[1] "ofn"       "-oTLGG-TP"
[1] "opt"       "-OPMUTSIG"
[1] "tl" ""  
[1] "dx" ""  
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/LGG-TP/19775312/LGG-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/LGG-TP/20067756/transformed.cor.cli.txt"

nPatients in clinical file=515, in cluster file=513, common to both=512
[1]  84 512
[1] "IDH1 MUTATION ANALYSIS"
[1] 3
  IDH1 MUTATED IDH1 WILD-TYPE 
           397            115 
  IDH1 MUTATED IDH1 WILD-TYPE 
           397            115 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
           247            265 
  TP53 MUTATED TP53 WILD-TYPE 
           247            265 
[1] "ATRX MUTATION ANALYSIS"
[1] 3
  ATRX MUTATED ATRX WILD-TYPE 
           194            318 
  ATRX MUTATED ATRX WILD-TYPE 
           194            318 
[1] "CIC MUTATION ANALYSIS"
[1] 3
  CIC MUTATED CIC WILD-TYPE 
          108           404 
  CIC MUTATED CIC WILD-TYPE 
          108           404 
[1] "NOTCH1 MUTATION ANALYSIS"
[1] 3
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
              42              470 
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
              42              470 
[1] "IDH2 MUTATION ANALYSIS"
[1] 3
  IDH2 MUTATED IDH2 WILD-TYPE 
            20            492 
  IDH2 MUTATED IDH2 WILD-TYPE 
            20            492 
[1] "PIK3R1 MUTATION ANALYSIS"
[1] 3
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              22              490 
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              22              490 
[1] "FUBP1 MUTATION ANALYSIS"
[1] 3
  FUBP1 MUTATED FUBP1 WILD-TYPE 
             47             465 
  FUBP1 MUTATED FUBP1 WILD-TYPE 
             47             465 
[1] "NF1 MUTATION ANALYSIS"
[1] 3
  NF1 MUTATED NF1 WILD-TYPE 
           33           479 
  NF1 MUTATED NF1 WILD-TYPE 
           33           479 
[1] "ARID1A MUTATION ANALYSIS"
[1] 3
  ARID1A MUTATED ARID1A WILD-TYPE 
              20              492 
  ARID1A MUTATED ARID1A WILD-TYPE 
              20              492 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
            24            488 
  PTEN MUTATED PTEN WILD-TYPE 
            24            488 
[1] "EGFR MUTATION ANALYSIS"
[1] 3
  EGFR MUTATED EGFR WILD-TYPE 
            35            477 
  EGFR MUTATED EGFR WILD-TYPE 
            35            477 
[1] "GAGE2A MUTATION ANALYSIS"
[1] 3
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               8              504 
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               8              504 
[1] "NUDT11 MUTATION ANALYSIS"
[1] 3
  NUDT11 MUTATED NUDT11 WILD-TYPE 
              11              501 
  NUDT11 MUTATED NUDT11 WILD-TYPE 
              11              501 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              44              468 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              44              468 
[1] "STK19 MUTATION ANALYSIS"
[1] 3
  STK19 MUTATED STK19 WILD-TYPE 
             10             502 
  STK19 MUTATED STK19 WILD-TYPE 
             10             502 
[1] "EMG1 MUTATION ANALYSIS"
[1] 3
  EMG1 MUTATED EMG1 WILD-TYPE 
             6            506 
  EMG1 MUTATED EMG1 WILD-TYPE 
             6            506 
[1] "SMARCA4 MUTATION ANALYSIS"
[1] 3
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               26               486 
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               26               486 
[1] "NIPBL MUTATION ANALYSIS"
[1] 3
  NIPBL MUTATED NIPBL WILD-TYPE 
             18             494 
  NIPBL MUTATED NIPBL WILD-TYPE 
             18             494 
[1] "TCF12 MUTATION ANALYSIS"
[1] 3
  TCF12 MUTATED TCF12 WILD-TYPE 
             15             497 
  TCF12 MUTATED TCF12 WILD-TYPE 
             15             497 
[1] "DNMT3A MUTATION ANALYSIS"
[1] 3
  DNMT3A MUTATED DNMT3A WILD-TYPE 
              10              502 
  DNMT3A MUTATED DNMT3A WILD-TYPE 
              10              502 
[1] "TRERF1 MUTATION ANALYSIS"
[1] 3
  TRERF1 MUTATED TRERF1 WILD-TYPE 
               6              506 
  TRERF1 MUTATED TRERF1 WILD-TYPE 
               6              506 
[1] "CREBZF MUTATION ANALYSIS"
[1] 3
  CREBZF MUTATED CREBZF WILD-TYPE 
               7              505 
  CREBZF MUTATED CREBZF WILD-TYPE 
               7              505 
[1] "FAM47C MUTATION ANALYSIS"
[1] 3
  FAM47C MUTATED FAM47C WILD-TYPE 
              18              494 
  FAM47C MUTATED FAM47C WILD-TYPE 
              18              494 
[1] "MYST4 MUTATION ANALYSIS"
[1] 3
  MYST4 MUTATED MYST4 WILD-TYPE 
             11             501 
  MYST4 MUTATED MYST4 WILD-TYPE 
             11             501 
[1] "MED9 MUTATION ANALYSIS"
[1] 3
  MED9 MUTATED MED9 WILD-TYPE 
             3            509 
  MED9 MUTATED MED9 WILD-TYPE 
             3            509 
[1] "IRS4 MUTATION ANALYSIS"
[1] 3
  IRS4 MUTATED IRS4 WILD-TYPE 
             7            505 
  IRS4 MUTATED IRS4 WILD-TYPE 
             7            505 
[1] "HTRA2 MUTATION ANALYSIS"
[1] 3
  HTRA2 MUTATED HTRA2 WILD-TYPE 
              5             507 
  HTRA2 MUTATED HTRA2 WILD-TYPE 
              5             507 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
             4            508 
  NRAS MUTATED NRAS WILD-TYPE 
             4            508 
[1] "TNRC18 MUTATION ANALYSIS"
[1] 3
  TNRC18 MUTATED TNRC18 WILD-TYPE 
               9              503 
  TNRC18 MUTATED TNRC18 WILD-TYPE 
               9              503 
[1] "ZNF709 MUTATION ANALYSIS"
[1] 3
  ZNF709 MUTATED ZNF709 WILD-TYPE 
               4              508 
  ZNF709 MUTATED ZNF709 WILD-TYPE 
               4              508 
[1] "PLXNA3 MUTATION ANALYSIS"
[1] 3
  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
               9              503 
  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
               9              503 
[1] "ROBO3 MUTATION ANALYSIS"
[1] 3
  ROBO3 MUTATED ROBO3 WILD-TYPE 
              5             507 
  ROBO3 MUTATED ROBO3 WILD-TYPE 
              5             507 
[1] "RB1 MUTATION ANALYSIS"
[1] 3
  RB1 MUTATED RB1 WILD-TYPE 
            6           506 
  RB1 MUTATED RB1 WILD-TYPE 
            6           506 
[1] "SRPX MUTATION ANALYSIS"
[1] 3
  SRPX MUTATED SRPX WILD-TYPE 
             4            508 
  SRPX MUTATED SRPX WILD-TYPE 
             4            508 
[1] "PDGFRA MUTATION ANALYSIS"
[1] 3
  PDGFRA MUTATED PDGFRA WILD-TYPE 
              10              502 
  PDGFRA MUTATED PDGFRA WILD-TYPE 
              10              502 
[1] "ZNF512B MUTATION ANALYSIS"
[1] 3
  ZNF512B MUTATED ZNF512B WILD-TYPE 
                5               507 
  ZNF512B MUTATED ZNF512B WILD-TYPE 
                5               507 
[1] "ZMIZ1 MUTATION ANALYSIS"
[1] 3
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
              9             503 
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
              9             503 
[1] "TMEM216 MUTATION ANALYSIS"
[1] 3
  TMEM216 MUTATED TMEM216 WILD-TYPE 
                3               509 
  TMEM216 MUTATED TMEM216 WILD-TYPE 
                3               509 
[1] "ARID2 MUTATION ANALYSIS"
[1] 3
  ARID2 MUTATED ARID2 WILD-TYPE 
             11             501 
  ARID2 MUTATED ARID2 WILD-TYPE 
             11             501 
[1] "RBPJ MUTATION ANALYSIS"
[1] 3
  RBPJ MUTATED RBPJ WILD-TYPE 
             7            505 
  RBPJ MUTATED RBPJ WILD-TYPE 
             7            505 
[1] "CUL4B MUTATION ANALYSIS"
[1] 3
  CUL4B MUTATED CUL4B WILD-TYPE 
             10             502 
  CUL4B MUTATED CUL4B WILD-TYPE 
             10             502 
[1] "SLC6A3 MUTATION ANALYSIS"
[1] 3
  SLC6A3 MUTATED SLC6A3 WILD-TYPE 
               9              503 
  SLC6A3 MUTATED SLC6A3 WILD-TYPE 
               9              503 
[1] "SETD2 MUTATION ANALYSIS"
[1] 3
  SETD2 MUTATED SETD2 WILD-TYPE 
             10             502 
  SETD2 MUTATED SETD2 WILD-TYPE 
             10             502 
[1] "KRT3 MUTATION ANALYSIS"
[1] 3
  KRT3 MUTATED KRT3 WILD-TYPE 
             4            508 
  KRT3 MUTATED KRT3 WILD-TYPE 
             4            508 
[1] "MYT1 MUTATION ANALYSIS"
[1] 3
  MYT1 MUTATED MYT1 WILD-TYPE 
             6            506 
  MYT1 MUTATED MYT1 WILD-TYPE 
             6            506 
[1] "SMOC1 MUTATION ANALYSIS"
[1] 3
  SMOC1 MUTATED SMOC1 WILD-TYPE 
              3             509 
  SMOC1 MUTATED SMOC1 WILD-TYPE 
              3             509 
[1] "ZBTB20 MUTATION ANALYSIS"
[1] 3
  ZBTB20 MUTATED ZBTB20 WILD-TYPE 
              21              491 
  ZBTB20 MUTATED ZBTB20 WILD-TYPE 
              21              491 
[1] "PPL MUTATION ANALYSIS"
[1] 3
  PPL MUTATED PPL WILD-TYPE 
            6           506 
  PPL MUTATED PPL WILD-TYPE 
            6           506 
[1] "PTPN11 MUTATION ANALYSIS"
[1] 3
  PTPN11 MUTATED PTPN11 WILD-TYPE 
               7              505 
  PTPN11 MUTATED PTPN11 WILD-TYPE 
               7              505 
[1] "RET MUTATION ANALYSIS"
[1] 3
  RET MUTATED RET WILD-TYPE 
            7           505 
  RET MUTATED RET WILD-TYPE 
            7           505 
[1] "ANKRD36 MUTATION ANALYSIS"
[1] 3
  ANKRD36 MUTATED ANKRD36 WILD-TYPE 
                7               505 
  ANKRD36 MUTATED ANKRD36 WILD-TYPE 
                7               505 
[1] "NEU2 MUTATION ANALYSIS"
[1] 3
  NEU2 MUTATED NEU2 WILD-TYPE 
             5            507 
  NEU2 MUTATED NEU2 WILD-TYPE 
             5            507 
[1] "PRX MUTATION ANALYSIS"
[1] 3
  PRX MUTATED PRX WILD-TYPE 
           10           502 
  PRX MUTATED PRX WILD-TYPE 
           10           502 
[1] "RBBP6 MUTATION ANALYSIS"
[1] 3
  RBBP6 MUTATED RBBP6 WILD-TYPE 
              6             506 
  RBBP6 MUTATED RBBP6 WILD-TYPE 
              6             506 
[1] "CIB1 MUTATION ANALYSIS"
[1] 3
  CIB1 MUTATED CIB1 WILD-TYPE 
             4            508 
  CIB1 MUTATED CIB1 WILD-TYPE 
             4            508 
[1] "DDX5 MUTATION ANALYSIS"
[1] 3
  DDX5 MUTATED DDX5 WILD-TYPE 
             5            507 
  DDX5 MUTATED DDX5 WILD-TYPE 
             5            507 
[1] "NAP1L2 MUTATION ANALYSIS"
[1] 3
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
               4              508 
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
               4              508 
[1] "SCN4A MUTATION ANALYSIS"
[1] 3
  SCN4A MUTATED SCN4A WILD-TYPE 
              6             506 
  SCN4A MUTATED SCN4A WILD-TYPE 
              6             506 
[1] "AGBL1 MUTATION ANALYSIS"
[1] 3
  AGBL1 MUTATED AGBL1 WILD-TYPE 
              5             507 
  AGBL1 MUTATED AGBL1 WILD-TYPE 
              5             507 
[1] "TPX2 MUTATION ANALYSIS"
[1] 3
  TPX2 MUTATED TPX2 WILD-TYPE 
             5            507 
  TPX2 MUTATED TPX2 WILD-TYPE 
             5            507 
[1] "KRT15 MUTATION ANALYSIS"
[1] 3
  KRT15 MUTATED KRT15 WILD-TYPE 
              6             506 
  KRT15 MUTATED KRT15 WILD-TYPE 
              6             506 
[1] "HTR3A MUTATION ANALYSIS"
[1] 3
  HTR3A MUTATED HTR3A WILD-TYPE 
              7             505 
  HTR3A MUTATED HTR3A WILD-TYPE 
              7             505 
[1] "C14ORF4 MUTATION ANALYSIS"
[1] 3
  C14ORF4 MUTATED C14ORF4 WILD-TYPE 
                3               509 
  C14ORF4 MUTATED C14ORF4 WILD-TYPE 
                3               509 
[1] "R3HDM1 MUTATION ANALYSIS"
[1] 3
  R3HDM1 MUTATED R3HDM1 WILD-TYPE 
               7              505 
  R3HDM1 MUTATED R3HDM1 WILD-TYPE 
               7              505 
[1] "G6PC MUTATION ANALYSIS"
[1] 3
  G6PC MUTATED G6PC WILD-TYPE 
             6            506 
  G6PC MUTATED G6PC WILD-TYPE 
             6            506 
[1] "DLC1 MUTATION ANALYSIS"
[1] 3
  DLC1 MUTATED DLC1 WILD-TYPE 
             6            506 
  DLC1 MUTATED DLC1 WILD-TYPE 
             6            506 
[1] "SLC12A7 MUTATION ANALYSIS"
[1] 3
  SLC12A7 MUTATED SLC12A7 WILD-TYPE 
                7               505 
  SLC12A7 MUTATED SLC12A7 WILD-TYPE 
                7               505 
[1] "SMARCB1 MUTATION ANALYSIS"
[1] 3
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
                4               508 
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
                4               508 
[1] "WRN MUTATION ANALYSIS"
[1] 3
  WRN MUTATED WRN WILD-TYPE 
            5           507 
  WRN MUTATED WRN WILD-TYPE 
            5           507 
[1] "LAMA4 MUTATION ANALYSIS"
[1] 3
  LAMA4 MUTATED LAMA4 WILD-TYPE 
              4             508 
  LAMA4 MUTATED LAMA4 WILD-TYPE 
              4             508 
[1] "MAST2 MUTATION ANALYSIS"
[1] 3
  MAST2 MUTATED MAST2 WILD-TYPE 
              5             507 
  MAST2 MUTATED MAST2 WILD-TYPE 
              5             507 
[1] "ZMYM2 MUTATION ANALYSIS"
[1] 3
  ZMYM2 MUTATED ZMYM2 WILD-TYPE 
              7             505 
  ZMYM2 MUTATED ZMYM2 WILD-TYPE 
              7             505 
[1] "SLFN11 MUTATION ANALYSIS"
[1] 3
  SLFN11 MUTATED SLFN11 WILD-TYPE 
               4              508 
  SLFN11 MUTATED SLFN11 WILD-TYPE 
               4              508 
[1] "C4BPA MUTATION ANALYSIS"
[1] 3
  C4BPA MUTATED C4BPA WILD-TYPE 
              6             506 
  C4BPA MUTATED C4BPA WILD-TYPE 
              6             506 
[1] "TMEM184A MUTATION ANALYSIS"
[1] 3
  TMEM184A MUTATED TMEM184A WILD-TYPE 
                 3                509 
  TMEM184A MUTATED TMEM184A WILD-TYPE 
                 3                509 
[1] "KTELC1 MUTATION ANALYSIS"
[1] 3
  KTELC1 MUTATED KTELC1 WILD-TYPE 
               5              507 
  KTELC1 MUTATED KTELC1 WILD-TYPE 
               5              507 
[1] "ASXL2 MUTATION ANALYSIS"
[1] 3
  ASXL2 MUTATED ASXL2 WILD-TYPE 
              3             509 
  ASXL2 MUTATED ASXL2 WILD-TYPE 
              3             509 
[1] "CCDC135 MUTATION ANALYSIS"
[1] 3
  CCDC135 MUTATED CCDC135 WILD-TYPE 
                7               505 
  CCDC135 MUTATED CCDC135 WILD-TYPE 
                7               505 
[1] "SLC25A5 MUTATION ANALYSIS"
[1] 3
  SLC25A5 MUTATED SLC25A5 WILD-TYPE 
                4               508 
  SLC25A5 MUTATED SLC25A5 WILD-TYPE 
                4               508 
[1] "ABCA7 MUTATION ANALYSIS"
[1] 3
  ABCA7 MUTATED ABCA7 WILD-TYPE 
              9             503 
  ABCA7 MUTATED ABCA7 WILD-TYPE 
              9             503 
[1] "NKD2 MUTATION ANALYSIS"
[1] 3
  NKD2 MUTATED NKD2 WILD-TYPE 
             4            508 
  NKD2 MUTATED NKD2 WILD-TYPE 
             4            508 
[1] "MAX MUTATION ANALYSIS"
[1] 3
  MAX MUTATED MAX WILD-TYPE 
            4           508 
  MAX MUTATED MAX WILD-TYPE 
            4           508 
[1] "VSIG4 MUTATION ANALYSIS"
[1] 3
  VSIG4 MUTATED VSIG4 WILD-TYPE 
              6             506 
  VSIG4 MUTATED VSIG4 WILD-TYPE 
              6             506 
[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 512 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=115,	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=366,	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 512 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 = IDH1 MUTATION ANALYSIS
D1V1, survival
                sevent
clus2              0   1
  IDH1 MUTATED   326  68
  IDH1 WILD-TYPE  64  51
  IDH1 MUTATED IDH1 WILD-TYPE 
           394            115 
  IDH1 MUTATED IDH1 WILD-TYPE 
            68             51 
$`IDH1 MUTATED`
TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5390 TCGA-CS-5393 
        4.70        43.89        18.15        10.62        64.64        40.18 
TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 
        0.10         9.96        17.95        12.43        46.95         7.56 
TCGA-CS-6668 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       33.57        31.63        24.20        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       11.24        17.88        30.74        63.88        46.06         8.02 
TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7US 
       30.21        42.05        27.81        17.19        17.19        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5851 TCGA-DU-5853 TCGA-DU-5855 
       17.46        13.71        18.61        17.46        13.38         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 
      182.33        18.94        17.49        15.16        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6407 
       49.02        75.16        46.06         1.22        87.45        94.52 
TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
      114.08         7.96         2.40        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7294 
       14.99       105.21        90.77        30.67        26.30        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       18.94        44.02        62.01        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       41.98        20.68        21.40        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 
       33.27        29.85        31.69        26.17        24.99        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76O TCGA-DU-A76R 
       21.57        95.11        20.98        22.29        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TC TCGA-DU-A7TG TCGA-E1-5302 TCGA-E1-5303 
       17.98       139.04        37.38        44.42        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5319 TCGA-E1-5322 
       41.13        79.99        57.93       134.27        95.57       130.78 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YO TCGA-E1-A7YS 
       29.13        93.21         3.65        12.43        75.02        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z3 TCGA-E1-A7Z4 
        0.76        32.45        36.82       146.14        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5964 
       32.35        39.48         0.23         0.20        47.77        52.21 
TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-7636 
       36.82        14.93        42.54        41.33        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       40.08        22.55        20.61        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A4MY 
       20.09        14.96        32.61        38.27        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FN-7833 
       28.54        36.66        48.69        20.45        18.64        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        0.10         6.67        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
        3.75        17.42        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       16.24         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7855 
        0.10         2.96        17.52         6.90        14.53        19.23 
TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
       50.63        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8012 
        5.33        35.47        11.28        31.43         1.64         9.40 
TCGA-HT-8013 TCGA-HT-8018 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8108 TCGA-HT-8109 
       63.55        37.87         6.25         0.10         2.50         5.56 
TCGA-HT-8111 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
        0.23        34.19        28.27        26.04         0.13        20.22 
TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A618 TCGA-HT-A619 
        0.10         2.70        16.93         1.81        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
        6.38        17.52        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7495 TCGA-HW-8319 
       56.58        13.45        41.49        45.60        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KL TCGA-HW-A5KM 
       40.01        42.54         6.18        10.55        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        42.77        14.40         0.23         6.71         7.99 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72W 
        2.30         4.11         5.88         7.63         0.76        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       13.25        11.64         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CY 
        2.53        12.62        14.04        14.83        13.61         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
       16.50        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TZ TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       28.14        36.82        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       98.24        95.93       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       38.56        84.99        31.10        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       14.07        36.13         7.92        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QZ 
        8.19         2.04        20.68        15.06        18.54        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89Z 
      169.84        99.06        30.05        98.63        31.59        20.48 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84F TCGA-TM-A84G 
       48.33        49.32        34.78        65.39        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       30.44        28.08        40.83        24.79        33.24        25.38 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       40.41        44.09        36.69        33.73        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8CA 
       33.93        61.41        26.99        31.36        43.04        13.51 
TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        0.10        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
       23.21        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

$`IDH1 WILD-TYPE`
TCGA-CS-4941 TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6669 
        7.69        21.01         6.38        17.69        23.84        49.12 
TCGA-DB-A4XG TCGA-DB-A64O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-A7UR 
       72.95        25.48        16.18        19.96        31.82        54.25 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-6392 TCGA-DU-6399 
       18.02        14.56         6.74         8.45       211.17        65.75 
TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-7006 
        7.04        11.64       133.74        19.89        16.83        11.47 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7309 TCGA-DU-8158 
        6.54         8.84        10.36         7.96         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8165 TCGA-DU-A5TT TCGA-DU-A5TY TCGA-DU-A76K 
       23.74        14.60        19.13        24.43        33.96        11.41 
TCGA-DU-A76L TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TD TCGA-DU-A7TJ TCGA-E1-5318 
       26.76        84.33        51.52         7.50         0.56        78.21 
TCGA-E1-A7YD TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YQ 
       14.30        19.46        16.18        21.30        23.90        51.88 
TCGA-E1-A7Z2 TCGA-FG-5963 TCGA-FG-6688 TCGA-FG-6692 TCGA-FG-7643 TCGA-FG-8181 
       13.08        25.48        18.77        18.44        20.09        28.34 
TCGA-FG-8189 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A70Z TCGA-FG-A87Q TCGA-HT-7469 
       22.52        10.72        18.38        10.78         5.72        11.54 
TCGA-HT-7476 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7691 TCGA-HT-7854 TCGA-HT-7856 
        6.54         0.76        44.68         0.10        39.48        39.09 
TCGA-HT-7857 TCGA-HT-7860 TCGA-HT-7882 TCGA-HT-8011 TCGA-HT-8015 TCGA-HT-8019 
        0.23         0.49         3.72        16.24         0.10        33.01 
TCGA-HT-8104 TCGA-HT-8107 TCGA-HT-8110 TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-8564 
       12.23         0.46        13.78        29.59        13.74        15.72 
TCGA-HT-A4DS TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A617 TCGA-HT-A61C 
        0.23         0.07        27.35         5.33        16.14        17.65 
TCGA-HT-A74H TCGA-HW-7491 TCGA-HW-A5KK TCGA-KT-A7W1 TCGA-P5-A5EY TCGA-P5-A5F6 
        2.43        68.32        12.76        14.40         2.37         1.28 
TCGA-P5-A72U TCGA-P5-A730 TCGA-QH-A65X TCGA-QH-A6CS TCGA-QH-A6CV TCGA-QH-A6CX 
        0.23        10.95        15.85        19.33        14.53        12.23 
TCGA-QH-A6XC TCGA-S9-A6TY TCGA-S9-A6U0 TCGA-S9-A6UA TCGA-S9-A6WM TCGA-S9-A7IX 
        5.03        35.38        24.39         5.85        19.86        26.93 
TCGA-S9-A7QY TCGA-S9-A7R2 TCGA-S9-A89V TCGA-TM-A7C3 TCGA-TM-A84B TCGA-TM-A84C 
       28.37        10.39        18.71        54.77        24.92        16.18 
TCGA-TM-A84J TCGA-TM-A84R TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-VM-A8C9 TCGA-VM-A8CD 
       24.16        18.61        31.20        30.05        43.20         7.89 
TCGA-VW-A8FI 
        8.05 

