCGA-SP-A6QF 
       26.30        19.76        11.77        12.20       104.55        70.65 
TCGA-SP-A6QI TCGA-SP-A6QJ TCGA-SQ-A6I4 TCGA-SQ-A6I6 TCGA-SR-A6MQ TCGA-SR-A6MT 
       98.07         9.01         1.41         0.10        54.44       106.75 
TCGA-SR-A6MY TCGA-TT-A6YJ TCGA-TT-A6YN TCGA-W2-A7H5 TCGA-W2-A7HA TCGA-W2-A7HB 
       24.66         4.34         7.96        14.20         1.18        19.86 
TCGA-W2-A7HC TCGA-W2-A7HD TCGA-W2-A7HF TCGA-W2-A7HH TCGA-WB-A80K TCGA-WB-A80N 
       12.03        12.49        17.69        25.61        27.62         4.73 
TCGA-WB-A80O TCGA-WB-A80V TCGA-WB-A80Y TCGA-WB-A818 TCGA-WB-A819 TCGA-WB-A81D 
        4.21        29.16        19.59        26.14         7.69         0.79 
TCGA-WB-A81F TCGA-WB-A81J TCGA-WB-A81N TCGA-WB-A81P TCGA-WB-A81Q TCGA-WB-A81R 
       24.00         1.87        46.22        12.99        24.82         1.61 
TCGA-WB-A81S TCGA-WB-A81V TCGA-WB-A81W 
       11.74        71.05        56.52 

$subtype2
TCGA-P8-A5KC TCGA-P8-A6RX TCGA-PR-A5PF TCGA-QT-A5XJ TCGA-QT-A5XL TCGA-QT-A7U0 
       29.03         0.95         7.89        36.23         1.81         0.95 
TCGA-RM-A68T TCGA-RM-A68W TCGA-RW-A67X TCGA-RW-A680 TCGA-RW-A686 TCGA-RW-A68C 
       38.73         0.92         2.93        33.30        13.32         6.28 
TCGA-RW-A68D TCGA-RW-A7CZ TCGA-RW-A8AZ TCGA-S7-A7WP TCGA-S7-A7WQ TCGA-S7-A7X0 
       72.79         4.41         2.89        14.50        11.38         6.08 
TCGA-S7-A7X1 TCGA-SP-A6QD TCGA-SP-A6QG TCGA-SP-A6QH TCGA-SR-A6MP TCGA-SR-A6MR 
        7.89       101.49        67.07        61.05        51.22        66.41 
TCGA-SR-A6MV TCGA-SR-A6MX TCGA-TT-A6YK TCGA-TT-A6YP TCGA-W2-A7H7 TCGA-W2-A7UY 
      107.47         3.12        25.15        25.32        17.16        10.65 
TCGA-WB-A80P TCGA-WB-A80Q TCGA-WB-A814 TCGA-WB-A81E TCGA-WB-A81G TCGA-WB-A821 
      303.09       127.56        32.88        37.18        24.23         1.35 
TCGA-WB-A822 
       92.78 

$subtype3
TCGA-PR-A5PH TCGA-QT-A5XM TCGA-QT-A5XP TCGA-QT-A69Q TCGA-RW-A67V TCGA-RW-A68G 
       28.01         0.72         4.41         0.79        86.89         0.69 
TCGA-S7-A7WR TCGA-S7-A7WT TCGA-SR-A6MS TCGA-WB-A80L TCGA-WB-A80M TCGA-WB-A815 
       29.88        29.98        73.05        22.29         4.47         5.98 
TCGA-WB-A81A TCGA-WB-A81K TCGA-WB-A81M 
       12.20        19.56        21.44 

$subtype4
TCGA-RW-A685 TCGA-RW-A689 TCGA-S7-A7WO TCGA-S7-A7WV TCGA-S7-A7WW TCGA-SP-A6QK 
        0.85        11.70        23.51        17.33        10.65        99.06 
TCGA-SR-A6MU TCGA-SR-A6MZ TCGA-SR-A6N0 TCGA-TT-A6YO TCGA-W2-A7HE TCGA-WB-A816 
      110.53        11.34        49.61        10.42        16.60        17.46 
TCGA-WB-A817 TCGA-WB-A81H TCGA-WB-A81T TCGA-XG-A823 
       32.61        42.54         9.47         6.90 

subtype1 subtype2 subtype3 subtype4 
    0.10     0.92     0.69     0.85 
subtype1 subtype2 subtype3 subtype4 
  106.75   303.09    86.89   110.53 
subtype1 subtype2 subtype3 subtype4 
  14.200   24.230   19.560   16.965 
[1] "0.1 - 106.8 (14.2)" "0.9 - 303.1 (24.2)" "0.7 - 86.9 (19.6)" 
[4] "0.8 - 110.5 (17.0)"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 38 25
  subtype2 18 19
  subtype3  8  7
  subtype4 11  5
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   38   25
  subtype2   18   19
  subtype3    8    7
  subtype4   11    5
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       38       18        8       11
  MALE         25       19        7        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"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     2                         4
  subtype2                                0     2                         3
  subtype3                                0     0                         1
  subtype4                                0     1                         1
          vv
clus       WHITE
  subtype1    54
  subtype2    31
  subtype3    14
  subtype4    14
D8V4, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE        1        0        0        0
  ASIAN                                   2        2        0        1
  BLACK OR AFRICAN AMERICAN               4        3        1        1
  WHITE                                  54       31       14       14
[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"
D8V5, binary
          cls
clus        0  1
  subtype1  1 50
  subtype2  0 28
  subtype3  0 10
  subtype4  2 12
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   50
  subtype2    0   28
  subtype3    0   10
  subtype4    2   12
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            1        0        0        2
  NOT HISPANIC OR LATINO       50       28       10       12
[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"