  IDH1 MUTATED IDH1 WILD-TYPE 
          0.03           0.07 
  IDH1 MUTATED IDH1 WILD-TYPE 
        182.33         211.17 
  IDH1 MUTATED IDH1 WILD-TYPE 
         23.26          16.18 
[1] "0.0 - 182.3 (23.3)" "0.1 - 211.2 (16.2)"
[1] "hr=" "4.2"
D1V2, continuous
D1V3, binary
                cls
clus               0   1
  IDH1 MUTATED   178 219
  IDH1 WILD-TYPE  51  64
[1] "tbl2"
                cls
clus             [,1] [,2]
  IDH1 MUTATED    178  219
  IDH1 WILD-TYPE   51   64
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  FEMALE          178             51
  MALE            219             64
[1] 2 2
[1] FALSE
D1V4, binary
                cls
clus               0   1
  IDH1 MUTATED   157 216
  IDH1 WILD-TYPE  29  75
[1] "tbl2"
                cls
clus             [,1] [,2]
  IDH1 MUTATED    157  216
  IDH1 WILD-TYPE   29   75
     clus
vv    IDH1 MUTATED IDH1 WILD-TYPE
  NO           157             29
  YES          216             75
[1] 2 2
[1] FALSE
D1V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  IDH1 MUTATED           134              109               154
  IDH1 WILD-TYPE          58               21                36
D1V6, multiclass
                   clus
vv                  IDH1 MUTATED IDH1 WILD-TYPE
  ASTROCYTOMA                134             58
  OLIGOASTROCYTOMA           109             21
  OLIGODENDROGLIOMA          154             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  IDH1 MUTATED                                  0     6
  IDH1 WILD-TYPE                                1     2
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  IDH1 MUTATED                          12   371
  IDH1 WILD-TYPE                         9   101
D1V7, multiclass
                                  clus
vv                                 IDH1 MUTATED IDH1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       6              2
  BLACK OR AFRICAN AMERICAN                  12              9
  WHITE                                     371            101
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V8, binary
                cls
clus               0   1
  IDH1 MUTATED    25 346
  IDH1 WILD-TYPE   7 100
[1] "tbl2"
                cls
clus             [,1] [,2]
  IDH1 MUTATED     25  346
  IDH1 WILD-TYPE    7  100
                        clus
vv                       IDH1 MUTATED IDH1 WILD-TYPE
  HISPANIC OR LATINO               25              7
  NOT HISPANIC OR LATINO          346            100
[1] 2 2
[1] FALSE

Clustering(2) Variable = TP53 MUTATION ANALYSIS
D2V1, survival
                sevent
clus2              0   1
  TP53 MUTATED   192  54
  TP53 WILD-TYPE 198  65
  TP53 MUTATED TP53 WILD-TYPE 
           246            263 
  TP53 MUTATED TP53 WILD-TYPE 
            54             65 
$`TP53 MUTATED`
TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-5393 TCGA-CS-5396 TCGA-CS-6290 
        4.70        43.89        18.15        40.18         9.96        17.95 
TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5275 
       12.43        46.95         7.56       122.73        81.96        47.93 
TCGA-DB-5277 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XB TCGA-DB-A4XC 
       50.86        36.56        78.28        46.42        30.21        46.72 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A64S TCGA-DB-A64X TCGA-DB-A75L 
       39.78        37.45        33.57        27.45        18.51        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-A66B 
       17.88        30.74        19.96        63.88        46.06        42.05 
TCGA-DH-A66D TCGA-DH-A66G TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5851 
       27.81        17.19        17.46        13.71        18.61        17.46 
TCGA-DU-5853 TCGA-DU-5855 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6392 TCGA-DU-6395 
       13.38         6.81        18.94        17.49       211.17        49.02 
TCGA-DU-6396 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6542 
       75.16        65.75        87.45        94.52       114.08         2.40 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7013 TCGA-DU-7015 
       62.96       156.23        14.99       105.21         8.84        90.77 
TCGA-DU-7019 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7304 
       26.30        18.94        44.02        62.01        25.91        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8163 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       41.98         2.76        20.68        19.13        16.96        15.48 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S7 
       33.27        29.85        24.43        26.17        24.99        20.98 
TCGA-DU-A76O TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TC TCGA-E1-5302 TCGA-E1-5303 
       17.16       139.04        84.33        37.38        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
       41.13        79.99        57.93       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YU TCGA-E1-A7YW 
       93.21         3.65        12.43        16.18         0.76        36.82 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5965 
       73.48       145.05        32.35         0.20        25.48        36.82 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7636 TCGA-FG-8182 TCGA-FG-8185 
       14.93        42.54        41.33        17.88        13.68        14.24 
TCGA-FG-8188 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       14.96        32.61        38.27        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A711 TCGA-FN-7833 TCGA-HT-7469 
       21.53        22.26        28.54        48.69        27.52        11.54 
TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
       40.11         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       24.26         6.38        40.34       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7606 TCGA-HT-7609 
        5.03        29.85        23.18       122.47        17.29        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7676 TCGA-HT-7686 TCGA-HT-7688 TCGA-HT-7689 
       56.09        57.60         0.16        42.74        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7693 TCGA-HT-7855 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7879 
        0.10        17.52        19.23        50.63        23.61         3.68 
TCGA-HT-7880 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8013 TCGA-HT-8018 TCGA-HT-8105 
        5.33        11.28        31.43        63.55        37.87         6.25 
TCGA-HT-8106 TCGA-HT-8108 TCGA-HT-8111 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 
        0.10         2.50         0.23        34.19        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A5R5 TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A618 TCGA-HT-A61B 
        0.23         0.13         0.10         2.70        16.83        17.52 
TCGA-HT-A74J TCGA-HT-A74O TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-8319 TCGA-HW-8320 
       10.52         0.10        41.49        45.60        39.75        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-A5F2 TCGA-P5-A5F4 TCGA-P5-A72W TCGA-P5-A72X 
        2.30         5.88         7.63         0.76        10.42        13.25 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A780 TCGA-QH-A65S TCGA-QH-A6CW 
       13.61         9.60         7.56         2.37         2.53        13.61 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A870 TCGA-RY-A83Z 
        9.17        10.29         1.91        16.50        12.99         9.90 
TCGA-RY-A845 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TZ TCGA-S9-A6U6 
       19.59        62.17        87.12        18.77        36.82        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6WG TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IZ 
       98.24        95.93        85.55        18.61        14.07        19.99 
TCGA-S9-A7J0 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QZ TCGA-S9-A7R3 TCGA-S9-A7R4 
       20.02        15.06        18.54        27.16        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF 
       98.63        31.59        20.48        48.33        34.78        65.39 
TCGA-TM-A84F TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       59.05        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84Q TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RH TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       25.38        23.80        21.37        15.98        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RR TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       36.69        33.73        25.87        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8CF TCGA-VV-A86M TCGA-VW-A8FI TCGA-WH-A86K TCGA-WY-A858 
       43.04        20.02        16.01         8.05        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

$`TP53 WILD-TYPE`
TCGA-CS-4941 TCGA-CS-4944 TCGA-CS-5390 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5397 
        7.69        10.62        64.64         0.10        21.01         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6668 TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5274 
       17.69        23.84        49.94        49.12         6.61        75.25 
TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-A4XA TCGA-DB-A4XG TCGA-DB-A4XH 
       72.92        91.13        44.52        18.84        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64U 
       24.20        25.48        30.12         5.98        31.40        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A75K TCGA-DB-A75P TCGA-DH-5141 TCGA-DH-5144 
       29.23        14.40        12.10        16.18        31.82         8.02 
TCGA-DH-A669 TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US TCGA-DU-5847 TCGA-DU-5849 
       30.21        17.19        54.25        23.21        18.02        14.56 
TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-5870 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 
        6.74         8.45       182.33        15.16        52.11        22.42 
TCGA-DU-6397 TCGA-DU-6400 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
       46.06         1.22         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6410 TCGA-DU-7006 TCGA-DU-7009 TCGA-DU-7012 TCGA-DU-7018 
       16.83         7.96        11.47       154.36         6.54        30.67 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7302 TCGA-DU-8158 TCGA-DU-8161 
       10.36         7.96        94.32        60.30         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-8168 TCGA-DU-A5TS TCGA-DU-A5TY TCGA-DU-A6S2 
       14.60        21.40        14.17        31.69        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R 
       21.57        95.11        22.29        11.41        26.76        21.30 
TCGA-DU-A7T6 TCGA-DU-A7TB TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5311 
       17.98        51.52         7.50        44.42         0.56       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-A7YJ TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
       78.21        95.57        19.46        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YV TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-EZ-7264 
       51.88        15.32        32.45       146.14        13.08        39.48 
TCGA-F6-A8O3 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-6688 TCGA-FG-6692 TCGA-FG-7634 
        0.23        47.77        52.21        18.77        18.44        15.35 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8186 
       40.08        22.55        20.61        20.09        28.34        16.01 
TCGA-FG-8187 TCGA-FG-8189 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A60K TCGA-FG-A6IZ 
       20.09        22.52        10.72        18.38        17.82        15.02 
TCGA-FG-A6J1 TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       16.44        10.78        36.66        20.45        18.64         5.72 
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-7607 TCGA-HT-7608 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7677 TCGA-HT-7680 
        3.16        22.06         0.23        14.27        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7687 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7694 
       44.68         6.05         0.10         0.10         2.96         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7860 TCGA-HT-7874 
       14.53        39.48        39.09         0.23         0.49        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-8010 TCGA-HT-8011 
        0.33         0.13        35.47         3.72         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8107 TCGA-HT-8109 
        9.40         0.10        33.01        12.23         0.46         5.56 
TCGA-HT-8110 TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-A4DV TCGA-HT-A5R7 TCGA-HT-A5R9 
       13.78        29.59        13.74        26.04        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A619 
       27.35         5.33        16.93         1.81        16.14        21.40 
TCGA-HT-A61A TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74K TCGA-HT-A74L TCGA-HW-7486 
        6.38        17.65         2.43        15.35        11.05        56.58 
TCGA-HW-7487 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       13.45        68.32        35.44         6.18        10.55        12.76 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 
       42.77        14.40        14.40         7.99         2.37         4.11 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A737 
        1.28         0.23        11.64        10.95         9.01        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-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CX TCGA-QH-A6CY 
       14.04        19.33        14.83        14.53        12.23         2.20 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6XC TCGA-QH-A86X TCGA-R8-A6MK 
       14.53        16.34        16.73         5.03        11.08        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 
       94.03        32.65        59.38        30.87         5.46        28.08 
TCGA-RY-A843 TCGA-RY-A847 TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6U0 
        2.07        30.67        41.10        28.14        35.38        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       25.81        29.85        32.61         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
      135.22        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WP TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7J1 
       18.64        36.13         7.92        26.93        23.51         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QY TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A89V 
        2.04        20.68        28.37       169.84        10.39        18.71 
TCGA-TM-A7C3 TCGA-TM-A7C5 TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84G TCGA-TM-A84O 
       54.77        49.32        24.92        16.18        40.64        33.24 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RO TCGA-TQ-A7RP 
       18.61        14.93        19.69         2.04        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       26.14        33.93        43.20        13.51         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 TCGA-VW-A7QS TCGA-W9-A837 
       39.16        23.47        37.05        23.21        51.06 

  TP53 MUTATED TP53 WILD-TYPE 
          0.03           0.07 
  TP53 MUTATED TP53 WILD-TYPE 
        211.17         182.33 
  TP53 MUTATED TP53 WILD-TYPE 
         24.61          18.71 
[1] "0.0 - 211.2 (24.6)" "0.1 - 182.3 (18.7)"
[1] "hr=" "1.4"
D2V2, continuous
D2V3, binary
                cls
clus               0   1
  TP53 MUTATED   104 143
  TP53 WILD-TYPE 125 140
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED    104  143
  TP53 WILD-TYPE  125  140
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  FEMALE          104            125
  MALE            143            140
[1] 2 2
[1] FALSE
D2V4, binary
                cls
clus               0   1
  TP53 MUTATED    71 163
  TP53 WILD-TYPE 115 128
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED     71  163
  TP53 WILD-TYPE  115  128
     clus
vv    TP53 MUTATED TP53 WILD-TYPE
  NO            71            115
  YES          163            128
[1] 2 2
[1] FALSE
D2V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  TP53 MUTATED           129               74                44
  TP53 WILD-TYPE          63               56               146
D2V6, multiclass
                   clus
vv                  TP53 MUTATED TP53 WILD-TYPE
  ASTROCYTOMA                129             63
  OLIGOASTROCYTOMA            74             56
  OLIGODENDROGLIOMA           44            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TP53 MUTATED                                  0     1
  TP53 WILD-TYPE                                1     7
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  TP53 MUTATED                           7   237
  TP53 WILD-TYPE                        14   235
D2V7, multiclass
                                  clus
vv                                 TP53 MUTATED TP53 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       1              7
  BLACK OR AFRICAN AMERICAN                   7             14
  WHITE                                     237            235
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V8, binary
                cls
clus               0   1
  TP53 MUTATED    17 215
  TP53 WILD-TYPE  15 231
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED     17  215
  TP53 WILD-TYPE   15  231
                        clus
vv                       TP53 MUTATED TP53 WILD-TYPE
  HISPANIC OR LATINO               17             15
  NOT HISPANIC OR LATINO          215            231
[1] 2 2
[1] FALSE

Clustering(3) Variable = ATRX MUTATION ANALYSIS
D3V1, survival
                sevent
clus2              0   1
  ATRX MUTATED   148  45
  ATRX WILD-TYPE 242  74
  ATRX MUTATED ATRX WILD-TYPE 
           193            316 
  ATRX MUTATED ATRX WILD-TYPE 
            45             74 
$`ATRX MUTATED`
TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-6666 TCGA-DB-5270 TCGA-DB-5273 
        4.70        43.89        18.15        46.95       122.73        81.96 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4XB TCGA-DB-A4XC 
       47.93        72.92        36.56        78.28        30.21        46.72 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A64S TCGA-DB-A75M TCGA-DB-A75O TCGA-DH-5142 
       39.78        37.45        27.45        17.88        30.74        63.88 
TCGA-DH-5144 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66G TCGA-DH-A7UV TCGA-DU-5851 
        8.02        42.05        27.81        17.19        18.61        17.46 
TCGA-DU-5853 TCGA-DU-5855 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6392 TCGA-DU-6395 
       13.38         6.81        18.94        17.49       211.17        49.02 
TCGA-DU-6396 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-7007 
       75.16        65.75        87.45        94.52       114.08        62.96 
TCGA-DU-7008 TCGA-DU-7011 TCGA-DU-7015 TCGA-DU-7298 TCGA-DU-7301 TCGA-DU-7304 
      156.23       105.21        90.77        18.94        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-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
      139.04        84.33        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK 
       57.93       130.78        29.13        93.21         3.65        12.43 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-F6-A8O4 
       32.45        36.82        73.48       145.05        32.35         0.20 
TCGA-FG-5963 TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7636 
       25.48        36.82        14.93        42.54        41.33        17.88 
TCGA-FG-7638 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8188 TCGA-FG-8191 TCGA-FG-A4MT 
       22.55        13.68        14.24        14.96        32.61        38.27 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A70Y TCGA-FG-A711 TCGA-FG-A713 TCGA-FN-7833 
       18.71        23.70        28.54        48.69        20.45        27.52 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       11.54        40.11         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
        6.54        24.26         6.38       106.95       172.77         4.01 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7676 TCGA-HT-7686 
       23.18       122.47        56.09        57.60         0.16        42.74 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7693 TCGA-HT-7855 TCGA-HT-7857 
       31.69        14.96         0.10        17.52        19.23         0.23 
TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7884 TCGA-HT-7902 
       50.63        23.61         3.68         5.33        11.28        31.43 
TCGA-HT-8013 TCGA-HT-8018 TCGA-HT-8108 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A5R5 
       63.55        37.87         2.50        34.19        28.27         0.13 
TCGA-HT-A5R7 TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A616 TCGA-HT-A618 TCGA-HT-A74J 
       20.22         0.10         2.70         1.81        16.83        10.52 
TCGA-HT-A74O TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-8319 TCGA-HW-A5KL TCGA-HW-A5KM 
        0.10        41.49        45.60        39.75        20.81        20.71 
TCGA-IK-7675 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A72W 
       19.00         0.23         6.71         5.88         7.63        10.42 
TCGA-P5-A72X TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-QH-A65S TCGA-QH-A6CW 
       13.25        13.61         9.60         7.56         2.53        13.61 
TCGA-QH-A6X3 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A870 TCGA-RY-A83Z 
       10.29        16.73         1.91        16.50        12.99         9.90 
TCGA-S9-A6TS TCGA-S9-A6TV TCGA-S9-A6U1 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       62.17        18.77        25.81        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6WG TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IS TCGA-S9-A7IZ 
        5.85        85.55        18.61        14.07         7.92        19.99 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-TM-A7C4 
       15.06        18.54        98.63        31.59        18.71        48.33 
TCGA-TM-A7CA TCGA-TM-A84I TCGA-TM-A84L TCGA-TM-A84Q TCGA-TM-A84T TCGA-TQ-A7RH 
       34.78        28.08        40.83        25.38        23.80        15.98 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RR TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-VM-A8C8 
       40.41        44.09        25.87        61.41        26.99        43.04 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-WY-A858 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85D 
       20.02        23.47        43.96        43.40        45.80        37.71 
TCGA-WY-A85E 
       20.81 

$`ATRX WILD-TYPE`
TCGA-CS-4941 TCGA-CS-4944 TCGA-CS-5390 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
        7.69        10.62        64.64        40.18         0.10        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 
        9.96         6.38        17.69        23.84        17.95        12.43 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5274 TCGA-DB-5277 
        7.56        49.94        49.12         6.61        75.25        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XF TCGA-DB-A4XG 
       91.13        44.52        46.42        18.84        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.81        29.23        14.40        18.51        12.10        11.24 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5143 TCGA-DH-A669 TCGA-DH-A66F 
       16.18        19.96        31.82        46.06        30.21        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DU-5847 TCGA-DU-5849 
       54.25        23.21        17.46        13.71        18.02        14.56 
TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-5870 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 
        6.74         8.45       182.33        15.16        52.11        22.42 
TCGA-DU-6397 TCGA-DU-6400 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
       46.06         1.22         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7009 TCGA-DU-7010 
       16.83         7.96         2.40        11.47       154.36        14.99 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        6.54         8.84        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7302 TCGA-DU-8158 TCGA-DU-8161 
       94.32        44.02        62.01        60.30         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8168 TCGA-DU-A5TT TCGA-DU-A5TY 
       14.60        21.40        19.13        14.17        24.43        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       25.55        21.57        95.11        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
       21.30        17.98        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-A7YD TCGA-E1-A7YJ 
        0.56       134.27        78.21        95.57        14.30        19.46 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       16.18        21.30        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-FG-5962 
        0.76       146.14        13.08        39.48         0.23        47.77 
TCGA-FG-5964 TCGA-FG-6688 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7637 TCGA-FG-7641 
       52.21        18.77        18.44        15.35        40.08        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8189 TCGA-FG-A4MU 
       20.09        28.34        16.01        20.09        22.52        10.72 
TCGA-FG-A4MW TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.38        14.76        17.82        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A87N TCGA-FG-A87Q TCGA-HT-7467 
       22.26        10.78        36.66        18.64         5.72         0.10 
TCGA-HT-7468 TCGA-HT-7471 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7601 
        6.67         0.13        40.34        75.19        95.93         5.03 
TCGA-HT-7602 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
       29.85         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
        0.23        14.27        16.24         0.76        44.68         6.05 
TCGA-HT-7687 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         0.10         2.96         6.90        14.53        39.48 
TCGA-HT-7856 TCGA-HT-7860 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7881 
       39.09         0.49        37.15         0.33         0.13        35.47 
TCGA-HT-7882 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8019 
        3.72         1.64        16.24         9.40         0.10        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8109 TCGA-HT-8110 
       12.23         6.25         0.10         0.46         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
        0.23        29.59        13.74        15.72         0.23        26.04 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A615 TCGA-HT-A617 TCGA-HT-A619 
        0.07        27.35         5.33        16.93        16.14        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74K TCGA-HT-A74L 
        6.38        17.52        17.65         2.43        15.35        11.05 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8320 TCGA-HW-8321 
       56.58        13.45        68.32        35.44        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 
        6.18        10.55        12.76        42.77        14.40        14.40 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F4 TCGA-P5-A5F6 
        7.99         2.37         2.30         4.11         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A737 TCGA-P5-A77W 
        0.23        11.64        10.95         9.01        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X 
        3.45         2.37         4.41        15.16        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CX TCGA-QH-A6CY 
       14.04        19.33        14.83        14.53        12.23         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6XC TCGA-QH-A86X TCGA-R8-A6MK 
        9.17        14.53        16.34         5.03        11.08        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 
       94.03        32.65        59.38        30.87         5.46        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TW TCGA-S9-A6TX 
        2.07        19.59        30.67        87.12        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6UB 
       35.38        36.82        24.39        29.85        32.61       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
       75.25       135.22        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WP TCGA-S9-A7IQ TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7J0 
       26.47        18.64        36.13        26.93        23.51        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
        8.19         2.04        20.68        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C5 
       10.39        99.06        30.05        20.48        54.77        49.32 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84J TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84R TCGA-TM-A84S TCGA-TQ-A7RF 
       24.16        24.79        33.24        18.61        14.93        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       19.69         2.04        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.14        33.93        31.36        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
        7.89        39.16        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A859 TCGA-WY-A85C 
       51.06        13.32        39.88        46.88 

  ATRX MUTATED ATRX WILD-TYPE 
          0.03           0.07 
  ATRX MUTATED ATRX WILD-TYPE 
        211.17         182.33 
  ATRX MUTATED ATRX WILD-TYPE 
        25.480         19.165 
[1] "0.0 - 211.2 (25.5)" "0.1 - 182.3 (19.2)"
[1] "hr=" "1.4"
D3V2, continuous
D3V3, binary
                cls
clus               0   1
  ATRX MUTATED    85 109
  ATRX WILD-TYPE 144 174
[1] "tbl2"
                cls
clus             [,1] [,2]
  ATRX MUTATED     85  109
  ATRX WILD-TYPE  144  174
        clus
vv       ATRX MUTATED ATRX WILD-TYPE
  FEMALE           85            144
  MALE            109            174
[1] 2 2
[1] FALSE
D3V4, binary
                cls
clus               0   1
  ATRX MUTATED    58 124
  ATRX WILD-TYPE 128 167
[1] "tbl2"
                cls
clus             [,1] [,2]
  ATRX MUTATED     58  124
  ATRX WILD-TYPE  128  167
     clus
vv    ATRX MUTATED ATRX WILD-TYPE
  NO            58            128
  YES          124            167
[1] 2 2
[1] FALSE
D3V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ATRX MUTATED            96               64                34
  ATRX WILD-TYPE          96               66               156
D3V6, multiclass
                   clus
vv                  ATRX MUTATED ATRX WILD-TYPE
  ASTROCYTOMA                 96             96
  OLIGOASTROCYTOMA            64             66
  OLIGODENDROGLIOMA           34            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ATRX MUTATED                                  0     1
  ATRX WILD-TYPE                                1     7
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  ATRX MUTATED                           8   185
  ATRX WILD-TYPE                        13   287
D3V7, multiclass
                                  clus
vv                                 ATRX MUTATED ATRX WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       1              7
  BLACK OR AFRICAN AMERICAN                   8             13
  WHITE                                     185            287
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V8, binary
                cls
clus               0   1
  ATRX MUTATED    12 170
  ATRX WILD-TYPE  20 276
[1] "tbl2"
                cls
clus             [,1] [,2]
  ATRX MUTATED     12  170
  ATRX WILD-TYPE   20  276
                        clus
vv                       ATRX MUTATED ATRX WILD-TYPE
  HISPANIC OR LATINO               12             20
  NOT HISPANIC OR LATINO          170            276
[1] 2 2
[1] FALSE

Clustering(4) Variable = CIC MUTATION ANALYSIS
D4V1, survival
               sevent
clus2             0   1
  CIC MUTATED    95  12
  CIC WILD-TYPE 295 107
  CIC MUTATED CIC WILD-TYPE 
          107           402 
  CIC MUTATED CIC WILD-TYPE 
           12           107 
$`CIC MUTATED`
TCGA-CS-5394 TCGA-CS-6668 TCGA-CS-6670 TCGA-DB-5274 TCGA-DB-5278 TCGA-DB-A4XA 
        0.10        49.94         6.61        75.25        91.13        18.84 
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-A66F TCGA-DH-A7UR 
       14.40        12.10        31.82         8.02        17.19        54.25 
TCGA-DH-A7US TCGA-DU-5870 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6400 TCGA-DU-7018 
       23.21       182.33       211.17        52.11         1.22        30.67 
TCGA-DU-7294 TCGA-DU-7302 TCGA-DU-8168 TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S8 
       94.32        60.30        14.17        25.55        21.57        22.29 
TCGA-DU-A7T6 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-A7YO TCGA-E1-A7YY 
       17.98       134.27        78.21        95.57        75.02       146.14 
TCGA-EZ-7264 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-7634 TCGA-FG-7638 TCGA-FG-7641 
       39.48        47.77        52.21        15.35        22.55        20.61 
TCGA-FG-A60K TCGA-FG-A6IZ TCGA-FG-A710 TCGA-FG-A713 TCGA-HT-7468 TCGA-HT-7471 
       17.82        15.02        36.66        20.45         6.67         0.13 
TCGA-HT-7480 TCGA-HT-7602 TCGA-HT-7608 TCGA-HT-7616 TCGA-HT-7677 TCGA-HT-7681 
       75.19        29.85        22.06         0.23        16.24        44.68 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-8012 TCGA-HT-8105 
        6.90        14.53         0.33         0.13         9.40         6.25 
TCGA-HT-A4DV TCGA-HT-A5R9 TCGA-HT-A619 TCGA-HW-7487 TCGA-HW-7491 TCGA-IK-8125 
       26.04         0.07        21.40        13.45        68.32        42.77 
TCGA-KT-A74X TCGA-P5-A5F0 TCGA-P5-A72Z TCGA-P5-A77W TCGA-P5-A77X TCGA-QH-A65V 
       14.40         4.11        11.64        19.20         3.45        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X4 TCGA-QH-A6X5 
       15.85        14.04         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-S9-A6TW TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6UB 
       30.87         5.46        41.10        29.85        32.61       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WH TCGA-S9-A7IY TCGA-S9-A7J1 TCGA-S9-A7J2 
       75.25       135.22        38.56        23.51         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QZ TCGA-TM-A7C5 TCGA-TM-A84M TCGA-TM-A84O TCGA-TQ-A7RI 
       20.68        27.16        49.32        24.79        33.24         2.04 
TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-VM-A8CB TCGA-VM-A8CE 
       31.20        26.14        33.93         0.10        39.16 

$`CIC WILD-TYPE`
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-5393 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
       40.18        21.01         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6669 TCGA-DB-5270 
       17.95        12.43        46.95         7.56        49.12       122.73 
TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5279 TCGA-DB-5280 
       81.96        47.93        72.92        50.86        44.52        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-A4XG TCGA-DB-A4XH TCGA-DB-A64O TCGA-DB-A64S TCGA-DB-A64X 
       33.57        72.95        31.63        25.48        27.45        18.51 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66G TCGA-DH-A7UT 
       46.06        30.21        42.05        27.81        17.19        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
       13.38         8.45         6.81        18.94        17.49        15.16 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 
       22.42        49.02        75.16        46.06        65.75        87.45 
TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 
        7.04        11.64       133.74        19.89        16.83        94.52 
TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 
      114.08         7.96         2.40        11.47        62.96       156.23 
TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 
      154.36        14.99       105.21         6.54         8.84        90.77 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       26.30        10.36         7.96        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       25.91        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O 
       33.96        95.11        20.98        11.41        26.76        17.16 
TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       21.30       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       57.93       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YQ 
       19.46        12.43        16.18        21.30        23.90        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7Z2 TCGA-E1-A7Z3 
       15.32         0.76        32.45        36.82        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5965 
      145.05        32.35         0.23         0.20        25.48        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 
       18.77        14.93        42.54        41.33        18.44        17.88 
TCGA-FG-7637 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       40.08        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6J1 
       18.38        18.71        23.70        14.76        21.53        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A711 TCGA-FG-A87N TCGA-FG-A87Q 
       22.26        28.54        10.78        48.69        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 
       27.52         0.10        11.54        40.11         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7603 
       95.93       106.95       172.77         4.01         5.03        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7609 TCGA-HT-7610 
      122.47         4.57        17.29         3.16        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7680 TCGA-HT-7684 TCGA-HT-7686 
       57.60        14.27         0.16         0.76         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       17.52        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
        0.49        23.61        37.15         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8013 
        3.72        11.28        31.43         1.64        16.24        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8107 
        0.10        37.87        33.01        12.23         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A5R5 TCGA-HT-A5R7 
       13.74        28.27        15.72         0.23         0.13        20.22 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.14        16.83         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7489 
       10.52        15.35        11.05         0.10        56.58        41.49 
TCGA-HW-7490 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       45.60        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A7W1 
       10.55        12.76        20.81        20.71        19.00        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F1 
        0.23         6.71         7.99         2.37         2.30         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A6CS TCGA-QH-A6CU 
        2.37         4.41        15.16         2.53        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6X3 TCGA-QH-A6X9 TCGA-QH-A6XA 
       14.53        13.61        12.23        10.29         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A870 TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
        5.03        12.99         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TX TCGA-S9-A6TY 
       30.67        62.17        87.12        18.77        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       36.82        24.39        25.81        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6WG TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
        5.85        85.55        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7R1 
       19.99        20.02        15.06        18.54        28.37       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       20.48        54.77        48.33        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       40.83        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       19.69        15.98        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RP TCGA-TQ-A7RR TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       30.05        25.87        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CD TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
       43.20        13.51         7.89        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  CIC MUTATED CIC WILD-TYPE 
         0.07          0.03 
  CIC MUTATED CIC WILD-TYPE 
       211.17        172.77 
  CIC MUTATED CIC WILD-TYPE 
       23.210        20.055 
[1] "0.1 - 211.2 (23.2)" "0.0 - 172.8 (20.1)"
[1] "hr=" "3"  
D4V2, continuous
D4V3, binary
               cls
clus              0   1
  CIC MUTATED    53  55
  CIC WILD-TYPE 176 228
[1] "tbl2"
               cls
clus            [,1] [,2]
  CIC MUTATED     53   55
  CIC WILD-TYPE  176  228
        clus
vv       CIC MUTATED CIC WILD-TYPE
  FEMALE          53           176
  MALE            55           228
[1] 2 2
[1] FALSE
D4V4, binary
               cls
clus              0   1
  CIC MUTATED    60  41
  CIC WILD-TYPE 126 250
[1] "tbl2"
               cls
clus            [,1] [,2]
  CIC MUTATED     60   41
  CIC WILD-TYPE  126  250
     clus
vv    CIC MUTATED CIC WILD-TYPE
  NO           60           126
  YES          41           250
[1] 2 2
[1] FALSE
D4V5, continuous
               vv
clus            ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  CIC MUTATED             3               23                82
  CIC WILD-TYPE         189              107               108
D4V6, multiclass
                   clus
vv                  CIC MUTATED CIC WILD-TYPE
  ASTROCYTOMA                 3           189
  OLIGOASTROCYTOMA           23           107
  OLIGODENDROGLIOMA          82           108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  CIC MUTATED                                  0     2
  CIC WILD-TYPE                                1     6
               vv
clus            BLACK OR AFRICAN AMERICAN WHITE
  CIC MUTATED                           3   100
  CIC WILD-TYPE                        18   372
D4V7, multiclass
                                  clus
vv                                 CIC MUTATED CIC WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE           0             1
  ASIAN                                      2             6
  BLACK OR AFRICAN AMERICAN                  3            18
  WHITE                                    100           372
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V8, binary
               cls
clus              0   1
  CIC MUTATED     8  95
  CIC WILD-TYPE  24 351
[1] "tbl2"
               cls
clus            [,1] [,2]
  CIC MUTATED      8   95
  CIC WILD-TYPE   24  351
                        clus
vv                       CIC MUTATED CIC WILD-TYPE
  HISPANIC OR LATINO               8            24
  NOT HISPANIC OR LATINO          95           351
[1] 2 2
[1] FALSE

Clustering(5) Variable = NOTCH1 MUTATION ANALYSIS
D5V1, survival
                  sevent
clus2                0   1
  NOTCH1 MUTATED    34   7
  NOTCH1 WILD-TYPE 356 112
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
              41              468 
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
               7              112 
$`NOTCH1 MUTATED`
TCGA-CS-5390 TCGA-CS-6668 TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A75K TCGA-DH-5144 
       64.64        49.94        72.95        24.20        12.10         8.02 
TCGA-DH-A66B TCGA-DU-6392 TCGA-DU-6394 TCGA-DU-6400 TCGA-DU-7018 TCGA-DU-7300 
       42.05       211.17        22.42         1.22        30.67        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-8168 TCGA-DU-A5TR TCGA-DU-A6S3 TCGA-E1-5311 
       25.91        60.30        14.17        29.85        21.57       134.27 
TCGA-FG-5962 TCGA-FG-7638 TCGA-FG-8186 TCGA-FG-A710 TCGA-HT-7470 TCGA-HT-7481 
       47.77        22.55        16.01        36.66        40.11        95.93 
TCGA-HT-7875 TCGA-HT-8012 TCGA-HT-8105 TCGA-HT-A616 TCGA-HW-8322 TCGA-HW-A5KJ 
        0.33         9.40         6.25         1.81         6.18        10.55 
TCGA-IK-8125 TCGA-P5-A5F0 TCGA-P5-A5F2 TCGA-QH-A6CW TCGA-QH-A6X3 TCGA-R8-A6ML 
       42.77         4.11         7.63        13.61        10.29        94.03 
TCGA-S9-A6U5 TCGA-TM-A7CF TCGA-TM-A84G TCGA-VV-A829 TCGA-VW-A7QS 
       32.61        65.39        40.64        37.05        23.21 

$`NOTCH1 WILD-TYPE`
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 
        4.70         7.69        43.89        18.15        10.62        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.10        21.01         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6669 TCGA-CS-6670 
       17.95        12.43        46.95         7.56        49.12         6.61 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XH 
       30.21        46.72        39.78        37.45        33.57        31.63 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       29.23        14.40        18.51        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-A669 
       16.18        19.96        31.82        63.88        46.06        30.21 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       15.16        52.11        49.02        75.16        46.06        65.75 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7015 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       90.77        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       44.02        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-A5TP TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       33.27        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       25.55        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       17.16        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
       37.38         7.50        44.42         0.56        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       41.13        79.99        57.93        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       16.18        21.30        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 
      145.05        32.35        39.48         0.23         0.20        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        40.08        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       28.54        10.78        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7471 TCGA-HT-7472 
       27.52         0.10         6.67        11.54         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       40.34        75.19       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7877 
        0.23        50.63         0.49        23.61        37.15         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
        1.64        16.24        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
       12.23         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A617 TCGA-HT-A618 
        0.10         5.33         2.70        16.93        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       12.76        20.81        20.71        19.00        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F1 
        0.23         6.71         7.99         2.37         2.30         5.88 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       12.23         2.20         9.17        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       32.65        59.38        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        28.14        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       29.85        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       24.92        16.18        59.05        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A86M TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       23.47        16.01         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
            0.33             0.03 
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
          211.17           182.33 
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
          25.910           20.335 
[1] "0.3 - 211.2 (25.9)" "0.0 - 182.3 (20.3)"
[1] "hr=" "1.8"
D5V2, continuous
D5V3, binary
                  cls
clus                 0   1
  NOTCH1 MUTATED    20  22
  NOTCH1 WILD-TYPE 209 261
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NOTCH1 MUTATED     20   22
  NOTCH1 WILD-TYPE  209  261
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  FEMALE             20              209
  MALE               22              261
[1] 2 2
[1] FALSE
D5V4, binary
                  cls
clus                 0   1
  NOTCH1 MUTATED    18  21
  NOTCH1 WILD-TYPE 168 270
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NOTCH1 MUTATED     18   21
  NOTCH1 WILD-TYPE  168  270
     clus
vv    NOTCH1 MUTATED NOTCH1 WILD-TYPE
  NO              18              168
  YES             21              270
[1] 2 2
[1] FALSE
D5V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  NOTCH1 MUTATED             6                7                29
  NOTCH1 WILD-TYPE         186              123               161
D5V6, multiclass
                   clus
vv                  NOTCH1 MUTATED NOTCH1 WILD-TYPE
  ASTROCYTOMA                    6              186
  OLIGOASTROCYTOMA               7              123
  OLIGODENDROGLIOMA             29              161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NOTCH1 MUTATED                                  0     1
  NOTCH1 WILD-TYPE                                1     7
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  NOTCH1 MUTATED                           0    41
  NOTCH1 WILD-TYPE                        21   431
D5V7, multiclass
                                  clus
vv                                 NOTCH1 MUTATED NOTCH1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         1                7
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                        41              431
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V8, binary
                  cls
clus                 0   1
  NOTCH1 MUTATED     2  38
  NOTCH1 WILD-TYPE  30 408
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NOTCH1 MUTATED      2   38
  NOTCH1 WILD-TYPE   30  408
                        clus
vv                       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  HISPANIC OR LATINO                  2               30
  NOT HISPANIC OR LATINO             38              408
[1] 2 2
[1] FALSE

Clustering(6) Variable = IDH2 MUTATION ANALYSIS
D6V1, survival
                sevent
clus2              0   1
  IDH2 MUTATED    19   1
  IDH2 WILD-TYPE 371 118
  IDH2 MUTATED IDH2 WILD-TYPE 
            20            489 
  IDH2 MUTATED IDH2 WILD-TYPE 
             1            118 
$`IDH2 MUTATED`
TCGA-DB-A4XG TCGA-DH-5141 TCGA-DH-A7UR TCGA-DU-5849 TCGA-DU-7309 TCGA-DU-A7TA 
       72.95        31.82        54.25        14.56         2.76        84.33 
TCGA-E1-5318 TCGA-FG-8189 TCGA-HT-7476 TCGA-HT-7681 TCGA-HT-7856 TCGA-HT-8113 
       78.21        22.52         6.54        44.68        39.09        29.59 
TCGA-HT-A5R9 TCGA-HW-7491 TCGA-P5-A730 TCGA-QH-A65X TCGA-S9-A6TY TCGA-S9-A7QY 
        0.07        68.32        10.95        15.85        35.38        28.37 
TCGA-TM-A84R TCGA-TQ-A7RO 
       18.61        31.20 

$`IDH2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       33.57        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D 
       63.88        46.06         8.02        30.21        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        17.19        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       18.02        17.46         6.74        13.38         8.45         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-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       90.77        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       18.94        44.02        62.01        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
       41.98         5.10        23.74        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       19.13        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       31.69        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TB TCGA-DU-A7TC 
       17.16        21.30        17.98       139.04        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
        7.50        44.42         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       79.99        57.93       134.27        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       14.96        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       19.23         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8114 
        0.46         2.50         5.56        13.78         0.23        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       13.74        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
       20.22        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7495 TCGA-HW-8319 
       56.58        13.45        41.49        45.60        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       11.64         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       12.62        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TZ TCGA-S9-A6U0 
       87.12        18.77        41.10        28.14        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       25.38        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RP 
        2.04        40.41        44.09        36.69        33.73        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       43.04        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       46.88        37.71        20.81 

  IDH2 MUTATED IDH2 WILD-TYPE 
          0.07           0.03 
  IDH2 MUTATED IDH2 WILD-TYPE 
         84.33         211.17 
  IDH2 MUTATED IDH2 WILD-TYPE 
        30.395         20.610 
[1] "0.1 - 84.3 (30.4)"  "0.0 - 211.2 (20.6)"
[1] "hr=" "5.4"
D6V2, continuous
D6V3, binary
                cls
clus               0   1
  IDH2 MUTATED     9  11
  IDH2 WILD-TYPE 220 272
[1] "tbl2"
                cls
clus             [,1] [,2]
  IDH2 MUTATED      9   11
  IDH2 WILD-TYPE  220  272
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  FEMALE            9            220
  MALE             11            272
[1] 2 2
[1] FALSE
D6V4, binary
                cls
clus               0   1
  IDH2 MUTATED     9  10
  IDH2 WILD-TYPE 177 281
[1] "tbl2"
                cls
clus             [,1] [,2]
  IDH2 MUTATED      9   10
  IDH2 WILD-TYPE  177  281
     clus
vv    IDH2 MUTATED IDH2 WILD-TYPE
  NO             9            177
  YES           10            281
[1] 2 2
[1] FALSE
D6V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  IDH2 MUTATED             1                5                14
  IDH2 WILD-TYPE         191              125               176
D6V6, multiclass
                   clus
vv                  IDH2 MUTATED IDH2 WILD-TYPE
  ASTROCYTOMA                  1            191
  OLIGOASTROCYTOMA             5            125
  OLIGODENDROGLIOMA           14            176
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  IDH2 MUTATED                                  0     0
  IDH2 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  IDH2 MUTATED                           2    18
  IDH2 WILD-TYPE                        19   454
D6V7, multiclass
                                  clus
vv                                 IDH2 MUTATED IDH2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   2             19
  WHITE                                      18            454
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V8, binary
                cls
clus               0   1
  IDH2 MUTATED     3  16
  IDH2 WILD-TYPE  29 430
[1] "tbl2"
                cls
clus             [,1] [,2]
  IDH2 MUTATED      3   16
  IDH2 WILD-TYPE   29  430
                        clus
vv                       IDH2 MUTATED IDH2 WILD-TYPE
  HISPANIC OR LATINO                3             29
  NOT HISPANIC OR LATINO           16            430
[1] 2 2
[1] FALSE

Clustering(7) Variable = PIK3R1 MUTATION ANALYSIS
D7V1, survival
                  sevent
clus2                0   1
  PIK3R1 MUTATED    16   5
  PIK3R1 WILD-TYPE 374 114
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              21              488 
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
               5              114 
$`PIK3R1 MUTATED`
TCGA-CS-4942 TCGA-CS-4944 TCGA-CS-5394 TCGA-CS-6188 TCGA-DB-5279 TCGA-DU-5870 
       43.89        10.62         0.10        23.84        44.52       182.33 
TCGA-DU-6392 TCGA-DU-6394 TCGA-DU-7300 TCGA-DU-A7TB TCGA-DU-A7TJ TCGA-E1-A7YE 
      211.17        22.42        62.01        51.52         0.56        29.13 
TCGA-E1-A7YS TCGA-FG-5962 TCGA-FG-8188 TCGA-HT-7481 TCGA-HT-7694 TCGA-HT-A74K 
       15.32        47.77        14.96        95.93         6.90        15.35 
TCGA-KT-A74X TCGA-QH-A6X8 TCGA-S9-A7IY 
       14.40        16.73        23.51 

$`PIK3R1 WILD-TYPE`
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4943 TCGA-CS-5390 TCGA-CS-5393 TCGA-CS-5395 
        4.70         7.69        18.15        64.64        40.18        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 
        9.96         6.38        17.69        17.95        12.43        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 
        7.56        49.94        49.12         6.61       122.73        81.96 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5280 
       75.25        47.93        72.92        50.86        91.13        36.56 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD 
       78.28        46.42        18.84        30.21        46.72        39.78 
TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O 
       37.45        33.57        72.95        31.63        24.20        25.48 
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-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       14.40        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       16.18        19.96        31.82        63.88        46.06         8.02 
TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR 
       30.21        42.05        27.81        17.19        17.19        54.25 
TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 
       23.21        17.46        13.71        18.61        18.02        14.56 
TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5871 
       17.46         6.74        13.38         8.45         6.81        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       17.49        15.16        52.11        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-E1-5302 TCGA-E1-5303 
       84.33        37.38         7.50        44.42        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       41.13        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
      130.78        14.30        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU 
       16.18        21.30        23.90        75.02        51.88         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 
       32.35        39.48         0.23         0.20        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        20.09        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7482 TCGA-HT-7483 
       24.26         6.38        40.34        75.19       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        0.10         2.96        17.52        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       34.19        13.74        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74L 
        6.38        17.52        17.65         2.43        10.52        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54         6.18        10.55 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A7W1 
       12.76        20.81        20.71        19.00        42.77        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       10.29        14.53        16.34         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       26.93        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
            0.10             0.03 
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
          211.17           172.77 
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
           23.51            20.68 
[1] "0.1 - 211.2 (23.5)" "0.0 - 172.8 (20.7)"
[1] "hr=" "1.7"
D7V2, continuous
D7V3, binary
                  cls
clus                 0   1
  PIK3R1 MUTATED     7  15
  PIK3R1 WILD-TYPE 222 268
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3R1 MUTATED      7   15
  PIK3R1 WILD-TYPE  222  268
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  FEMALE              7              222
  MALE               15              268
[1] 2 2
[1] FALSE
D7V4, binary
                  cls
clus                 0   1
  PIK3R1 MUTATED     6  14
  PIK3R1 WILD-TYPE 180 277
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3R1 MUTATED      6   14
  PIK3R1 WILD-TYPE  180  277
     clus
vv    PIK3R1 MUTATED PIK3R1 WILD-TYPE
  NO               6              180
  YES             14              277
[1] 2 2
[1] FALSE
D7V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  PIK3R1 MUTATED             8                3                11
  PIK3R1 WILD-TYPE         184              127               179
D7V6, multiclass
                   clus
vv                  PIK3R1 MUTATED PIK3R1 WILD-TYPE
  ASTROCYTOMA                    8              184
  OLIGOASTROCYTOMA               3              127
  OLIGODENDROGLIOMA             11              179
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PIK3R1 MUTATED                                  0     1
  PIK3R1 WILD-TYPE                                1     7
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  PIK3R1 MUTATED                           3    17
  PIK3R1 WILD-TYPE                        18   455
D7V7, multiclass
                                  clus
vv                                 PIK3R1 MUTATED PIK3R1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         1                7
  BLACK OR AFRICAN AMERICAN                     3               18
  WHITE                                        17              455
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V8, binary
                  cls
clus                 0   1
  PIK3R1 MUTATED     0  18
  PIK3R1 WILD-TYPE  32 428
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3R1 MUTATED      0   18
  PIK3R1 WILD-TYPE   32  428
                        clus
vv                       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  HISPANIC OR LATINO                  0               32
  NOT HISPANIC OR LATINO             18              428
[1] 2 2
[1] FALSE

Clustering(8) Variable = FUBP1 MUTATION ANALYSIS
D8V1, survival
                 sevent
clus2               0   1
  FUBP1 MUTATED    41   6
  FUBP1 WILD-TYPE 349 113
  FUBP1 MUTATED FUBP1 WILD-TYPE 
             47             462 
  FUBP1 MUTATED FUBP1 WILD-TYPE 
              6             113 
$`FUBP1 MUTATED`
TCGA-CS-5390 TCGA-CS-5394 TCGA-DB-5274 TCGA-DB-A64L TCGA-DB-A64Q TCGA-DB-A64V 
       64.64         0.10        75.25        24.20         5.98        29.23 
TCGA-DB-A75K TCGA-DH-5144 TCGA-DH-A7UR TCGA-DU-6392 TCGA-DU-6394 TCGA-DU-6397 
       12.10         8.02        54.25       211.17        22.42        46.06 
TCGA-DU-7300 TCGA-DU-8164 TCGA-DU-8168 TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-E1-5319 
       62.01        21.40        14.17        25.55        21.57        95.57 
TCGA-E1-A7YO TCGA-EZ-7264 TCGA-FG-A710 TCGA-HT-7467 TCGA-HT-7471 TCGA-HT-7481 
       75.02        39.48        36.66         0.10         0.13        95.93 
TCGA-HT-7608 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7677 TCGA-HT-7694 TCGA-HT-8105 
       22.06         0.23        14.27        16.24         6.90         6.25 
TCGA-HT-A615 TCGA-HW-7487 TCGA-P5-A77X TCGA-QH-A6CZ TCGA-QH-A6X4 TCGA-QH-A86X 
       16.93        13.45         3.45         9.17        14.53        11.08 
TCGA-RY-A83Y TCGA-RY-A847 TCGA-S9-A6TX TCGA-S9-A6WP TCGA-S9-A7IY TCGA-S9-A7J1 
        5.46        30.67        28.14        18.64        23.51         8.19 
TCGA-S9-A7J3 TCGA-S9-A7QZ TCGA-TM-A84G TCGA-TM-A84M TCGA-VM-A8CB 
       20.68        27.16        40.64        24.79         0.10 

$`FUBP1 WILD-TYPE`
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 
        4.70         7.69        43.89        18.15        10.62        40.18 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01         9.96         6.38        17.69        23.84        17.95 
TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-CS-6670 
       12.43        46.95         7.56        49.94        49.12         6.61 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 
      122.73        81.96        47.93        72.92        50.86        91.13 
TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       44.52        36.56        78.28        46.42        18.84        30.21 
TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       46.72        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64W 
       25.48        30.12        31.40        27.45        27.81        14.40 
TCGA-DB-A64X TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       18.51        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D 
       31.82        63.88        46.06        30.21        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        17.19        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 
        6.81       182.33        18.94        17.49        15.16        52.11 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 
       49.02        75.16        65.75         1.22        87.45         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 
       14.99       105.21         6.54         8.84        90.77        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       26.30        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       23.74        14.60        20.68        19.13        16.96        15.48 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       33.96        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       17.16        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
       37.38         7.50        44.42         0.56        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5322 
       41.13        79.99        57.93       134.27        78.21       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       16.18        21.30        23.90        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       32.35         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       22.26        28.54        10.78        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7472 
        5.72        27.52         6.67        11.54        40.11         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       40.34        75.19       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7676 TCGA-HT-7680 TCGA-HT-7681 
       45.99        56.09        57.60         0.16         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        0.10         2.96        17.52        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8107 
        0.10        37.87        33.01        12.23         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       13.74        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       56.58        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       12.23        19.20         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6X3 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.61        12.23         2.20        10.29        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
        1.91        16.50         5.03        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        59.38        30.87         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TY 
       19.59        62.17        87.12        18.77        41.10        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IZ 
       18.61        14.07        36.13         7.92        26.93        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J2 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7R1 
       20.02         2.04        15.06        18.54        28.37       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       24.92        16.18        59.05        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       40.83        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
       13.51         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  FUBP1 MUTATED FUBP1 WILD-TYPE 
           0.10            0.03 
  FUBP1 MUTATED FUBP1 WILD-TYPE 
         211.17          182.33 
  FUBP1 MUTATED FUBP1 WILD-TYPE 
         21.400          20.695 
[1] "0.1 - 211.2 (21.4)" "0.0 - 182.3 (20.7)"
[1] "hr=" "1.9"
D8V2, continuous
D8V3, binary
                 cls
clus                0   1
  FUBP1 MUTATED    19  28
  FUBP1 WILD-TYPE 210 255
[1] "tbl2"
                 cls
clus              [,1] [,2]
  FUBP1 MUTATED     19   28
  FUBP1 WILD-TYPE  210  255
        clus
vv       FUBP1 MUTATED FUBP1 WILD-TYPE
  FEMALE            19             210
  MALE              28             255
[1] 2 2
[1] FALSE
D8V4, binary
                 cls
clus                0   1
  FUBP1 MUTATED    22  20
  FUBP1 WILD-TYPE 164 271
[1] "tbl2"
                 cls
clus              [,1] [,2]
  FUBP1 MUTATED     22   20
  FUBP1 WILD-TYPE  164  271
     clus
vv    FUBP1 MUTATED FUBP1 WILD-TYPE
  NO             22             164
  YES            20             271
[1] 2 2
[1] FALSE
D8V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  FUBP1 MUTATED             2                9                36
  FUBP1 WILD-TYPE         190              121               154
D8V6, multiclass
                   clus
vv                  FUBP1 MUTATED FUBP1 WILD-TYPE
  ASTROCYTOMA                   2             190
  OLIGOASTROCYTOMA              9             121
  OLIGODENDROGLIOMA            36             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  FUBP1 MUTATED                                  0     0
  FUBP1 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  FUBP1 MUTATED                           2    43
  FUBP1 WILD-TYPE                        19   429
D8V7, multiclass
                                  clus
vv                                 FUBP1 MUTATED FUBP1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    2              19
  WHITE                                       43             429
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V8, binary
                 cls
clus                0   1
  FUBP1 MUTATED     0  43
  FUBP1 WILD-TYPE  32 403
[1] "tbl2"
                 cls
clus              [,1] [,2]
  FUBP1 MUTATED      0   43
  FUBP1 WILD-TYPE   32  403
                        clus
vv                       FUBP1 MUTATED FUBP1 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO            43             403
[1] 2 2
[1] FALSE

Clustering(9) Variable = NF1 MUTATION ANALYSIS
D9V1, survival
               sevent
clus2             0   1
  NF1 MUTATED    18  15
  NF1 WILD-TYPE 372 104
  NF1 MUTATED NF1 WILD-TYPE 
           33           476 
  NF1 MUTATED NF1 WILD-TYPE 
           15           104 
$`NF1 MUTATED`
TCGA-CS-5397 TCGA-DB-A4XG TCGA-DB-A64O TCGA-DB-A75K TCGA-DH-5140 TCGA-DU-5847 
        6.38        72.95        25.48        12.10        19.96        18.02 
TCGA-DU-6392 TCGA-DU-6394 TCGA-DU-6397 TCGA-DU-6402 TCGA-DU-7006 TCGA-DU-7299 
      211.17        22.42        46.06         7.04        11.47        44.02 
TCGA-DU-A76L TCGA-FG-5963 TCGA-FG-6688 TCGA-FG-A87N TCGA-HT-7608 TCGA-HT-7857 
       26.76        25.48        18.77        18.64        22.06         0.23 
TCGA-HT-7860 TCGA-HT-7880 TCGA-HT-8010 TCGA-HT-8564 TCGA-HT-A4DS TCGA-QH-A6CS 
        0.49         5.33         1.64        15.72         0.23        19.33 
TCGA-QH-A6CX TCGA-S9-A6UA TCGA-S9-A6WP TCGA-S9-A7IX TCGA-S9-A89V TCGA-TM-A84C 
       12.23         5.85        18.64        26.93        18.71        16.18 
TCGA-TQ-A7RI TCGA-TQ-A7RP TCGA-VM-A8CD 
        2.04        30.05         7.89 

$`NF1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-6186 TCGA-CS-6188 
       40.18         0.10        21.01         9.96        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       31.63        24.20        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75L TCGA-DB-A75M 
       27.81        29.23        14.40        18.51        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        31.82        63.88        46.06         8.02 
TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR 
       30.21        42.05        27.81        17.19        17.19        54.25 
TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5849 TCGA-DU-5851 
       23.21        17.46        13.71        18.61        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6399 
       17.49        15.16        52.11        49.02        75.16        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
        1.22        87.45        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7007 TCGA-DU-7008 
       94.52       114.08         7.96         2.40        62.96       156.23 
TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 
      154.36        14.99       105.21         6.54         8.84        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       62.01        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        5.10        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76O TCGA-DU-A76R 
       95.11        20.98        22.29        11.41        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5964 
       32.35        39.48         0.23         0.20        47.77        52.21 
TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       36.82        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87Q 
       28.54        10.78        36.66        48.69        20.45         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
       17.29         3.16        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       39.09        50.63        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8011 
        3.68        35.47         3.72        11.28        31.43        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-A4DV 
        0.23        29.59        34.19        13.74        28.27        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.04        14.83        14.53        13.61         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
        5.03        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       28.14        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UB TCGA-S9-A6WD 
       32.61        35.15        98.24        95.93       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IY 
       26.47        18.61        14.07        36.13         7.92        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       30.05        98.63        31.59        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84F TCGA-TM-A84G 
       49.32        34.78        65.39        24.92        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
       15.98        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VM-A8CF 
       43.04        43.20        13.51         0.10        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  NF1 MUTATED NF1 WILD-TYPE 
         0.23          0.03 
  NF1 MUTATED NF1 WILD-TYPE 
       211.17        182.33 
  NF1 MUTATED NF1 WILD-TYPE 
        18.64         21.30 
[1] "0.2 - 211.2 (18.6)" "0.0 - 182.3 (21.3)"
[1] "hr=" "2.9"
D9V2, continuous
D9V3, binary
               cls
clus              0   1
  NF1 MUTATED    13  20
  NF1 WILD-TYPE 216 263
[1] "tbl2"
               cls
clus            [,1] [,2]
  NF1 MUTATED     13   20
  NF1 WILD-TYPE  216  263
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  FEMALE          13           216
  MALE            20           263
[1] 2 2
[1] FALSE
D9V4, binary
               cls
clus              0   1
  NF1 MUTATED    10  21
  NF1 WILD-TYPE 176 270
[1] "tbl2"
               cls
clus            [,1] [,2]
  NF1 MUTATED     10   21
  NF1 WILD-TYPE  176  270
     clus
vv    NF1 MUTATED NF1 WILD-TYPE
  NO           10           176
  YES          21           270
[1] 2 2
[1] FALSE
D9V5, continuous
               vv
clus            ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  NF1 MUTATED            20                7                 6
  NF1 WILD-TYPE         172              123               184
D9V6, multiclass
                   clus
vv                  NF1 MUTATED NF1 WILD-TYPE
  ASTROCYTOMA                20           172
  OLIGOASTROCYTOMA            7           123
  OLIGODENDROGLIOMA           6           184
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NF1 MUTATED                                  0     1
  NF1 WILD-TYPE                                1     7
               vv
clus            BLACK OR AFRICAN AMERICAN WHITE
  NF1 MUTATED                           3    29
  NF1 WILD-TYPE                        18   443
D9V7, multiclass
                                  clus
vv                                 NF1 MUTATED NF1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE           0             1
  ASIAN                                      1             7
  BLACK OR AFRICAN AMERICAN                  3            18
  WHITE                                     29           443
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V8, binary
               cls
clus              0   1
  NF1 MUTATED     4  28
  NF1 WILD-TYPE  28 418
[1] "tbl2"
               cls
clus            [,1] [,2]
  NF1 MUTATED      4   28
  NF1 WILD-TYPE   28  418
                        clus
vv                       NF1 MUTATED NF1 WILD-TYPE
  HISPANIC OR LATINO               4            28
  NOT HISPANIC OR LATINO          28           418
[1] 2 2
[1] FALSE

Clustering(10) Variable = ARID1A MUTATION ANALYSIS
D10V1, survival
                  sevent
clus2                0   1
  ARID1A MUTATED    18   2
  ARID1A WILD-TYPE 372 117
  ARID1A MUTATED ARID1A WILD-TYPE 
              20              489 
  ARID1A MUTATED ARID1A WILD-TYPE 
               2              117 
$`ARID1A MUTATED`
TCGA-DB-5275 TCGA-DB-A4XA TCGA-DU-6392 TCGA-DU-6410 TCGA-DU-7009 TCGA-DU-7304 
       47.93        18.84       211.17         7.96       154.36        23.31 
TCGA-FG-5962 TCGA-FG-7637 TCGA-FG-A60L TCGA-FG-A710 TCGA-HT-7468 TCGA-HT-7611 
       47.77        40.08        21.53        36.66         6.67        57.60 
TCGA-HT-7688 TCGA-HT-8564 TCGA-HW-7490 TCGA-P5-A77W TCGA-QH-A65X TCGA-S9-A6U2 
       31.69        15.72        45.60        19.20        15.85        29.85 
TCGA-TM-A84M TCGA-TM-A84S 
       24.79        14.93 

$`ARID1A WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5276 
       49.12         6.61       122.73        81.96        75.25        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
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-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 
       11.24        17.88        30.74        16.18        19.96        31.82 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D 
       63.88        46.06         8.02        30.21        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       16.83        94.52       114.08         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 
      156.23        14.99       105.21         6.54         8.84        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7306 TCGA-DU-7309 
       44.02        62.01        25.91        60.30        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        5.10        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O 
       95.11        20.98        22.29        11.41        26.76        17.16 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
        7.50        44.42         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       16.18        21.30        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 
      145.05        32.35        39.48         0.23         0.20        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        18.71 
TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       23.70        14.76        17.82        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       28.54        10.78        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
       27.52         0.10        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7616 TCGA-HT-7620 
        3.16        22.06        45.99        56.09         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
        0.10        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       28.27         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       13.45        41.49        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       25.81        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84O TCGA-TM-A84Q 
       30.44        28.08        24.16        40.83        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       18.61        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       43.04        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       46.88        37.71        20.81 

  ARID1A MUTATED ARID1A WILD-TYPE 
            6.67             0.03 
  ARID1A MUTATED ARID1A WILD-TYPE 
          211.17           182.33 
  ARID1A MUTATED ARID1A WILD-TYPE 
           27.32            20.61 
[1] "6.7 - 211.2 (27.3)" "0.0 - 182.3 (20.6)"
[1] "hr=" "4"  
D10V2, continuous
D10V3, binary
                  cls
clus                 0   1
  ARID1A MUTATED     7  13
  ARID1A WILD-TYPE 222 270
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARID1A MUTATED      7   13
  ARID1A WILD-TYPE  222  270
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  FEMALE              7              222
  MALE               13              270
[1] 2 2
[1] FALSE
D10V4, binary
                  cls
clus                 0   1
  ARID1A MUTATED    10  10
  ARID1A WILD-TYPE 176 281
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARID1A MUTATED     10   10
  ARID1A WILD-TYPE  176  281
     clus
vv    ARID1A MUTATED ARID1A WILD-TYPE
  NO              10              176
  YES             10              281
[1] 2 2
[1] FALSE
D10V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ARID1A MUTATED             4                7                 9
  ARID1A WILD-TYPE         188              123               181
D10V6, multiclass
                   clus
vv                  ARID1A MUTATED ARID1A WILD-TYPE
  ASTROCYTOMA                    4              188
  OLIGOASTROCYTOMA               7              123
  OLIGODENDROGLIOMA              9              181
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ARID1A MUTATED                                  0     0
  ARID1A WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  ARID1A MUTATED                           0    20
  ARID1A WILD-TYPE                        21   452
D10V7, multiclass
                                  clus
vv                                 ARID1A MUTATED ARID1A WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                        20              452
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V8, binary
                  cls
clus                 0   1
  ARID1A MUTATED     1  19
  ARID1A WILD-TYPE  31 427
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARID1A MUTATED      1   19
  ARID1A WILD-TYPE   31  427
                        clus
vv                       ARID1A MUTATED ARID1A WILD-TYPE
  HISPANIC OR LATINO                  1               31
  NOT HISPANIC OR LATINO             19              427
[1] 2 2
[1] FALSE

Clustering(11) Variable = PTEN MUTATION ANALYSIS
D11V1, survival
                sevent
clus2              0   1
  PTEN MUTATED    12  12
  PTEN WILD-TYPE 378 107
  PTEN MUTATED PTEN WILD-TYPE 
            24            485 
  PTEN MUTATED PTEN WILD-TYPE 
            12            107 
$`PTEN MUTATED`
TCGA-CS-5395 TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-6392 TCGA-DU-6402 
       21.01        13.71        18.61        18.02       211.17         7.04 
TCGA-DU-7012 TCGA-DU-7290 TCGA-DU-8158 TCGA-DU-A7TD TCGA-FG-6692 TCGA-FG-A4MW 
        6.54        10.36         5.10         7.50        18.44        18.38 
TCGA-HT-7860 TCGA-HT-8011 TCGA-HT-8104 TCGA-HT-A5RA TCGA-QH-A6CS TCGA-QH-A6CX 
        0.49        16.24        12.23        27.35        19.33        12.23 
TCGA-QH-A6X3 TCGA-S9-A6TW TCGA-S9-A6U0 TCGA-TM-A84B TCGA-TQ-A7RP TCGA-VM-A8CD 
       10.29        41.10        24.39        24.92        30.05         7.89 

$`PTEN WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
       40.18         0.10         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 
      182.33        18.94        17.49        15.16        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 
       49.02        75.16        46.06        65.75         1.22        87.45 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
       14.99       105.21         8.84        90.77        30.67        26.30 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 
       60.30        23.31        41.98         2.76        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 
       84.33        51.52        37.38        44.42         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
       19.46        12.43        16.18        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 
       14.93        42.54        41.33        15.35        17.88        40.08 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       16.01        20.09        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       10.72        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       48.69        20.45        18.64         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
        0.23        50.63        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
        1.64         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RB 
        0.23        26.04         0.13        20.22         0.07         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CY 
       15.85        14.04        14.83        14.53        13.61         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
        9.17        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
        5.03        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TX 
       19.59        30.67        62.17        87.12        18.77        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       35.38        36.82        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84C 
       54.77        48.33        49.32        34.78        65.39        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       36.69        33.73        31.20        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        0.10        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  PTEN MUTATED PTEN WILD-TYPE 
          0.49           0.03 
  PTEN MUTATED PTEN WILD-TYPE 
        211.17         182.33 
  PTEN MUTATED PTEN WILD-TYPE 
         17.13          21.30 
[1] "0.5 - 211.2 (17.1)" "0.0 - 182.3 (21.3)"
[1] "hr=" "3.1"
D11V2, continuous
D11V3, binary
                cls
clus               0   1
  PTEN MUTATED     8  16
  PTEN WILD-TYPE 221 267
[1] "tbl2"
                cls
clus             [,1] [,2]
  PTEN MUTATED      8   16
  PTEN WILD-TYPE  221  267
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  FEMALE            8            221
  MALE             16            267
[1] 2 2
[1] FALSE
D11V4, binary
                cls
clus               0   1
  PTEN MUTATED     4  17
  PTEN WILD-TYPE 182 274
[1] "tbl2"
                cls
clus             [,1] [,2]
  PTEN MUTATED      4   17
  PTEN WILD-TYPE  182  274
     clus
vv    PTEN MUTATED PTEN WILD-TYPE
  NO             4            182
  YES           17            274
[1] 2 2
[1] FALSE
D11V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  PTEN MUTATED            17                4                 3
  PTEN WILD-TYPE         175              126               187
D11V6, multiclass
                   clus
vv                  PTEN MUTATED PTEN WILD-TYPE
  ASTROCYTOMA                 17            175
  OLIGOASTROCYTOMA             4            126
  OLIGODENDROGLIOMA            3            187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PTEN MUTATED                                  0     0
  PTEN WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  PTEN MUTATED                           3    21
  PTEN WILD-TYPE                        18   451
D11V7, multiclass
                                  clus
vv                                 PTEN MUTATED PTEN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   3             18
  WHITE                                      21            451
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V8, binary
                cls
clus               0   1
  PTEN MUTATED     1  21
  PTEN WILD-TYPE  31 425
[1] "tbl2"
                cls
clus             [,1] [,2]
  PTEN MUTATED      1   21
  PTEN WILD-TYPE   31  425
                        clus
vv                       PTEN MUTATED PTEN WILD-TYPE
  HISPANIC OR LATINO                1             31
  NOT HISPANIC OR LATINO           21            425
[1] 2 2
[1] FALSE

Clustering(12) Variable = EGFR MUTATION ANALYSIS
D12V1, survival
                sevent
clus2              0   1
  EGFR MUTATED    14  21
  EGFR WILD-TYPE 376  98
  EGFR MUTATED EGFR WILD-TYPE 
            35            474 
  EGFR MUTATED EGFR WILD-TYPE 
            21             98 
$`EGFR MUTATED`
TCGA-DU-5852 TCGA-DU-6392 TCGA-DU-6410 TCGA-DU-7006 TCGA-DU-7012 TCGA-DU-7292 
        6.74       211.17         7.96        11.47         6.54         7.96 
TCGA-DU-8158 TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-A5TT TCGA-DU-A5TY TCGA-DU-A7TD 
        5.10        14.60        21.40        24.43        33.96         7.50 
TCGA-E1-A7YJ TCGA-E1-A7YM TCGA-E1-A7YQ TCGA-E1-A7Z2 TCGA-FG-6692 TCGA-FG-A4MU 
       19.46        21.30        51.88        13.08        18.44        10.72 
TCGA-FG-A4MW TCGA-FG-A70Z TCGA-FG-A87Q TCGA-HT-8104 TCGA-HT-8107 TCGA-HT-8110 
       18.38        10.78         5.72        12.23         0.46        13.78 
TCGA-HT-A5RC TCGA-HT-A61C TCGA-KT-A7W1 TCGA-QH-A6CX TCGA-QH-A6XC TCGA-S9-A6WN 
        5.33        17.65        14.40        12.23         5.03        26.47 
TCGA-S9-A7IX TCGA-S9-A7R2 TCGA-TM-A7C3 TCGA-TQ-A7RP TCGA-VM-A8CD 
       26.93        10.39        54.77        30.05         7.89 

$`EGFR WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        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-7007 
       19.89        16.83        94.52       114.08         2.40        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7013 TCGA-DU-7015 
      156.23       154.36        14.99       105.21         8.84        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       30.67        26.30        10.36        94.32        18.94        44.02 
TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       62.01        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8161 TCGA-DU-8163 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       23.74        20.68        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 
       33.27        29.85        31.69        26.17        24.99        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       17.16        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
       37.38        44.42         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YL 
       14.30        29.13        93.21         3.65        12.43        16.18 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       23.90        75.02        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
      146.14        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 
       14.93        42.54        41.33        15.35        17.88        40.08 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       16.01        20.09        14.96        22.52        32.61        38.27 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       16.44        22.26        28.54        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
       18.64        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8105 
        9.40        63.55         0.10        37.87        33.01         6.25 
TCGA-HT-8106 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        0.10         2.50         5.56         0.23        29.59        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       13.74        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 
       20.22         0.07        27.35         0.10         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        42.77        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       13.61         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
       16.73         1.91        16.50        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       84.99        31.10        19.86        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
       36.13         7.92        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
      169.84        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       20.48        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       44.09        36.69        33.73        31.20        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
       13.51         0.10        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  EGFR MUTATED EGFR WILD-TYPE 
          0.46           0.03 
  EGFR MUTATED EGFR WILD-TYPE 
        211.17         182.33 
  EGFR MUTATED EGFR WILD-TYPE 
        13.080         21.465 
[1] "0.5 - 211.2 (13.1)" "0.0 - 182.3 (21.5)"
[1] "hr=" "4.6"
D12V2, continuous
D12V3, binary
                cls
clus               0   1
  EGFR MUTATED    16  19
  EGFR WILD-TYPE 213 264
[1] "tbl2"
                cls
clus             [,1] [,2]
  EGFR MUTATED     16   19
  EGFR WILD-TYPE  213  264
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  FEMALE           16            213
  MALE             19            264
[1] 2 2
[1] FALSE
D12V4, binary
                cls
clus               0   1
  EGFR MUTATED     6  26
  EGFR WILD-TYPE 180 265
[1] "tbl2"
                cls
clus             [,1] [,2]
  EGFR MUTATED      6   26
  EGFR WILD-TYPE  180  265
     clus
vv    EGFR MUTATED EGFR WILD-TYPE
  NO             6            180
  YES           26            265
[1] 2 2
[1] FALSE
D12V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  EGFR MUTATED            20                7                 8
  EGFR WILD-TYPE         172              123               182
D12V6, multiclass
                   clus
vv                  EGFR MUTATED EGFR WILD-TYPE
  ASTROCYTOMA                 20            172
  OLIGOASTROCYTOMA             7            123
  OLIGODENDROGLIOMA            8            182
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  EGFR MUTATED                                  0     0
  EGFR WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  EGFR MUTATED                           4    31
  EGFR WILD-TYPE                        17   441
D12V7, multiclass
                                  clus
vv                                 EGFR MUTATED EGFR WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   4             17
  WHITE                                      31            441
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V8, binary
                cls
clus               0   1
  EGFR MUTATED     1  33
  EGFR WILD-TYPE  31 413
[1] "tbl2"
                cls
clus             [,1] [,2]
  EGFR MUTATED      1   33
  EGFR WILD-TYPE   31  413
                        clus
vv                       EGFR MUTATED EGFR WILD-TYPE
  HISPANIC OR LATINO                1             31
  NOT HISPANIC OR LATINO           33            413
[1] 2 2
[1] FALSE

Clustering(13) Variable = GAGE2A MUTATION ANALYSIS
D13V1, survival
                  sevent
clus2                0   1
  GAGE2A MUTATED     7   1
  GAGE2A WILD-TYPE 383 118
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               8              501 
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               1              118 
$`GAGE2A MUTATED`
TCGA-DU-5849 TCGA-DU-A7TJ TCGA-E1-5303 TCGA-FG-A4MY TCGA-HT-7481 TCGA-HT-A616 
       14.56         0.56        67.46        23.70        95.93         1.81 
TCGA-S9-A6TV TCGA-VW-A7QS 
       18.77        23.21 

$`GAGE2A WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5851 TCGA-DU-5852 
       17.46        13.71        18.61        18.02        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-E1-5302 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       44.42        50.14        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A60J 
       32.61        38.27        10.72        18.38        18.71        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       17.82        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
        6.38        40.34        75.19       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       34.19        13.74        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A 
        2.70        16.93        16.14        16.83        21.40         6.38 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54         6.18        10.55 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X 
       12.76        20.81        20.71        19.00        42.77        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        4.11         5.88         7.63         0.76         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50         5.03        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       32.65        59.38        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TW 
        2.07        19.59        30.67        62.17        87.12        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       28.14        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        43.04        43.20        13.51         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A8FI 
       39.16        20.02        23.47        37.05        16.01         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       46.88        37.71        20.81 

  GAGE2A MUTATED GAGE2A WILD-TYPE 
            0.56             0.03 
  GAGE2A MUTATED GAGE2A WILD-TYPE 
           95.93           211.17 
  GAGE2A MUTATED GAGE2A WILD-TYPE 
           20.99            20.71 
[1] "0.6 - 95.9 (21.0)"  "0.0 - 211.2 (20.7)"
[1] "hr=" "1.9"
D13V2, continuous
D13V3, binary
                  cls
clus                 0   1
  GAGE2A MUTATED     3   5
  GAGE2A WILD-TYPE 226 278
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GAGE2A MUTATED      3    5
  GAGE2A WILD-TYPE  226  278
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  FEMALE              3              226
  MALE                5              278
[1] 2 2
[1] FALSE
D13V4, binary
                  cls
clus                 0   1
  GAGE2A MUTATED     3   4
  GAGE2A WILD-TYPE 183 287
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GAGE2A MUTATED      3    4
  GAGE2A WILD-TYPE  183  287
     clus
vv    GAGE2A MUTATED GAGE2A WILD-TYPE
  NO               3              183
  YES              4              287
[1] 2 2
[1] FALSE
D13V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  GAGE2A MUTATED             3                2                 3
  GAGE2A WILD-TYPE         189              128               187
D13V6, multiclass
                   clus
vv                  GAGE2A MUTATED GAGE2A WILD-TYPE
  ASTROCYTOMA                    3              189
  OLIGOASTROCYTOMA               2              128
  OLIGODENDROGLIOMA              3              187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  GAGE2A MUTATED                                  0     1
  GAGE2A WILD-TYPE                                1     7
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  GAGE2A MUTATED                           1     6
  GAGE2A WILD-TYPE                        20   466
D13V7, multiclass
                                  clus
vv                                 GAGE2A MUTATED GAGE2A WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         1                7
  BLACK OR AFRICAN AMERICAN                     1               20
  WHITE                                         6              466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V8, binary
                  cls
clus                 0   1
  GAGE2A MUTATED     1   7
  GAGE2A WILD-TYPE  31 439
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GAGE2A MUTATED      1    7
  GAGE2A WILD-TYPE   31  439
                        clus
vv                       GAGE2A MUTATED GAGE2A WILD-TYPE
  HISPANIC OR LATINO                  1               31
  NOT HISPANIC OR LATINO              7              439
[1] 2 2
[1] FALSE

Clustering(14) Variable = NUDT11 MUTATION ANALYSIS
D14V1, survival
                  sevent
clus2                0   1
  NUDT11 MUTATED     9   2
  NUDT11 WILD-TYPE 381 117
  NUDT11 MUTATED NUDT11 WILD-TYPE 
              11              498 
  NUDT11 MUTATED NUDT11 WILD-TYPE 
               2              117 
$`NUDT11 MUTATED`
TCGA-DU-6392 TCGA-DU-6400 TCGA-FG-A4MX TCGA-HT-7470 TCGA-HT-7477 TCGA-HT-7684 
      211.17         1.22        18.71        40.11        24.26         6.05 
TCGA-HW-8322 TCGA-QH-A65Z TCGA-QH-A6CW TCGA-S9-A7IY TCGA-S9-A7J0 
        6.18        14.04        13.61        23.51        20.02 

$`NUDT11 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        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-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MY 
       22.52        32.61        38.27        10.72        18.38        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7471 
        5.72        27.52         0.10         6.67        11.54         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 
        0.03        16.54         3.75        17.42         6.54         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7686 
       14.27         0.16        16.24         0.76        44.68        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       13.74        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A 
       16.93         1.81        16.14        16.83        21.40         6.38 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-A5KJ TCGA-HW-A5KK 
       35.44        39.75        40.01        42.54        10.55        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 
       20.81        20.71        19.00        42.77        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A6CS TCGA-QH-A6CU 
       15.16         2.53        12.62        15.85        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       14.53        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IZ TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       19.99         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  NUDT11 MUTATED NUDT11 WILD-TYPE 
            1.22             0.03 
  NUDT11 MUTATED NUDT11 WILD-TYPE 
          211.17           182.33 
  NUDT11 MUTATED NUDT11 WILD-TYPE 
           18.71            20.81 
[1] "1.2 - 211.2 (18.7)" "0.0 - 182.3 (20.8)"
[1] "hr=" "1.6"
D14V2, continuous
D14V3, binary
                  cls
clus                 0   1
  NUDT11 MUTATED     3   8
  NUDT11 WILD-TYPE 226 275
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NUDT11 MUTATED      3    8
  NUDT11 WILD-TYPE  226  275
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  FEMALE              3              226
  MALE                8              275
[1] 2 2
[1] FALSE
D14V4, binary
                  cls
clus                 0   1
  NUDT11 MUTATED     4   7
  NUDT11 WILD-TYPE 182 284
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NUDT11 MUTATED      4    7
  NUDT11 WILD-TYPE  182  284
     clus
vv    NUDT11 MUTATED NUDT11 WILD-TYPE
  NO               4              182
  YES              7              284
[1] 2 2
[1] FALSE
D14V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  NUDT11 MUTATED             3                3                 5
  NUDT11 WILD-TYPE         189              127               185
D14V6, multiclass
                   clus
vv                  NUDT11 MUTATED NUDT11 WILD-TYPE
  ASTROCYTOMA                    3              189
  OLIGOASTROCYTOMA               3              127
  OLIGODENDROGLIOMA              5              185
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NUDT11 MUTATED                                  0     0
  NUDT11 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  NUDT11 MUTATED                           0    11
  NUDT11 WILD-TYPE                        21   461
D14V7, multiclass
                                  clus
vv                                 NUDT11 MUTATED NUDT11 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                        11              461
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V8, binary
                  cls
clus                 0   1
  NUDT11 MUTATED     0  11
  NUDT11 WILD-TYPE  32 435
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NUDT11 MUTATED      0   11
  NUDT11 WILD-TYPE   32  435
                        clus
vv                       NUDT11 MUTATED NUDT11 WILD-TYPE
  HISPANIC OR LATINO                  0               32
  NOT HISPANIC OR LATINO             11              435
[1] 2 2
[1] FALSE

Clustering(15) Variable = PIK3CA MUTATION ANALYSIS
D15V1, survival
                  sevent
clus2                0   1
  PIK3CA MUTATED    33  11
  PIK3CA WILD-TYPE 357 108
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              44              465 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              11              108 
$`PIK3CA MUTATED`
TCGA-DB-A64Q TCGA-DB-A64V TCGA-DB-A64W TCGA-DU-6392 TCGA-DU-6405 TCGA-DU-7006 
        5.98        29.23        14.40       211.17        19.89        11.47 
TCGA-DU-7018 TCGA-DU-7298 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8168 TCGA-DU-A5TT 
       30.67        18.94        21.40        19.13        14.17        24.43 
TCGA-DU-A6S3 TCGA-DU-A76R TCGA-FG-5962 TCGA-FG-7634 TCGA-FG-8187 TCGA-HT-7468 
       21.57        21.30        47.77        15.35        20.09         6.67 
TCGA-HT-7478 TCGA-HT-7481 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7620 TCGA-HT-7692 
        6.38        95.93         4.57         3.16        14.27         2.96 
TCGA-HT-7874 TCGA-HT-7882 TCGA-HW-7491 TCGA-KT-A7W1 TCGA-P5-A5F0 TCGA-P5-A72U 
       37.15         3.72        68.32        14.40         4.11         0.23 
TCGA-R8-A6MO TCGA-S9-A6TW TCGA-S9-A6U0 TCGA-S9-A6U2 TCGA-S9-A6WN TCGA-S9-A7J1 
       32.65        41.10        24.39        29.85        26.47         8.19 
TCGA-S9-A7R7 TCGA-TM-A84F TCGA-TM-A84S TCGA-TQ-A7RO TCGA-TQ-A8XE TCGA-VM-A8C9 
       98.63        59.05        14.93        31.20        31.36        43.20 
TCGA-VW-A8FI TCGA-WY-A85E 
        8.05        20.81 

$`PIK3CA WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        30.12 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       31.40        27.45        27.81        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 
       17.88        30.74        16.18        19.96        31.82        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F 
       46.06         8.02        30.21        42.05        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 
        6.81       182.33        18.94        17.49        15.16        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6406 TCGA-DU-6407 
       87.45         7.04        11.64       133.74        16.83        94.52 
TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
      114.08         7.96         2.40        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7019 
       14.99       105.21         6.54         8.84        90.77        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
       10.36         7.96        94.32        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-A5TP TCGA-DU-A5TR 
       14.60        20.68        16.96        15.48        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S6 
       31.69        26.17        24.99        33.96        25.55        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A7T6 
       20.98        22.29        11.41        26.76        17.16        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
       39.48         0.23         0.20        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 
       18.77        14.93        42.54        41.33        18.44        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       14.24        16.01        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K 
       10.72        18.38        18.71        23.70        14.76        17.82 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 
       36.66        48.69        20.45        18.64         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        0.10        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7479 TCGA-HT-7480 
        3.75        17.42         6.54        24.26        40.34        75.19 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7606 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
      122.47        17.29        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
        0.23         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7875 TCGA-HT-7877 
        0.23        50.63         0.49        23.61         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        3.68         5.33        35.47        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       13.45        41.49        45.60        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        42.77        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.37         2.30         5.88         7.63         0.76         1.28 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50         5.03        11.08        12.99        88.83        94.03 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TX 
       19.59        30.67        62.17        87.12        18.77        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U1 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       35.38        36.82        25.81        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WO TCGA-S9-A6WP 
       38.56        84.99        31.10        19.86        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
       20.02         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R8 
       27.16       169.84        10.39        99.06        30.05        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       65.39        24.92        16.18        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       44.09        36.69        33.73        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-VM-A8C8 TCGA-VM-A8CA TCGA-VM-A8CB 
       33.93        61.41        26.99        43.04        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
       23.21        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       45.80        46.88        37.71 

  PIK3CA MUTATED PIK3CA WILD-TYPE 
            0.23             0.03 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
          211.17           182.33 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
           20.45            20.71 
[1] "0.2 - 211.2 (20.4)" "0.0 - 182.3 (20.7)"
[1] "hr=" "1.2"
D15V2, continuous
D15V3, binary
                  cls
clus                 0   1
  PIK3CA MUTATED    19  25
  PIK3CA WILD-TYPE 210 258
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3CA MUTATED     19   25
  PIK3CA WILD-TYPE  210  258
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  FEMALE             19              210
  MALE               25              258
[1] 2 2
[1] FALSE
D15V4, binary
                  cls
clus                 0   1
  PIK3CA MUTATED    21  23
  PIK3CA WILD-TYPE 165 268
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3CA MUTATED     21   23
  PIK3CA WILD-TYPE  165  268
     clus
vv    PIK3CA MUTATED PIK3CA WILD-TYPE
  NO              21              165
  YES             23              268
[1] 2 2
[1] FALSE
D15V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  PIK3CA MUTATED            13                6                25
  PIK3CA WILD-TYPE         179              124               165
D15V6, multiclass
                   clus
vv                  PIK3CA MUTATED PIK3CA WILD-TYPE
  ASTROCYTOMA                   13              179
  OLIGOASTROCYTOMA               6              124
  OLIGODENDROGLIOMA             25              165
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PIK3CA MUTATED                                  0     1
  PIK3CA WILD-TYPE                                1     7
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  PIK3CA MUTATED                           2    39
  PIK3CA WILD-TYPE                        19   433
D15V7, multiclass
                                  clus
vv                                 PIK3CA MUTATED PIK3CA WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         1                7
  BLACK OR AFRICAN AMERICAN                     2               19
  WHITE                                        39              433
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V8, binary
                  cls
clus                 0   1
  PIK3CA MUTATED     3  37
  PIK3CA WILD-TYPE  29 409
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3CA MUTATED      3   37
  PIK3CA WILD-TYPE   29  409
                        clus
vv                       PIK3CA MUTATED PIK3CA WILD-TYPE
  HISPANIC OR LATINO                  3               29
  NOT HISPANIC OR LATINO             37              409
[1] 2 2
[1] FALSE

Clustering(16) Variable = STK19 MUTATION ANALYSIS
D16V1, survival
                 sevent
clus2               0   1
  STK19 MUTATED     9   1
  STK19 WILD-TYPE 381 118
  STK19 MUTATED STK19 WILD-TYPE 
             10             499 
  STK19 MUTATED STK19 WILD-TYPE 
              1             118 
$`STK19 MUTATED`
TCGA-DU-6392 TCGA-FG-A60J TCGA-HT-8015 TCGA-HT-A5R5 TCGA-HT-A5RA TCGA-HT-A5RB 
      211.17        14.76         0.10         0.13        27.35         0.10 
TCGA-HT-A5RC TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-S9-A7QY 
        5.33         5.88         7.63        28.37 

$`STK19 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        17.82        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
       16.24         9.40        63.55        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A614 TCGA-HT-A615 
        0.23        26.04        20.22         0.07         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 
       56.58        13.45        41.49        45.60        68.32        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54         6.18        10.55        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 
       20.81        20.71        19.00        42.77        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         4.11 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       15.06        18.54        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  STK19 MUTATED STK19 WILD-TYPE 
           0.10            0.03 
  STK19 MUTATED STK19 WILD-TYPE 
         211.17          182.33 
  STK19 MUTATED STK19 WILD-TYPE 
          6.755          20.810 
[1] "0.1 - 211.2 (6.8)"  "0.0 - 182.3 (20.8)"
[1] "hr=" "2.7"
D16V2, continuous
D16V3, binary
                 cls
clus                0   1
  STK19 MUTATED     7   3
  STK19 WILD-TYPE 222 280
[1] "tbl2"
                 cls
clus              [,1] [,2]
  STK19 MUTATED      7    3
  STK19 WILD-TYPE  222  280
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  FEMALE             7             222
  MALE               3             280
[1] 2 2
[1] FALSE
D16V4, binary
                 cls
clus                0   1
  STK19 MUTATED     3   3
  STK19 WILD-TYPE 183 288
[1] "tbl2"
                 cls
clus              [,1] [,2]
  STK19 MUTATED      3    3
  STK19 WILD-TYPE  183  288
     clus
vv    STK19 MUTATED STK19 WILD-TYPE
  NO              3             183
  YES             3             288
[1] 2 2
[1] FALSE
D16V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  STK19 MUTATED             7                2                 1
  STK19 WILD-TYPE         185              128               189
D16V6, multiclass
                   clus
vv                  STK19 MUTATED STK19 WILD-TYPE
  ASTROCYTOMA                   7             185
  OLIGOASTROCYTOMA              2             128
  OLIGODENDROGLIOMA             1             189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  STK19 MUTATED                                  0     0
  STK19 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  STK19 MUTATED                           0    10
  STK19 WILD-TYPE                        21   462
D16V7, multiclass
                                  clus
vv                                 STK19 MUTATED STK19 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                       10             462
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V8, binary
                 cls
clus                0   1
  STK19 MUTATED     2   8
  STK19 WILD-TYPE  30 438
[1] "tbl2"
                 cls
clus              [,1] [,2]
  STK19 MUTATED      2    8
  STK19 WILD-TYPE   30  438
                        clus
vv                       STK19 MUTATED STK19 WILD-TYPE
  HISPANIC OR LATINO                 2              30
  NOT HISPANIC OR LATINO             8             438
[1] 2 2
[1] FALSE

Clustering(17) Variable = EMG1 MUTATION ANALYSIS
D17V1, survival
                sevent
clus2              0   1
  EMG1 MUTATED     5   1
  EMG1 WILD-TYPE 385 118
  EMG1 MUTATED EMG1 WILD-TYPE 
             6            503 
  EMG1 MUTATED EMG1 WILD-TYPE 
             1            118 
$`EMG1 MUTATED`
TCGA-DB-A75K TCGA-DU-7304 TCGA-HT-7485 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-S9-A7IZ 
       12.10        23.31         4.01        16.34        16.73        19.99 

$`EMG1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       18.51        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       25.91        60.30        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      106.95       172.77         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7J0 
       14.07        36.13         7.92        26.93        23.51        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        43.04        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  EMG1 MUTATED EMG1 WILD-TYPE 
          4.01           0.03 
  EMG1 MUTATED EMG1 WILD-TYPE 
         23.31         211.17 
  EMG1 MUTATED EMG1 WILD-TYPE 
        16.535         20.810 
[1] "4.0 - 23.3 (16.5)"  "0.0 - 211.2 (20.8)"
[1] "hr=" "1.8"
D17V2, continuous
D17V3, binary
                cls
clus               0   1
  EMG1 MUTATED     4   2
  EMG1 WILD-TYPE 225 281
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      4    2
  EMG1 WILD-TYPE  225  281
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  FEMALE            4            225
  MALE              2            281
[1] 2 2
[1] FALSE
D17V4, binary
                cls
clus               0   1
  EMG1 MUTATED     2   4
  EMG1 WILD-TYPE 184 287
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      2    4
  EMG1 WILD-TYPE  184  287
     clus
vv    EMG1 MUTATED EMG1 WILD-TYPE
  NO             2            184
  YES            4            287
[1] 2 2
[1] FALSE
D17V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  EMG1 MUTATED             2                3                 1
  EMG1 WILD-TYPE         190              127               189
D17V6, multiclass
                   clus
vv                  EMG1 MUTATED EMG1 WILD-TYPE
  ASTROCYTOMA                  2            190
  OLIGOASTROCYTOMA             3            127
  OLIGODENDROGLIOMA            1            189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  EMG1 MUTATED                                  0     0
  EMG1 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  EMG1 MUTATED                           0     6
  EMG1 WILD-TYPE                        21   466
D17V7, multiclass
                                  clus
vv                                 EMG1 MUTATED EMG1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       6            466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V8, binary
                cls
clus               0   1
  EMG1 MUTATED     0   6
  EMG1 WILD-TYPE  32 440
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      0    6
  EMG1 WILD-TYPE   32  440
                        clus
vv                       EMG1 MUTATED EMG1 WILD-TYPE
  HISPANIC OR LATINO                0             32
  NOT HISPANIC OR LATINO            6            440
[1] 2 2
[1] FALSE

Clustering(18) Variable = SMARCA4 MUTATION ANALYSIS
D18V1, survival
                   sevent
clus2                 0   1
  SMARCA4 MUTATED    25   1
  SMARCA4 WILD-TYPE 365 118
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               26               483 
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
                1               118 
$`SMARCA4 MUTATED`
TCGA-CS-5393 TCGA-CS-6667 TCGA-DH-A7US TCGA-DH-A7UV TCGA-DU-6392 TCGA-DU-7008 
       40.18         7.56        23.21        18.61       211.17       156.23 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7294 TCGA-F6-A8O3 TCGA-FG-6690 TCGA-HT-7606 
       30.67        26.30        94.32         0.23        42.54        17.29 
TCGA-HT-7688 TCGA-HT-7855 TCGA-HT-8109 TCGA-HT-A614 TCGA-HW-8322 TCGA-QH-A6CV 
       31.69        19.23         5.56         2.70         6.18        14.53 
TCGA-QH-A6CW TCGA-RY-A840 TCGA-S9-A7R4 TCGA-TM-A84H TCGA-TQ-A7RV TCGA-VM-A8CF 
       13.61        28.08        30.05        30.44        61.41        20.02 
TCGA-WY-A858 TCGA-WY-A85A 
       43.96        43.40 

$`SMARCA4 WILD-TYPE`
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-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.10        21.01         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6668 TCGA-CS-6669 TCGA-CS-6670 
       17.95        12.43        46.95        49.94        49.12         6.61 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        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-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 
       11.24        17.88        30.74        16.18        19.96        31.82 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D 
       63.88        46.06         8.02        30.21        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DU-5847 
       17.19        17.19        54.25        17.46        13.71        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 
      182.33        18.94        17.49        15.16        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 
       49.02        75.16        46.06        65.75         1.22        87.45 
TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 
        7.04        11.64       133.74        19.89        16.83        94.52 
TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7009 
      114.08         7.96         2.40        11.47        62.96       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7290 
       14.99       105.21         6.54         8.84        90.77        10.36 
TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
        7.96        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 
       14.93        41.33        18.44        15.35        17.88        40.08 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       16.01        20.09        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K 
       10.72        18.38        18.71        23.70        14.76        17.82 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 
       36.66        48.69        20.45        18.64         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7607 
        5.03        29.85        23.18       122.47         4.57         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
        0.10        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
        6.90        14.53        39.48        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8110 
       12.23         6.25         0.10         0.46         2.50        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        0.10         5.33        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.04        19.33        14.83        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
        5.03        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A843 TCGA-RY-A845 
       59.38        30.87         5.46         9.90         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       10.39        99.06        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       16.18        59.05        40.64        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       33.93        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        0.10         7.89        39.16        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A859 TCGA-WY-A85B 
       23.21         8.05        51.06        13.32        39.88        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       46.88        37.71        20.81 

  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
             0.23              0.03 
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
           211.17            182.33 
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
            27.19             20.68 
[1] "0.2 - 211.2 (27.2)" "0.0 - 182.3 (20.7)"
[1] "hr=" "9.3"
D18V2, continuous
D18V3, binary
                   cls
clus                  0   1
  SMARCA4 MUTATED     9  17
  SMARCA4 WILD-TYPE 220 266
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SMARCA4 MUTATED      9   17
  SMARCA4 WILD-TYPE  220  266
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  FEMALE               9               220
  MALE                17               266
[1] 2 2
[1] FALSE
D18V4, binary
                   cls
clus                  0   1
  SMARCA4 MUTATED     9  15
  SMARCA4 WILD-TYPE 177 276
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SMARCA4 MUTATED      9   15
  SMARCA4 WILD-TYPE  177  276
     clus
vv    SMARCA4 MUTATED SMARCA4 WILD-TYPE
  NO                9               177
  YES              15               276
[1] 2 2
[1] FALSE
D18V5, continuous
                   vv
clus                ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  SMARCA4 MUTATED            11                5                10
  SMARCA4 WILD-TYPE         181              125               180
D18V6, multiclass
                   clus
vv                  SMARCA4 MUTATED SMARCA4 WILD-TYPE
  ASTROCYTOMA                    11               181
  OLIGOASTROCYTOMA                5               125
  OLIGODENDROGLIOMA              10               180
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SMARCA4 MUTATED                                  0     2
  SMARCA4 WILD-TYPE                                1     6
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  SMARCA4 MUTATED                           0    23
  SMARCA4 WILD-TYPE                        21   449
D18V7, multiclass
                                  clus
vv                                 SMARCA4 MUTATED SMARCA4 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          2                 6
  BLACK OR AFRICAN AMERICAN                      0                21
  WHITE                                         23               449
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V8, binary
                   cls
clus                  0   1
  SMARCA4 MUTATED     2  19
  SMARCA4 WILD-TYPE  30 427
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SMARCA4 MUTATED      2   19
  SMARCA4 WILD-TYPE   30  427
                        clus
vv                       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  HISPANIC OR LATINO                   2                30
  NOT HISPANIC OR LATINO              19               427
[1] 2 2
[1] FALSE

Clustering(19) Variable = NIPBL MUTATION ANALYSIS
D19V1, survival
                 sevent
clus2               0   1
  NIPBL MUTATED    15   3
  NIPBL WILD-TYPE 375 116
  NIPBL MUTATED NIPBL WILD-TYPE 
             18             491 
  NIPBL MUTATED NIPBL WILD-TYPE 
              3             116 
$`NIPBL MUTATED`
TCGA-DB-A4XG TCGA-DH-5141 TCGA-DH-A7UT TCGA-DU-6392 TCGA-DU-7009 TCGA-F6-A8O3 
       72.95        31.82        17.46       211.17       154.36         0.23 
TCGA-FN-7833 TCGA-HT-7468 TCGA-HT-A619 TCGA-P5-A72Z TCGA-P5-A730 TCGA-R8-A6ML 
       27.52         6.67        21.40        11.64        10.95        94.03 
TCGA-RY-A83Y TCGA-S9-A6UB TCGA-S9-A7IY TCGA-TM-A7C3 TCGA-TQ-A7RG TCGA-W9-A837 
        5.46       123.65        23.51        54.77        19.69        51.06 

$`NIPBL WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       33.57        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D 
       63.88        46.06         8.02        30.21        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        17.19        54.25        23.21        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 
        6.81       182.33        18.94        17.49        15.16        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 
      156.23        14.99       105.21         6.54         8.84        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 
       44.02        62.01        25.91        60.30        23.31        41.98 
TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
        2.76         5.10        23.74        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       19.13        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       31.69        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       17.16        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
       37.38         7.50        44.42         0.56        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       41.13        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
      130.78        14.30        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ 
       12.43        16.18        21.30        23.90        75.02        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       15.32         0.76        32.45        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O4 TCGA-FG-5962 
       73.48       145.05        32.35        39.48         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 
       41.33        18.44        15.35        17.88        40.08        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       18.38        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-HT-7467 TCGA-HT-7469 
       48.69        20.45        18.64         5.72         0.10        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.14        16.83         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A731 
        0.76         1.28         0.23        10.42        13.25         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        59.38        30.87         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       28.14        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6WD 
       32.61        35.15        98.24        95.93         5.85        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       26.93        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       21.37        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       16.01        23.21         8.05        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  NIPBL MUTATED NIPBL WILD-TYPE 
           0.23            0.03 
  NIPBL MUTATED NIPBL WILD-TYPE 
         211.17          182.33 
  NIPBL MUTATED NIPBL WILD-TYPE 
         25.515          20.680 
[1] "0.2 - 211.2 (25.5)" "0.0 - 182.3 (20.7)"
[1] "hr=" "2.9"
D19V2, continuous
D19V3, binary
                 cls
clus                0   1
  NIPBL MUTATED     5  13
  NIPBL WILD-TYPE 224 270
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NIPBL MUTATED      5   13
  NIPBL WILD-TYPE  224  270
        clus
vv       NIPBL MUTATED NIPBL WILD-TYPE
  FEMALE             5             224
  MALE              13             270
[1] 2 2
[1] FALSE
D19V4, binary
                 cls
clus                0   1
  NIPBL MUTATED     9   8
  NIPBL WILD-TYPE 177 283
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NIPBL MUTATED      9    8
  NIPBL WILD-TYPE  177  283
     clus
vv    NIPBL MUTATED NIPBL WILD-TYPE
  NO              9             177
  YES             8             283
[1] 2 2
[1] FALSE
D19V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  NIPBL MUTATED             3                4                11
  NIPBL WILD-TYPE         189              126               179
D19V6, multiclass
                   clus
vv                  NIPBL MUTATED NIPBL WILD-TYPE
  ASTROCYTOMA                   3             189
  OLIGOASTROCYTOMA              4             126
  OLIGODENDROGLIOMA            11             179
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NIPBL MUTATED                                  0     2
  NIPBL WILD-TYPE                                1     6
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  NIPBL MUTATED                           0    16
  NIPBL WILD-TYPE                        21   456
D19V7, multiclass
                                  clus
vv                                 NIPBL MUTATED NIPBL WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        2               6
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                       16             456
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V8, binary
                 cls
clus                0   1
  NIPBL MUTATED     3  15
  NIPBL WILD-TYPE  29 431
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NIPBL MUTATED      3   15
  NIPBL WILD-TYPE   29  431
                        clus
vv                       NIPBL MUTATED NIPBL WILD-TYPE
  HISPANIC OR LATINO                 3              29
  NOT HISPANIC OR LATINO            15             431
[1] 2 2
[1] FALSE

Clustering(20) Variable = TCF12 MUTATION ANALYSIS
D20V1, survival
                 sevent
clus2               0   1
  TCF12 MUTATED    12   3
  TCF12 WILD-TYPE 378 116
  TCF12 MUTATED TCF12 WILD-TYPE 
             15             494 
  TCF12 MUTATED TCF12 WILD-TYPE 
              3             116 
$`TCF12 MUTATED`
TCGA-CS-6668 TCGA-DB-5270 TCGA-DB-A75O TCGA-DU-7018 TCGA-E1-5307 TCGA-E1-A7YW 
       49.94       122.73        30.74        30.67        57.93        36.82 
TCGA-FG-8182 TCGA-HT-7601 TCGA-HT-7875 TCGA-HT-8011 TCGA-HT-8105 TCGA-S9-A6TZ 
       13.68         5.03         0.33        16.24         6.25        36.82 
TCGA-S9-A6U2 TCGA-S9-A6WH TCGA-TM-A84F 
       29.85        38.56        59.05 

$`TCF12 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6669 
       23.84        17.95        12.43        46.95         7.56        49.12 
TCGA-CS-6670 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
        6.61        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        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-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 
       11.24        17.88        16.18        19.96        31.82        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F 
       46.06         8.02        30.21        42.05        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
        8.84        90.77        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       18.94        44.02        62.01        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       26.76        17.16        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 
       51.52        37.38         7.50        44.42         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       67.46        41.13        79.99       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
      130.78        14.30        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ 
       12.43        16.18        21.30        23.90        75.02        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
       15.32         0.76        32.45       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 
       41.33        18.44        15.35        17.88        40.08        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.61        20.09        28.34        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7602 TCGA-HT-7603 
       95.93       106.95       172.77         4.01        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
        0.49        23.61        37.15         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8012 
       35.47         3.72        11.28        31.43         1.64         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8106 
       63.55         0.10        37.87        33.01        12.23         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       34.19        13.74        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6U0 TCGA-S9-A6U1 
       18.77        41.10        28.14        35.38        24.39        25.81 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
       75.25       135.22        85.55        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       24.92        16.18        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  TCF12 MUTATED TCF12 WILD-TYPE 
           0.33            0.03 
  TCF12 MUTATED TCF12 WILD-TYPE 
         122.73          211.17 
  TCF12 MUTATED TCF12 WILD-TYPE 
         30.740          20.645 
[1] "0.3 - 122.7 (30.7)" "0.0 - 211.2 (20.6)"
[1] "hr=" "1.3"
D20V2, continuous
D20V3, binary
                 cls
clus                0   1
  TCF12 MUTATED     8   7
  TCF12 WILD-TYPE 221 276
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TCF12 MUTATED      8    7
  TCF12 WILD-TYPE  221  276
        clus
vv       TCF12 MUTATED TCF12 WILD-TYPE
  FEMALE             8             221
  MALE               7             276
[1] 2 2
[1] FALSE
D20V4, binary
                 cls
clus                0   1
  TCF12 MUTATED     5   9
  TCF12 WILD-TYPE 181 282
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TCF12 MUTATED      5    9
  TCF12 WILD-TYPE  181  282
     clus
vv    TCF12 MUTATED TCF12 WILD-TYPE
  NO              5             181
  YES             9             282
[1] 2 2
[1] FALSE
D20V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  TCF12 MUTATED             6                3                 6
  TCF12 WILD-TYPE         186              127               184
D20V6, multiclass
                   clus
vv                  TCF12 MUTATED TCF12 WILD-TYPE
  ASTROCYTOMA                   6             186
  OLIGOASTROCYTOMA              3             127
  OLIGODENDROGLIOMA             6             184
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TCF12 MUTATED                                  0     0
  TCF12 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  TCF12 MUTATED                           0    15
  TCF12 WILD-TYPE                        21   457
D20V7, multiclass
                                  clus
vv                                 TCF12 MUTATED TCF12 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                       15             457
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V8, binary
                 cls
clus                0   1
  TCF12 MUTATED     0  15
  TCF12 WILD-TYPE  32 431
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TCF12 MUTATED      0   15
  TCF12 WILD-TYPE   32  431
                        clus
vv                       TCF12 MUTATED TCF12 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO            15             431
[1] 2 2
[1] FALSE

Clustering(21) Variable = DNMT3A MUTATION ANALYSIS
D21V1, survival
                  sevent
clus2                0   1
  DNMT3A MUTATED    10   0
  DNMT3A WILD-TYPE 380 119
  DNMT3A MUTATED DNMT3A WILD-TYPE 
              10              499 
  DNMT3A MUTATED DNMT3A WILD-TYPE 
               0              119 
$`DNMT3A MUTATED`
TCGA-DU-6392 TCGA-DU-A5TS TCGA-FG-A710 TCGA-HT-7481 TCGA-HT-8564 TCGA-HW-8321 
      211.17        31.69        36.66        95.93        15.72        42.54 
TCGA-QH-A65X TCGA-S9-A7QW TCGA-S9-A89V TCGA-WH-A86K 
       15.85        15.06        18.71        13.32 

$`DNMT3A WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU 
       15.48        14.17        33.27        29.85        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       22.26        28.54        10.78        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7482 TCGA-HT-7483 
       24.26         6.38        40.34        75.19       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        13.74        28.27         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8322 TCGA-HW-A5KJ 
       68.32        35.44        39.75        40.01         6.18        10.55 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X 
       12.76        20.81        20.71        19.00        42.77        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        4.11         5.88         7.63         0.76         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65Z TCGA-QH-A6CS 
        4.41        15.16         2.53        12.62        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
        5.03        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       28.14        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
        2.04        20.68        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89Z 
       10.39        99.06        30.05        98.63        31.59        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
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 

  DNMT3A MUTATED DNMT3A WILD-TYPE 
           13.32             0.03 
  DNMT3A MUTATED DNMT3A WILD-TYPE 
          211.17           182.33 
  DNMT3A MUTATED DNMT3A WILD-TYPE 
           25.20            20.71 
[1] "13.3 - 211.2 (25.2)" "0.0 - 182.3 (20.7)" 
[1] "hr="     "2.7e+07"
D21V2, continuous
D21V3, binary
                  cls
clus                 0   1
  DNMT3A MUTATED     4   6
  DNMT3A WILD-TYPE 225 277
[1] "tbl2"
                  cls
clus               [,1] [,2]
  DNMT3A MUTATED      4    6
  DNMT3A WILD-TYPE  225  277
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  FEMALE              4              225
  MALE                6              277
[1] 2 2
[1] FALSE
D21V4, binary
                  cls
clus                 0   1
  DNMT3A MUTATED     3   7
  DNMT3A WILD-TYPE 183 284
[1] "tbl2"
                  cls
clus               [,1] [,2]
  DNMT3A MUTATED      3    7
  DNMT3A WILD-TYPE  183  284
     clus
vv    DNMT3A MUTATED DNMT3A WILD-TYPE
  NO               3              183
  YES              7              284
[1] 2 2
[1] FALSE
D21V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  DNMT3A MUTATED             6                1                 3
  DNMT3A WILD-TYPE         186              129               187
D21V6, multiclass
                   clus
vv                  DNMT3A MUTATED DNMT3A WILD-TYPE
  ASTROCYTOMA                    6              186
  OLIGOASTROCYTOMA               1              129
  OLIGODENDROGLIOMA              3              187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DNMT3A MUTATED                                  0     0
  DNMT3A WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  DNMT3A MUTATED                           1     9
  DNMT3A WILD-TYPE                        20   463
D21V7, multiclass
                                  clus
vv                                 DNMT3A MUTATED DNMT3A WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     1               20
  WHITE                                         9              463
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V8, binary
                  cls
clus                 0   1
  DNMT3A MUTATED     1   9
  DNMT3A WILD-TYPE  31 437
[1] "tbl2"
                  cls
clus               [,1] [,2]
  DNMT3A MUTATED      1    9
  DNMT3A WILD-TYPE   31  437
                        clus
vv                       DNMT3A MUTATED DNMT3A WILD-TYPE
  HISPANIC OR LATINO                  1               31
  NOT HISPANIC OR LATINO              9              437
[1] 2 2
[1] FALSE

Clustering(22) Variable = TRERF1 MUTATION ANALYSIS
D22V1, survival
                  sevent
clus2                0   1
  TRERF1 MUTATED     4   2
  TRERF1 WILD-TYPE 386 117
  TRERF1 MUTATED TRERF1 WILD-TYPE 
               6              503 
  TRERF1 MUTATED TRERF1 WILD-TYPE 
               2              117 
$`TRERF1 MUTATED`
TCGA-CS-4938 TCGA-DU-6392 TCGA-E1-5307 TCGA-HT-7902 TCGA-S9-A6WN TCGA-TM-A84L 
        4.70       211.17        57.93        31.43        26.47        40.83 

$`TRERF1 WILD-TYPE`
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5390 TCGA-CS-5393 
        7.69        43.89        18.15        10.62        64.64        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.10        21.01         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5311 
        0.56        50.14        67.46        41.13        79.99       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
       35.47         3.72        11.28         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WO TCGA-S9-A6WP 
       38.56        84.99        31.10        19.86        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84M TCGA-TM-A84O 
       40.64        30.44        28.08        24.16        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        43.04        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  TRERF1 MUTATED TRERF1 WILD-TYPE 
            4.70             0.03 
  TRERF1 MUTATED TRERF1 WILD-TYPE 
          211.17           182.33 
  TRERF1 MUTATED TRERF1 WILD-TYPE 
           36.13            20.68 
[1] "4.7 - 211.2 (36.1)" "0.0 - 182.3 (20.7)"
[1] "hr=" "1.7"
D22V2, continuous
D22V3, binary
                  cls
clus                 0   1
  TRERF1 MUTATED     5   1
  TRERF1 WILD-TYPE 224 282
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TRERF1 MUTATED      5    1
  TRERF1 WILD-TYPE  224  282
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  FEMALE              5              224
  MALE                1              282
[1] 2 2
[1] FALSE
D22V4, binary
                  cls
clus                 0   1
  TRERF1 MUTATED     3   3
  TRERF1 WILD-TYPE 183 288
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TRERF1 MUTATED      3    3
  TRERF1 WILD-TYPE  183  288
     clus
vv    TRERF1 MUTATED TRERF1 WILD-TYPE
  NO               3              183
  YES              3              288
[1] 2 2
[1] FALSE
D22V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  TRERF1 MUTATED             4                2                 0
  TRERF1 WILD-TYPE         188              128               190
D22V6, multiclass
                   clus
vv                  TRERF1 MUTATED TRERF1 WILD-TYPE
  ASTROCYTOMA                    4              188
  OLIGOASTROCYTOMA               2              128
  OLIGODENDROGLIOMA              0              190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TRERF1 MUTATED                                  0     0
  TRERF1 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  TRERF1 MUTATED                           0     6
  TRERF1 WILD-TYPE                        21   466
D22V7, multiclass
                                  clus
vv                                 TRERF1 MUTATED TRERF1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                         6              466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V8, binary
                  cls
clus                 0   1
  TRERF1 MUTATED     0   6
  TRERF1 WILD-TYPE  32 440
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TRERF1 MUTATED      0    6
  TRERF1 WILD-TYPE   32  440
                        clus
vv                       TRERF1 MUTATED TRERF1 WILD-TYPE
  HISPANIC OR LATINO                  0               32
  NOT HISPANIC OR LATINO              6              440
[1] 2 2
[1] FALSE

Clustering(23) Variable = CREBZF MUTATION ANALYSIS
D23V1, survival
                  sevent
clus2                0   1
  CREBZF MUTATED     6   1
  CREBZF WILD-TYPE 384 118
  CREBZF MUTATED CREBZF WILD-TYPE 
               7              502 
  CREBZF MUTATED CREBZF WILD-TYPE 
               1              118 
$`CREBZF MUTATED`
TCGA-DU-7298 TCGA-DU-7302 TCGA-DU-8168 TCGA-DU-A6S3 TCGA-HT-7694 TCGA-P5-A5EX 
       18.94        60.30        14.17        21.57         6.90         7.99 
TCGA-TQ-A7RQ 
       26.14 

$`CREBZF WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
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-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 
       14.99       105.21         6.54         8.84        90.77        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7300 
       26.30        10.36         7.96        94.32        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       25.91        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       33.96        25.55        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       26.76        17.16        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 
       51.52        37.38         7.50        44.42         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
       19.46        12.43        16.18        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       17.82        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        0.10         2.96        17.52        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       34.19        13.74        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40        14.40         0.23         6.71         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        4.11         5.88         7.63         0.76         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50         5.03        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       32.65        59.38        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        28.14        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       31.20        30.05        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        43.04        43.20        13.51         0.10         7.89 
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-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  CREBZF MUTATED CREBZF WILD-TYPE 
            6.90             0.03 
  CREBZF MUTATED CREBZF WILD-TYPE 
           60.30           211.17 
  CREBZF MUTATED CREBZF WILD-TYPE 
           18.94            20.76 
[1] "6.9 - 60.3 (18.9)"  "0.0 - 211.2 (20.8)"
[1] "hr=" "1.1"
D23V2, continuous
D23V3, binary
                  cls
clus                 0   1
  CREBZF MUTATED     5   2
  CREBZF WILD-TYPE 224 281
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CREBZF MUTATED      5    2
  CREBZF WILD-TYPE  224  281
        clus
vv       CREBZF MUTATED CREBZF WILD-TYPE
  FEMALE              5              224
  MALE                2              281
[1] 2 2
[1] FALSE
D23V4, binary
                  cls
clus                 0   1
  CREBZF MUTATED     3   4
  CREBZF WILD-TYPE 183 287
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CREBZF MUTATED      3    4
  CREBZF WILD-TYPE  183  287
     clus
vv    CREBZF MUTATED CREBZF WILD-TYPE
  NO               3              183
  YES              4              287
[1] 2 2
[1] FALSE
D23V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  CREBZF MUTATED             1                0                 6
  CREBZF WILD-TYPE         191              130               184
D23V6, multiclass
                   clus
vv                  CREBZF MUTATED CREBZF WILD-TYPE
  ASTROCYTOMA                    1              191
  OLIGOASTROCYTOMA               0              130
  OLIGODENDROGLIOMA              6              184
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  CREBZF MUTATED                                  0     0
  CREBZF WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  CREBZF MUTATED                           1     6
  CREBZF WILD-TYPE                        20   466
D23V7, multiclass
                                  clus
vv                                 CREBZF MUTATED CREBZF WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     1               20
  WHITE                                         6              466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V8, binary
                  cls
clus                 0   1
  CREBZF MUTATED     1   6
  CREBZF WILD-TYPE  31 440
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CREBZF MUTATED      1    6
  CREBZF WILD-TYPE   31  440
                        clus
vv                       CREBZF MUTATED CREBZF WILD-TYPE
  HISPANIC OR LATINO                  1               31
  NOT HISPANIC OR LATINO              6              440
[1] 2 2
[1] FALSE

Clustering(24) Variable = FAM47C MUTATION ANALYSIS
D24V1, survival
                  sevent
clus2                0   1
  FAM47C MUTATED    16   2
  FAM47C WILD-TYPE 374 117
  FAM47C MUTATED FAM47C WILD-TYPE 
              18              491 
  FAM47C MUTATED FAM47C WILD-TYPE 
               2              117 
$`FAM47C MUTATED`
TCGA-DH-A66F TCGA-DH-A66G TCGA-DU-6392 TCGA-FG-7636 TCGA-FG-7643 TCGA-FG-8186 
       17.19        17.19       211.17        17.88        20.09        16.01 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7480 TCGA-HT-7610 TCGA-IK-8125 TCGA-P5-A731 
       40.11         0.13        75.19        56.09        42.77         9.01 
TCGA-QH-A6CS TCGA-RY-A845 TCGA-S9-A6WE TCGA-S9-A7J3 TCGA-S9-A7R2 TCGA-WY-A859 
       19.33        19.59       135.22        20.68        10.39        39.88 

$`FAM47C WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       42.05        27.81        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       40.08        22.55        20.61        28.34        13.68        14.24 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       18.38        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       48.69        20.45        18.64         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
        6.67        11.54         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7481 TCGA-HT-7482 
        6.54        24.26         6.38        40.34        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7611 
        4.57        17.29         3.16        22.06        45.99        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A733 
        0.23        10.42        13.25        11.64        10.95        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
        5.03        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7QW 
       23.51        19.99        20.02         8.19         2.04        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R3 TCGA-S9-A7R4 
       18.54        28.37        27.16       169.84        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  FAM47C MUTATED FAM47C WILD-TYPE 
            0.13             0.03 
  FAM47C MUTATED FAM47C WILD-TYPE 
          211.17           182.33 
  FAM47C MUTATED FAM47C WILD-TYPE 
           19.84            20.81 
[1] "0.1 - 211.2 (19.8)" "0.0 - 182.3 (20.8)"
[1] "hr=" "3.3"
D24V2, continuous
D24V3, binary
                  cls
clus                 0   1
  FAM47C MUTATED    10   8
  FAM47C WILD-TYPE 219 275
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM47C MUTATED     10    8
  FAM47C WILD-TYPE  219  275
        clus
vv       FAM47C MUTATED FAM47C WILD-TYPE
  FEMALE             10              219
  MALE                8              275
[1] 2 2
[1] FALSE
D24V4, binary
                  cls
clus                 0   1
  FAM47C MUTATED     5  12
  FAM47C WILD-TYPE 181 279
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM47C MUTATED      5   12
  FAM47C WILD-TYPE  181  279
     clus
vv    FAM47C MUTATED FAM47C WILD-TYPE
  NO               5              181
  YES             12              279
[1] 2 2
[1] FALSE
D24V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  FAM47C MUTATED             5                6                 7
  FAM47C WILD-TYPE         187              124               183
D24V6, multiclass
                   clus
vv                  FAM47C MUTATED FAM47C WILD-TYPE
  ASTROCYTOMA                    5              187
  OLIGOASTROCYTOMA               6              124
  OLIGODENDROGLIOMA              7              183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  FAM47C MUTATED                                  0     0
  FAM47C WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  FAM47C MUTATED                           0    18
  FAM47C WILD-TYPE                        21   454
D24V7, multiclass
                                  clus
vv                                 FAM47C MUTATED FAM47C WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                        18              454
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V8, binary
                  cls
clus                 0   1
  FAM47C MUTATED     1  16
  FAM47C WILD-TYPE  31 430
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM47C MUTATED      1   16
  FAM47C WILD-TYPE   31  430
                        clus
vv                       FAM47C MUTATED FAM47C WILD-TYPE
  HISPANIC OR LATINO                  1               31
  NOT HISPANIC OR LATINO             16              430
[1] 2 2
[1] FALSE

Clustering(25) Variable = MYST4 MUTATION ANALYSIS
D25V1, survival
                 sevent
clus2               0   1
  MYST4 MUTATED    10   1
  MYST4 WILD-TYPE 380 118
  MYST4 MUTATED MYST4 WILD-TYPE 
             11             498 
  MYST4 MUTATED MYST4 WILD-TYPE 
              1             118 
$`MYST4 MUTATED`
TCGA-CS-5396 TCGA-DU-6392 TCGA-DU-7302 TCGA-DU-A5TW TCGA-FG-6692 TCGA-HT-8105 
        9.96       211.17        60.30        24.99        18.44         6.25 
TCGA-HW-A5KJ TCGA-QH-A65Z TCGA-QH-A6X5 TCGA-S9-A6WE TCGA-TQ-A7RH 
       10.55        14.04        16.34       135.22        15.98 

$`MYST4 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
       40.18         0.10        21.01         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TY 
       33.27        29.85        31.69        24.43        26.17        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       26.76        17.16        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 
       51.52        37.38         7.50        44.42         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
       19.46        12.43        16.18        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 
       14.93        42.54        41.33        15.35        17.88        40.08 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       16.01        20.09        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K 
       10.72        18.38        18.71        23.70        14.76        17.82 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 
       36.66        48.69        20.45        18.64         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8107 
        0.10        37.87        33.01        12.23         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       13.74        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A 
       16.93         1.81        16.14        16.83        21.40         6.38 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KK 
       35.44        39.75        40.01        42.54         6.18        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 
       20.81        20.71        19.00        42.77        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A6CS TCGA-QH-A6CU 
       15.16         2.53        12.62        15.85        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23         2.20         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       14.53        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WG 
       98.24        95.93         5.85       123.65        75.25        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       21.37        19.69         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  MYST4 MUTATED MYST4 WILD-TYPE 
           6.25            0.03 
  MYST4 MUTATED MYST4 WILD-TYPE 
         211.17          182.33 
  MYST4 MUTATED MYST4 WILD-TYPE 
          16.34           20.81 
[1] "6.2 - 211.2 (16.3)" "0.0 - 182.3 (20.8)"
[1] "hr=" "4.7"
D25V2, continuous
D25V3, binary
                 cls
clus                0   1
  MYST4 MUTATED     5   6
  MYST4 WILD-TYPE 224 277
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MYST4 MUTATED      5    6
  MYST4 WILD-TYPE  224  277
        clus
vv       MYST4 MUTATED MYST4 WILD-TYPE
  FEMALE             5             224
  MALE               6             277
[1] 2 2
[1] FALSE
D25V4, binary
                 cls
clus                0   1
  MYST4 MUTATED     4   7
  MYST4 WILD-TYPE 182 284
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MYST4 MUTATED      4    7
  MYST4 WILD-TYPE  182  284
     clus
vv    MYST4 MUTATED MYST4 WILD-TYPE
  NO              4             182
  YES             7             284
[1] 2 2
[1] FALSE
D25V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  MYST4 MUTATED             2                2                 7
  MYST4 WILD-TYPE         190              128               183
D25V6, multiclass
                   clus
vv                  MYST4 MUTATED MYST4 WILD-TYPE
  ASTROCYTOMA                   2             190
  OLIGOASTROCYTOMA              2             128
  OLIGODENDROGLIOMA             7             183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  MYST4 MUTATED                                  0     0
  MYST4 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  MYST4 MUTATED                           2     9
  MYST4 WILD-TYPE                        19   463
D25V7, multiclass
                                  clus
vv                                 MYST4 MUTATED MYST4 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    2              19
  WHITE                                        9             463
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V8, binary
                 cls
clus                0   1
  MYST4 MUTATED     1   9
  MYST4 WILD-TYPE  31 437
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MYST4 MUTATED      1    9
  MYST4 WILD-TYPE   31  437
                        clus
vv                       MYST4 MUTATED MYST4 WILD-TYPE
  HISPANIC OR LATINO                 1              31
  NOT HISPANIC OR LATINO             9             437
[1] 2 2
[1] FALSE

Clustering(26) Variable = MED9 MUTATION ANALYSIS
D26V1, survival
                sevent
clus2              0   1
  MED9 MUTATED     2   1
  MED9 WILD-TYPE 388 118
  MED9 MUTATED MED9 WILD-TYPE 
             3            506 
  MED9 MUTATED MED9 WILD-TYPE 
             1            118 
$`MED9 MUTATED`
TCGA-DB-A64O TCGA-DU-8163 TCGA-QH-A6CY 
       25.48        20.68         2.20 

$`MED9 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64P TCGA-DB-A64Q 
       33.57        72.95        31.63        24.20        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       23.74        14.60        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       14.53        13.61        12.23         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  MED9 MUTATED MED9 WILD-TYPE 
          2.20           0.03 
  MED9 MUTATED MED9 WILD-TYPE 
         25.48         211.17 
  MED9 MUTATED MED9 WILD-TYPE 
         20.68          20.76 
[1] "2.2 - 25.5 (20.7)"  "0.0 - 211.2 (20.8)"
[1] "hr=" "3.2"
D26V2, continuous
D26V3, binary
                cls
clus               0   1
  MED9 MUTATED     0   3
  MED9 WILD-TYPE 229 280
[1] "tbl2"
                cls
clus             [,1] [,2]
  MED9 MUTATED      0    3
  MED9 WILD-TYPE  229  280
        clus
vv       MED9 MUTATED MED9 WILD-TYPE
  FEMALE            0            229
  MALE              3            280
[1] 2 2
[1] FALSE
D26V4, binary
                cls
clus               0   1
  MED9 MUTATED     0   3
  MED9 WILD-TYPE 186 288
[1] "tbl2"
                cls
clus             [,1] [,2]
  MED9 MUTATED      0    3
  MED9 WILD-TYPE  186  288
     clus
vv    MED9 MUTATED MED9 WILD-TYPE
  NO             0            186
  YES            3            288
[1] 2 2
[1] FALSE
D26V5, continuous
[1] "Remove cluster labels:" "MED9 MUTATED"          
clus
  MED9 MUTATED MED9 WILD-TYPE 
             2            304 
    TCGA-CS-4938     TCGA-CS-4941     TCGA-CS-4942     TCGA-CS-4943 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-CS-4944     TCGA-CS-5390     TCGA-CS-5393     TCGA-CS-5395 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-CS-5396     TCGA-CS-5397     TCGA-CS-6186     TCGA-CS-6188 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-CS-6290     TCGA-CS-6665     TCGA-CS-6666     TCGA-CS-6667 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-CS-6668     TCGA-CS-6669     TCGA-DB-5274     TCGA-DB-A4XE 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DB-A64L     TCGA-DB-A64Q     TCGA-DB-A64R     TCGA-DB-A64S 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DB-A64U     TCGA-DB-A64V     TCGA-DB-A64W     TCGA-DB-A64X 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DB-A75L     TCGA-DB-A75O     TCGA-DH-5140     TCGA-DH-5142 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DH-5143     TCGA-DH-5144     TCGA-DH-A66B     TCGA-DH-A66D 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DH-A66F     TCGA-DH-A66G     TCGA-DH-A7UR     TCGA-DH-A7UU 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DH-A7UV     TCGA-DU-5851     TCGA-DU-5852     TCGA-DU-5853 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-5854     TCGA-DU-5855     TCGA-DU-5870     TCGA-DU-5871 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-5874     TCGA-DU-6396     TCGA-DU-6401     TCGA-DU-6403 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-6404     TCGA-DU-6405     TCGA-DU-6407     TCGA-DU-6408 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-6410     TCGA-DU-7009     TCGA-DU-7011     TCGA-DU-7013 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-7015     TCGA-DU-7018     TCGA-DU-7019     TCGA-DU-7294 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-7298     TCGA-DU-7299     TCGA-DU-7300     TCGA-DU-7301 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-7302     TCGA-DU-7304     TCGA-DU-7306     TCGA-DU-7309 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-8158     TCGA-DU-8161     TCGA-DU-8162     TCGA-DU-8165 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-8167     TCGA-DU-8168     TCGA-DU-A5TP     TCGA-DU-A5TR 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-A5TS     TCGA-DU-A5TU     TCGA-DU-A5TW     TCGA-DU-A6S2 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-A6S6     TCGA-DU-A6S7     TCGA-DU-A6S8     TCGA-DU-A76R 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-A7T6     TCGA-DU-A7T8     TCGA-DU-A7TA     TCGA-DU-A7TB 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-DU-A7TC     TCGA-DU-A7TD     TCGA-DU-A7TG     TCGA-E1-5302 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-E1-5303     TCGA-E1-5304     TCGA-E1-5305     TCGA-E1-5307 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-E1-5311     TCGA-E1-5318     TCGA-E1-5319     TCGA-E1-5322 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-E1-A7YE     TCGA-E1-A7YH     TCGA-E1-A7YI     TCGA-E1-A7YJ 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-E1-A7YK     TCGA-E1-A7YL     TCGA-E1-A7YM     TCGA-E1-A7YN 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-E1-A7YO     TCGA-E1-A7YQ     TCGA-E1-A7YS     TCGA-E1-A7YV 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-E1-A7YW     TCGA-E1-A7YY     TCGA-E1-A7Z2     TCGA-E1-A7Z4 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-E1-A7Z6     TCGA-FG-5963     TCGA-FG-5965     TCGA-FG-6688 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-FG-6689     TCGA-FG-6690     TCGA-FG-6691     TCGA-FG-7636 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-FG-7638     TCGA-FG-8181     TCGA-FG-8185     TCGA-FG-8186 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-FG-8187     TCGA-FG-8188     TCGA-FG-8189     TCGA-FG-A4MT 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-FG-A4MW     TCGA-FG-A4MX     TCGA-FG-A60J     TCGA-FG-A60L 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-FG-A6J1     TCGA-FG-A6J3     TCGA-FG-A711     TCGA-FG-A713 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-FG-A87Q     TCGA-HT-7468     TCGA-HT-7470     TCGA-HT-7475 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-HT-7477     TCGA-HT-7481     TCGA-HT-7482     TCGA-HT-7485 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-HT-7607     TCGA-HT-7609     TCGA-HT-7611     TCGA-HT-7686 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-HT-7689     TCGA-HT-7692     TCGA-HT-7693     TCGA-HT-7694 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-HT-7854     TCGA-HT-7855     TCGA-HT-7856     TCGA-HT-7858 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-HT-7875     TCGA-HT-7884     TCGA-HT-8013     TCGA-HT-8105 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-HT-8113     TCGA-HT-8564     TCGA-HT-A4DV     TCGA-HT-A5R7 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-HT-A5RA     TCGA-HT-A5RC     TCGA-HT-A615     TCGA-HT-A617 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-HT-A618     TCGA-HT-A61A     TCGA-HT-A61B     TCGA-HT-A61C 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-HT-A74L     TCGA-IK-7675     TCGA-KT-A74X     TCGA-KT-A7W1 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-P5-A5EU     TCGA-P5-A5EV     TCGA-P5-A5EW     TCGA-P5-A5EX 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-P5-A5F0     TCGA-P5-A5F2     TCGA-P5-A5F4     TCGA-P5-A5F6 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-P5-A731     TCGA-QH-A65R     TCGA-QH-A65S     TCGA-QH-A65V 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-QH-A65X     TCGA-QH-A65Z     TCGA-QH-A6CS     TCGA-QH-A6CU 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-QH-A6CV     TCGA-QH-A6CW     TCGA-QH-A6CX     TCGA-QH-A6CZ 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-QH-A6X3     TCGA-QH-A6X4     TCGA-QH-A6X5     TCGA-QH-A6X8 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-QH-A6X9     TCGA-QH-A6XA     TCGA-QH-A6XC     TCGA-QH-A86X 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-QH-A870     TCGA-RY-A83Y     TCGA-RY-A840     TCGA-RY-A845 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-RY-A847     TCGA-S9-A6TS     TCGA-S9-A6TU     TCGA-S9-A6TV 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A6TW     TCGA-S9-A6TX     TCGA-S9-A6TY     TCGA-S9-A6TZ 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A6U0     TCGA-S9-A6U1     TCGA-S9-A6U2     TCGA-S9-A6U5 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A6U6     TCGA-S9-A6U8     TCGA-S9-A6UA     TCGA-S9-A6UB 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A6WD     TCGA-S9-A6WE     TCGA-S9-A6WG     TCGA-S9-A6WH 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A6WI     TCGA-S9-A6WL     TCGA-S9-A6WM     TCGA-S9-A6WN 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A6WO     TCGA-S9-A6WP     TCGA-S9-A6WQ     TCGA-S9-A7IQ 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A7IS     TCGA-S9-A7IX     TCGA-S9-A7IY     TCGA-S9-A7IZ 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A7J0     TCGA-S9-A7J1     TCGA-S9-A7J2     TCGA-S9-A7J3 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A7QW     TCGA-S9-A7QX     TCGA-S9-A7QY     TCGA-S9-A7QZ 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A7R1     TCGA-S9-A7R2     TCGA-S9-A7R3     TCGA-S9-A7R4 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-S9-A7R7     TCGA-S9-A7R8     TCGA-S9-A89V     TCGA-S9-A89Z 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-TM-A7C3     TCGA-TM-A7C4     TCGA-TM-A7C5     TCGA-TM-A7CA 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-TM-A7CF     TCGA-TM-A84B     TCGA-TM-A84C     TCGA-TM-A84F 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-TM-A84G     TCGA-TM-A84H     TCGA-TM-A84I     TCGA-TM-A84J 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-TM-A84L     TCGA-TM-A84M     TCGA-TM-A84O     TCGA-TM-A84Q 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-TM-A84R     TCGA-TM-A84S     TCGA-TM-A84T     TCGA-TQ-A7RG 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-TQ-A7RK     TCGA-TQ-A7RM     TCGA-TQ-A7RN     TCGA-TQ-A7RO 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-TQ-A7RP     TCGA-TQ-A7RQ     TCGA-TQ-A7RR     TCGA-TQ-A7RS 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-TQ-A7RU     TCGA-TQ-A7RV     TCGA-TQ-A7RW     TCGA-TQ-A8XE 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-VM-A8C8     TCGA-VM-A8CA     TCGA-VM-A8CD     TCGA-VM-A8CE 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
    TCGA-VM-A8CF     TCGA-VM-A8CH     TCGA-WY-A858     TCGA-WY-A859 
"MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" "MED9 WILD-TYPE" 
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  MED9 MUTATED             0                3                 0
  MED9 WILD-TYPE         192              127               190
D26V6, multiclass
                   clus
vv                  MED9 MUTATED MED9 WILD-TYPE
  ASTROCYTOMA                  0            192
  OLIGOASTROCYTOMA             3            127
  OLIGODENDROGLIOMA            0            190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  MED9 MUTATED                                  0     0
  MED9 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  MED9 MUTATED                           0     3
  MED9 WILD-TYPE                        21   469
D26V7, multiclass
                                  clus
vv                                 MED9 MUTATED MED9 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       3            469
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V8, binary
                cls
clus               0   1
  MED9 MUTATED     0   3
  MED9 WILD-TYPE  32 443
[1] "tbl2"
                cls
clus             [,1] [,2]
  MED9 MUTATED      0    3
  MED9 WILD-TYPE   32  443
                        clus
vv                       MED9 MUTATED MED9 WILD-TYPE
  HISPANIC OR LATINO                0             32
  NOT HISPANIC OR LATINO            3            443
[1] 2 2
[1] FALSE

Clustering(27) Variable = IRS4 MUTATION ANALYSIS
D27V1, survival
                sevent
clus2              0   1
  IRS4 MUTATED     6   1
  IRS4 WILD-TYPE 384 118
  IRS4 MUTATED IRS4 WILD-TYPE 
             7            502 
  IRS4 MUTATED IRS4 WILD-TYPE 
             1            118 
$`IRS4 MUTATED`
TCGA-DB-A4XD TCGA-DB-A64L TCGA-DU-6392 TCGA-E1-5304 TCGA-HT-8108 TCGA-HT-8564 
       39.78        24.20       211.17        41.13         2.50        15.72 
TCGA-S9-A6WG 
       85.55 

$`IRS4 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        46.72        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       72.95        31.63        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 
       11.24        17.88        30.74        16.18        19.96        31.82 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D 
       63.88        46.06         8.02        30.21        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       50.14        67.46        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
       19.46        12.43        16.18        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       17.82        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.10         0.46         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       34.19        13.74        28.27         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A 
       16.93         1.81        16.14        16.83        21.40         6.38 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54         6.18        10.55 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X 
       12.76        20.81        20.71        19.00        42.77        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        4.11         5.88         7.63         0.76         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50         5.03        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       32.65        59.38        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        28.14        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
      123.65        75.25       135.22        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        43.04        43.20        13.51         0.10         7.89 
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-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  IRS4 MUTATED IRS4 WILD-TYPE 
          2.50           0.03 
  IRS4 MUTATED IRS4 WILD-TYPE 
        211.17         182.33 
  IRS4 MUTATED IRS4 WILD-TYPE 
         39.78          20.68 
[1] "2.5 - 211.2 (39.8)" "0.0 - 182.3 (20.7)"
[1] "hr=" "3.8"
D27V2, continuous
D27V3, binary
                cls
clus               0   1
  IRS4 MUTATED     3   4
  IRS4 WILD-TYPE 226 279
[1] "tbl2"
                cls
clus             [,1] [,2]
  IRS4 MUTATED      3    4
  IRS4 WILD-TYPE  226  279
        clus
vv       IRS4 MUTATED IRS4 WILD-TYPE
  FEMALE            3            226
  MALE              4            279
[1] 2 2
[1] FALSE
D27V4, binary
                cls
clus               0   1
  IRS4 MUTATED     3   4
  IRS4 WILD-TYPE 183 287
[1] "tbl2"
                cls
clus             [,1] [,2]
  IRS4 MUTATED      3    4
  IRS4 WILD-TYPE  183  287
     clus
vv    IRS4 MUTATED IRS4 WILD-TYPE
  NO             3            183
  YES            4            287
[1] 2 2
[1] FALSE
D27V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  IRS4 MUTATED             5                0                 2
  IRS4 WILD-TYPE         187              130               188
D27V6, multiclass
                   clus
vv                  IRS4 MUTATED IRS4 WILD-TYPE
  ASTROCYTOMA                  5            187
  OLIGOASTROCYTOMA             0            130
  OLIGODENDROGLIOMA            2            188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  IRS4 MUTATED                                  0     0
  IRS4 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  IRS4 MUTATED                           0     7
  IRS4 WILD-TYPE                        21   465
D27V7, multiclass
                                  clus
vv                                 IRS4 MUTATED IRS4 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       7            465
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V8, binary
                cls
clus               0   1
  IRS4 MUTATED     1   6
  IRS4 WILD-TYPE  31 440
[1] "tbl2"
                cls
clus             [,1] [,2]
  IRS4 MUTATED      1    6
  IRS4 WILD-TYPE   31  440
                        clus
vv                       IRS4 MUTATED IRS4 WILD-TYPE
  HISPANIC OR LATINO                1             31
  NOT HISPANIC OR LATINO            6            440
[1] 2 2
[1] FALSE

Clustering(28) Variable = HTRA2 MUTATION ANALYSIS
D28V1, survival
                 sevent
clus2               0   1
  HTRA2 MUTATED     5   0
  HTRA2 WILD-TYPE 385 119
  HTRA2 MUTATED HTRA2 WILD-TYPE 
              5             504 
  HTRA2 MUTATED HTRA2 WILD-TYPE 
              0             119 
$`HTRA2 MUTATED`
TCGA-HT-A5R9 TCGA-HT-A5RB TCGA-P5-A5F1 TCGA-P5-A5F6 TCGA-S9-A7R3 
        0.07         0.10         5.88         1.28        99.06 

$`HTRA2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
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-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 
       14.99       105.21         6.54         8.84        90.77        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       26.30        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       62.01        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        5.10        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O 
       95.11        20.98        22.29        11.41        26.76        17.16 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
        7.50        44.42         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       16.18        21.30        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 
       41.33        18.44        15.35        17.88        40.08        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       18.38        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       48.69        20.45        18.64         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       13.74        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       20.22        27.35         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F2 
        6.71         7.99         2.37         2.30         4.11         7.63 
TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        0.76         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R4 
       18.54        28.37        27.16       169.84        10.39        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  HTRA2 MUTATED HTRA2 WILD-TYPE 
           0.07            0.03 
  HTRA2 MUTATED HTRA2 WILD-TYPE 
          99.06          211.17 
  HTRA2 MUTATED HTRA2 WILD-TYPE 
           1.28           20.81 
[1] "0.1 - 99.1 (1.3)"   "0.0 - 211.2 (20.8)"
[1] "hr="     "3400000"
D28V2, continuous
D28V3, binary
                 cls
clus                0   1
  HTRA2 MUTATED     2   3
  HTRA2 WILD-TYPE 227 280
[1] "tbl2"
                 cls
clus              [,1] [,2]
  HTRA2 MUTATED      2    3
  HTRA2 WILD-TYPE  227  280
        clus
vv       HTRA2 MUTATED HTRA2 WILD-TYPE
  FEMALE             2             227
  MALE               3             280
[1] 2 2
[1] FALSE
D28V4, binary
                 cls
clus                0   1
  HTRA2 MUTATED     1   0
  HTRA2 WILD-TYPE 185 291
[1] "tbl2"
                 cls
clus              [,1] [,2]
  HTRA2 MUTATED      1    0
  HTRA2 WILD-TYPE  185  291
     clus
vv    HTRA2 MUTATED HTRA2 WILD-TYPE
  NO              1             185
  YES             0             291
[1] 2 2
[1] FALSE
D28V5, continuous
[1] "Remove cluster labels:" "HTRA2 MUTATED"         
clus
  HTRA2 MUTATED HTRA2 WILD-TYPE 
              2             304 
     TCGA-CS-4938      TCGA-CS-4941      TCGA-CS-4942      TCGA-CS-4943 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-CS-4944      TCGA-CS-5390      TCGA-CS-5393      TCGA-CS-5395 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-CS-5396      TCGA-CS-5397      TCGA-CS-6186      TCGA-CS-6188 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-CS-6290      TCGA-CS-6665      TCGA-CS-6666      TCGA-CS-6667 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-CS-6668      TCGA-CS-6669      TCGA-DB-5274      TCGA-DB-A4XE 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DB-A64L      TCGA-DB-A64Q      TCGA-DB-A64R      TCGA-DB-A64S 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DB-A64U      TCGA-DB-A64V      TCGA-DB-A64W      TCGA-DB-A64X 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DB-A75L      TCGA-DB-A75O      TCGA-DH-5140      TCGA-DH-5142 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DH-5143      TCGA-DH-5144      TCGA-DH-A66B      TCGA-DH-A66D 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DH-A66F      TCGA-DH-A66G      TCGA-DH-A7UR      TCGA-DH-A7UU 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DH-A7UV      TCGA-DU-5851      TCGA-DU-5852      TCGA-DU-5853 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-5854      TCGA-DU-5855      TCGA-DU-5870      TCGA-DU-5871 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-5874      TCGA-DU-6396      TCGA-DU-6401      TCGA-DU-6403 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-6404      TCGA-DU-6405      TCGA-DU-6407      TCGA-DU-6408 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-6410      TCGA-DU-7009      TCGA-DU-7011      TCGA-DU-7013 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-7015      TCGA-DU-7018      TCGA-DU-7019      TCGA-DU-7294 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-7298      TCGA-DU-7299      TCGA-DU-7300      TCGA-DU-7301 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-7302      TCGA-DU-7304      TCGA-DU-7306      TCGA-DU-7309 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-8158      TCGA-DU-8161      TCGA-DU-8162      TCGA-DU-8163 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-8165      TCGA-DU-8167      TCGA-DU-8168      TCGA-DU-A5TP 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-A5TR      TCGA-DU-A5TS      TCGA-DU-A5TU      TCGA-DU-A5TW 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-A6S2      TCGA-DU-A6S6      TCGA-DU-A6S7      TCGA-DU-A6S8 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-A76R      TCGA-DU-A7T6      TCGA-DU-A7T8      TCGA-DU-A7TA 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-DU-A7TB      TCGA-DU-A7TC      TCGA-DU-A7TD      TCGA-DU-A7TG 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-E1-5302      TCGA-E1-5303      TCGA-E1-5304      TCGA-E1-5305 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-E1-5307      TCGA-E1-5311      TCGA-E1-5318      TCGA-E1-5319 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-E1-5322      TCGA-E1-A7YE      TCGA-E1-A7YH      TCGA-E1-A7YI 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-E1-A7YJ      TCGA-E1-A7YK      TCGA-E1-A7YL      TCGA-E1-A7YM 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-E1-A7YN      TCGA-E1-A7YO      TCGA-E1-A7YQ      TCGA-E1-A7YS 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-E1-A7YV      TCGA-E1-A7YW      TCGA-E1-A7YY      TCGA-E1-A7Z2 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-E1-A7Z4      TCGA-E1-A7Z6      TCGA-FG-5963      TCGA-FG-5965 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-FG-6688      TCGA-FG-6689      TCGA-FG-6690      TCGA-FG-6691 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-FG-7636      TCGA-FG-7638      TCGA-FG-8181      TCGA-FG-8185 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-FG-8186      TCGA-FG-8187      TCGA-FG-8188      TCGA-FG-8189 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-FG-A4MT      TCGA-FG-A4MW      TCGA-FG-A4MX      TCGA-FG-A60J 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-FG-A60L      TCGA-FG-A6J1      TCGA-FG-A6J3      TCGA-FG-A711 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-FG-A713      TCGA-FG-A87Q      TCGA-HT-7468      TCGA-HT-7470 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-HT-7475      TCGA-HT-7477      TCGA-HT-7481      TCGA-HT-7482 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-HT-7485      TCGA-HT-7607      TCGA-HT-7609      TCGA-HT-7611 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-HT-7686      TCGA-HT-7689      TCGA-HT-7692      TCGA-HT-7693 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-HT-7694      TCGA-HT-7854      TCGA-HT-7855      TCGA-HT-7856 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-HT-7858      TCGA-HT-7875      TCGA-HT-7884      TCGA-HT-8013 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-HT-8105      TCGA-HT-8113      TCGA-HT-8564      TCGA-HT-A4DV 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-HT-A5R7      TCGA-HT-A5RA      TCGA-HT-A5RC      TCGA-HT-A615 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-HT-A617      TCGA-HT-A618      TCGA-HT-A61A      TCGA-HT-A61B 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-HT-A61C      TCGA-HT-A74L      TCGA-IK-7675      TCGA-KT-A74X 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-KT-A7W1      TCGA-P5-A5EU      TCGA-P5-A5EV      TCGA-P5-A5EW 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-P5-A5EX      TCGA-P5-A5F0      TCGA-P5-A5F2      TCGA-P5-A5F4 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-P5-A731      TCGA-QH-A65R      TCGA-QH-A65S      TCGA-QH-A65V 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-QH-A65X      TCGA-QH-A65Z      TCGA-QH-A6CS      TCGA-QH-A6CU 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-QH-A6CV      TCGA-QH-A6CW      TCGA-QH-A6CX      TCGA-QH-A6CY 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-QH-A6CZ      TCGA-QH-A6X3      TCGA-QH-A6X4      TCGA-QH-A6X5 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-QH-A6X8      TCGA-QH-A6X9      TCGA-QH-A6XA      TCGA-QH-A6XC 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-QH-A86X      TCGA-QH-A870      TCGA-RY-A83Y      TCGA-RY-A840 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-RY-A845      TCGA-RY-A847      TCGA-S9-A6TS      TCGA-S9-A6TU 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A6TV      TCGA-S9-A6TW      TCGA-S9-A6TX      TCGA-S9-A6TY 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A6TZ      TCGA-S9-A6U0      TCGA-S9-A6U1      TCGA-S9-A6U2 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A6U5      TCGA-S9-A6U6      TCGA-S9-A6U8      TCGA-S9-A6UA 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A6UB      TCGA-S9-A6WD      TCGA-S9-A6WE      TCGA-S9-A6WG 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A6WH      TCGA-S9-A6WI      TCGA-S9-A6WL      TCGA-S9-A6WM 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A6WN      TCGA-S9-A6WO      TCGA-S9-A6WP      TCGA-S9-A6WQ 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A7IQ      TCGA-S9-A7IS      TCGA-S9-A7IX      TCGA-S9-A7IY 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A7IZ      TCGA-S9-A7J0      TCGA-S9-A7J1      TCGA-S9-A7J2 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A7J3      TCGA-S9-A7QW      TCGA-S9-A7QX      TCGA-S9-A7QY 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A7QZ      TCGA-S9-A7R1      TCGA-S9-A7R2      TCGA-S9-A7R4 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-S9-A7R7      TCGA-S9-A7R8      TCGA-S9-A89V      TCGA-S9-A89Z 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-TM-A7C3      TCGA-TM-A7C4      TCGA-TM-A7C5      TCGA-TM-A7CA 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-TM-A7CF      TCGA-TM-A84B      TCGA-TM-A84C      TCGA-TM-A84F 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-TM-A84G      TCGA-TM-A84H      TCGA-TM-A84I      TCGA-TM-A84J 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-TM-A84L      TCGA-TM-A84M      TCGA-TM-A84O      TCGA-TM-A84Q 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-TM-A84R      TCGA-TM-A84S      TCGA-TM-A84T      TCGA-TQ-A7RG 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-TQ-A7RK      TCGA-TQ-A7RM      TCGA-TQ-A7RN      TCGA-TQ-A7RO 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-TQ-A7RP      TCGA-TQ-A7RQ      TCGA-TQ-A7RR      TCGA-TQ-A7RS 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-TQ-A7RU      TCGA-TQ-A7RV      TCGA-TQ-A7RW      TCGA-TQ-A8XE 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-VM-A8C8      TCGA-VM-A8CA      TCGA-VM-A8CD      TCGA-VM-A8CE 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
     TCGA-VM-A8CF      TCGA-VM-A8CH      TCGA-WY-A858      TCGA-WY-A859 
"HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" "HTRA2 WILD-TYPE" 
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  HTRA2 MUTATED             3                0                 2
  HTRA2 WILD-TYPE         189              130               188
D28V6, multiclass
                   clus
vv                  HTRA2 MUTATED HTRA2 WILD-TYPE
  ASTROCYTOMA                   3             189
  OLIGOASTROCYTOMA              0             130
  OLIGODENDROGLIOMA             2             188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  HTRA2 MUTATED                                  0     0
  HTRA2 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  HTRA2 MUTATED                           0     5
  HTRA2 WILD-TYPE                        21   467
D28V7, multiclass
                                  clus
vv                                 HTRA2 MUTATED HTRA2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        5             467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V8, binary
                 cls
clus                0   1
  HTRA2 MUTATED     1   4
  HTRA2 WILD-TYPE  31 442
[1] "tbl2"
                 cls
clus              [,1] [,2]
  HTRA2 MUTATED      1    4
  HTRA2 WILD-TYPE   31  442
                        clus
vv                       HTRA2 MUTATED HTRA2 WILD-TYPE
  HISPANIC OR LATINO                 1              31
  NOT HISPANIC OR LATINO             4             442
[1] 2 2
[1] FALSE

Clustering(29) Variable = NRAS MUTATION ANALYSIS
D29V1, survival
                sevent
clus2              0   1
  NRAS MUTATED     4   0
  NRAS WILD-TYPE 386 119
  NRAS MUTATED NRAS WILD-TYPE 
             4            505 
  NRAS MUTATED NRAS WILD-TYPE 
             0            119 
$`NRAS MUTATED`
TCGA-CS-5390 TCGA-S9-A7J0 TCGA-VM-A8CA TCGA-W9-A837 
       64.64        20.02        13.51        51.06 

$`NRAS WILD-TYPE`
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 
        4.70         7.69        43.89        18.15        10.62        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.10        21.01         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 
       56.58        13.45        41.49        45.60        68.32        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54         6.18        10.55        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 
       20.81        20.71        19.00        42.77        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
        5.03        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       28.14        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J1 TCGA-S9-A7J2 
        7.92        26.93        23.51        19.99         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.04        43.20         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-WH-A86K 
       23.47        37.05        16.01        23.21         8.05        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 

  NRAS MUTATED NRAS WILD-TYPE 
         13.51           0.03 
  NRAS MUTATED NRAS WILD-TYPE 
         64.64         211.17 
  NRAS MUTATED NRAS WILD-TYPE 
         35.54          20.71 
[1] "13.5 - 64.6 (35.5)" "0.0 - 211.2 (20.7)"
[1] "hr="     "9100000"
D29V2, continuous
D29V3, binary
                cls
clus               0   1
  NRAS MUTATED     2   2
  NRAS WILD-TYPE 227 281
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED      2    2
  NRAS WILD-TYPE  227  281
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  FEMALE            2            227
  MALE              2            281
[1] 2 2
[1] FALSE
D29V4, binary
                cls
clus               0   1
  NRAS MUTATED     2   2
  NRAS WILD-TYPE 184 289
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED      2    2
  NRAS WILD-TYPE  184  289
     clus
vv    NRAS MUTATED NRAS WILD-TYPE
  NO             2            184
  YES            2            289
[1] 2 2
[1] FALSE
D29V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  NRAS MUTATED             0                0                 4
  NRAS WILD-TYPE         192              130               186
D29V6, multiclass
                   clus
vv                  NRAS MUTATED NRAS WILD-TYPE
  ASTROCYTOMA                  0            192
  OLIGOASTROCYTOMA             0            130
  OLIGODENDROGLIOMA            4            186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NRAS MUTATED                                  0     0
  NRAS WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  NRAS MUTATED                           0     3
  NRAS WILD-TYPE                        21   469
D29V7, multiclass
                                  clus
vv                                 NRAS MUTATED NRAS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       3            469
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V8, binary
                cls
clus               0   1
  NRAS MUTATED     0   2
  NRAS WILD-TYPE  32 444
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED      0    2
  NRAS WILD-TYPE   32  444
                        clus
vv                       NRAS MUTATED NRAS WILD-TYPE
  HISPANIC OR LATINO                0             32
  NOT HISPANIC OR LATINO            2            444
[1] 2 2
[1] FALSE

Clustering(30) Variable = TNRC18 MUTATION ANALYSIS
D30V1, survival
                  sevent
clus2                0   1
  TNRC18 MUTATED     6   3
  TNRC18 WILD-TYPE 384 116
  TNRC18 MUTATED TNRC18 WILD-TYPE 
               9              500 
  TNRC18 MUTATED TNRC18 WILD-TYPE 
               3              116 
$`TNRC18 MUTATED`
TCGA-DB-A4XC TCGA-DB-A64W TCGA-DU-6392 TCGA-E1-5305 TCGA-HT-8011 TCGA-S9-A6U8 
       46.72        14.40       211.17        79.99        16.24        98.24 
TCGA-S9-A6U9 TCGA-S9-A89V TCGA-TM-A84R 
       95.93        18.71        18.61 

$`TNRC18 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64X TCGA-DB-A75K 
       31.40        27.45        27.81        29.23        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 
       11.24        17.88        30.74        16.18        19.96        31.82 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D 
       63.88        46.06         8.02        30.21        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       50.14        67.46        41.13        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
       19.46        12.43        16.18        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       17.82        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8013 
        3.72        11.28        31.43         1.64         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       34.19        13.74        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6UA TCGA-S9-A6UB 
       25.81        29.85        32.61        35.15         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84S 
       24.16        40.83        24.79        33.24        25.38        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  TNRC18 MUTATED TNRC18 WILD-TYPE 
           14.40             0.03 
  TNRC18 MUTATED TNRC18 WILD-TYPE 
          211.17           182.33 
  TNRC18 MUTATED TNRC18 WILD-TYPE 
          46.720           20.695 
[1] "14.4 - 211.2 (46.7)" "0.0 - 182.3 (20.7)" 
[1] "hr=" "1.8"
D30V2, continuous
D30V3, binary
                  cls
clus                 0   1
  TNRC18 MUTATED     2   7
  TNRC18 WILD-TYPE 227 276
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TNRC18 MUTATED      2    7
  TNRC18 WILD-TYPE  227  276
        clus
vv       TNRC18 MUTATED TNRC18 WILD-TYPE
  FEMALE              2              227
  MALE                7              276
[1] 2 2
[1] FALSE
D30V4, binary
                  cls
clus                 0   1
  TNRC18 MUTATED     2   7
  TNRC18 WILD-TYPE 184 284
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TNRC18 MUTATED      2    7
  TNRC18 WILD-TYPE  184  284
     clus
vv    TNRC18 MUTATED TNRC18 WILD-TYPE
  NO               2              184
  YES              7              284
[1] 2 2
[1] FALSE
D30V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  TNRC18 MUTATED             6                2                 1
  TNRC18 WILD-TYPE         186              128               189
D30V6, multiclass
                   clus
vv                  TNRC18 MUTATED TNRC18 WILD-TYPE
  ASTROCYTOMA                    6              186
  OLIGOASTROCYTOMA               2              128
  OLIGODENDROGLIOMA              1              189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TNRC18 MUTATED                                  0     0
  TNRC18 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  TNRC18 MUTATED                           0     9
  TNRC18 WILD-TYPE                        21   463
D30V7, multiclass
                                  clus
vv                                 TNRC18 MUTATED TNRC18 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                         9              463
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V8, binary
                  cls
clus                 0   1
  TNRC18 MUTATED     0   9
  TNRC18 WILD-TYPE  32 437
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TNRC18 MUTATED      0    9
  TNRC18 WILD-TYPE   32  437
                        clus
vv                       TNRC18 MUTATED TNRC18 WILD-TYPE
  HISPANIC OR LATINO                  0               32
  NOT HISPANIC OR LATINO              9              437
[1] 2 2
[1] FALSE

Clustering(31) Variable = ZNF709 MUTATION ANALYSIS
D31V1, survival
                  sevent
clus2                0   1
  ZNF709 MUTATED     2   2
  ZNF709 WILD-TYPE 388 117
  ZNF709 MUTATED ZNF709 WILD-TYPE 
               4              505 
  ZNF709 MUTATED ZNF709 WILD-TYPE 
               2              117 
$`ZNF709 MUTATED`
TCGA-HT-7470 TCGA-HT-7608 TCGA-HT-7620 TCGA-IK-7675 
       40.11        22.06        14.27        19.00 

$`ZNF709 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
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-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 
       14.99       105.21         6.54         8.84        90.77        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       26.30        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       62.01        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        5.10        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O 
       95.11        20.98        22.29        11.41        26.76        17.16 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
        7.50        44.42         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       16.18        21.30        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 
       41.33        18.44        15.35        17.88        40.08        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       18.38        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       48.69        20.45        18.64         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
        6.67        11.54         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7609 
       23.18       122.47         4.57        17.29         3.16        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       56.09        57.60         0.23         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  ZNF709 MUTATED ZNF709 WILD-TYPE 
           14.27             0.03 
  ZNF709 MUTATED ZNF709 WILD-TYPE 
           40.11           211.17 
  ZNF709 MUTATED ZNF709 WILD-TYPE 
           20.53            20.71 
[1] "14.3 - 40.1 (20.5)" "0.0 - 211.2 (20.7)"
[1] "hr=" "3.2"
D31V2, continuous
D31V3, binary
                  cls
clus                 0   1
  ZNF709 MUTATED     0   4
  ZNF709 WILD-TYPE 229 279
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF709 MUTATED      0    4
  ZNF709 WILD-TYPE  229  279
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  FEMALE              0              229
  MALE                4              279
[1] 2 2
[1] FALSE
D31V4, binary
                  cls
clus                 0   1
  ZNF709 MUTATED     1   3
  ZNF709 WILD-TYPE 185 288
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF709 MUTATED      1    3
  ZNF709 WILD-TYPE  185  288
     clus
vv    ZNF709 MUTATED ZNF709 WILD-TYPE
  NO               1              185
  YES              3              288
[1] 2 2
[1] FALSE
D31V5, continuous
[1] "Remove cluster labels:" "ZNF709 MUTATED"        
clus
  ZNF709 MUTATED ZNF709 WILD-TYPE 
               2              304 
      TCGA-CS-4938       TCGA-CS-4941       TCGA-CS-4942       TCGA-CS-4943 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-CS-4944       TCGA-CS-5390       TCGA-CS-5393       TCGA-CS-5395 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-CS-5396       TCGA-CS-5397       TCGA-CS-6186       TCGA-CS-6188 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-CS-6290       TCGA-CS-6665       TCGA-CS-6666       TCGA-CS-6667 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-CS-6668       TCGA-CS-6669       TCGA-DB-5274       TCGA-DB-A4XE 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DB-A64L       TCGA-DB-A64Q       TCGA-DB-A64R       TCGA-DB-A64S 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DB-A64U       TCGA-DB-A64V       TCGA-DB-A64W       TCGA-DB-A64X 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DB-A75L       TCGA-DB-A75O       TCGA-DH-5140       TCGA-DH-5142 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DH-5143       TCGA-DH-5144       TCGA-DH-A66B       TCGA-DH-A66D 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DH-A66F       TCGA-DH-A66G       TCGA-DH-A7UR       TCGA-DH-A7UU 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DH-A7UV       TCGA-DU-5851       TCGA-DU-5852       TCGA-DU-5853 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-5854       TCGA-DU-5855       TCGA-DU-5870       TCGA-DU-5871 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-5874       TCGA-DU-6396       TCGA-DU-6401       TCGA-DU-6403 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-6404       TCGA-DU-6405       TCGA-DU-6407       TCGA-DU-6408 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-6410       TCGA-DU-7009       TCGA-DU-7011       TCGA-DU-7013 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-7015       TCGA-DU-7018       TCGA-DU-7019       TCGA-DU-7294 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-7298       TCGA-DU-7299       TCGA-DU-7300       TCGA-DU-7301 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-7302       TCGA-DU-7304       TCGA-DU-7306       TCGA-DU-7309 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-8158       TCGA-DU-8161       TCGA-DU-8162       TCGA-DU-8163 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-8165       TCGA-DU-8167       TCGA-DU-8168       TCGA-DU-A5TP 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-A5TR       TCGA-DU-A5TS       TCGA-DU-A5TU       TCGA-DU-A5TW 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-A6S2       TCGA-DU-A6S6       TCGA-DU-A6S7       TCGA-DU-A6S8 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-A76R       TCGA-DU-A7T6       TCGA-DU-A7T8       TCGA-DU-A7TA 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-DU-A7TB       TCGA-DU-A7TC       TCGA-DU-A7TD       TCGA-DU-A7TG 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-E1-5302       TCGA-E1-5303       TCGA-E1-5304       TCGA-E1-5305 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-E1-5307       TCGA-E1-5311       TCGA-E1-5318       TCGA-E1-5319 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-E1-5322       TCGA-E1-A7YE       TCGA-E1-A7YH       TCGA-E1-A7YI 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-E1-A7YJ       TCGA-E1-A7YK       TCGA-E1-A7YL       TCGA-E1-A7YM 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-E1-A7YN       TCGA-E1-A7YO       TCGA-E1-A7YQ       TCGA-E1-A7YS 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-E1-A7YV       TCGA-E1-A7YW       TCGA-E1-A7YY       TCGA-E1-A7Z2 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-E1-A7Z4       TCGA-E1-A7Z6       TCGA-FG-5963       TCGA-FG-5965 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-FG-6688       TCGA-FG-6689       TCGA-FG-6690       TCGA-FG-6691 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-FG-7636       TCGA-FG-7638       TCGA-FG-8181       TCGA-FG-8185 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-FG-8186       TCGA-FG-8187       TCGA-FG-8188       TCGA-FG-8189 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-FG-A4MT       TCGA-FG-A4MW       TCGA-FG-A4MX       TCGA-FG-A60J 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-FG-A60L       TCGA-FG-A6J1       TCGA-FG-A6J3       TCGA-FG-A711 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-FG-A713       TCGA-FG-A87Q       TCGA-HT-7468       TCGA-HT-7475 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-HT-7477       TCGA-HT-7481       TCGA-HT-7482       TCGA-HT-7485 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-HT-7607       TCGA-HT-7609       TCGA-HT-7611       TCGA-HT-7686 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-HT-7689       TCGA-HT-7692       TCGA-HT-7693       TCGA-HT-7694 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-HT-7854       TCGA-HT-7855       TCGA-HT-7856       TCGA-HT-7858 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-HT-7875       TCGA-HT-7884       TCGA-HT-8013       TCGA-HT-8105 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-HT-8113       TCGA-HT-8564       TCGA-HT-A4DV       TCGA-HT-A5R7 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-HT-A5RA       TCGA-HT-A5RC       TCGA-HT-A615       TCGA-HT-A617 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-HT-A618       TCGA-HT-A61A       TCGA-HT-A61B       TCGA-HT-A61C 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-HT-A74L       TCGA-KT-A74X       TCGA-KT-A7W1       TCGA-P5-A5EU 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-P5-A5EV       TCGA-P5-A5EW       TCGA-P5-A5EX       TCGA-P5-A5F0 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-P5-A5F2       TCGA-P5-A5F4       TCGA-P5-A5F6       TCGA-P5-A731 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-QH-A65R       TCGA-QH-A65S       TCGA-QH-A65V       TCGA-QH-A65X 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-QH-A65Z       TCGA-QH-A6CS       TCGA-QH-A6CU       TCGA-QH-A6CV 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-QH-A6CW       TCGA-QH-A6CX       TCGA-QH-A6CY       TCGA-QH-A6CZ 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-QH-A6X3       TCGA-QH-A6X4       TCGA-QH-A6X5       TCGA-QH-A6X8 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-QH-A6X9       TCGA-QH-A6XA       TCGA-QH-A6XC       TCGA-QH-A86X 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-QH-A870       TCGA-RY-A83Y       TCGA-RY-A840       TCGA-RY-A845 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-RY-A847       TCGA-S9-A6TS       TCGA-S9-A6TU       TCGA-S9-A6TV 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A6TW       TCGA-S9-A6TX       TCGA-S9-A6TY       TCGA-S9-A6TZ 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A6U0       TCGA-S9-A6U1       TCGA-S9-A6U2       TCGA-S9-A6U5 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A6U6       TCGA-S9-A6U8       TCGA-S9-A6UA       TCGA-S9-A6UB 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A6WD       TCGA-S9-A6WE       TCGA-S9-A6WG       TCGA-S9-A6WH 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A6WI       TCGA-S9-A6WL       TCGA-S9-A6WM       TCGA-S9-A6WN 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A6WO       TCGA-S9-A6WP       TCGA-S9-A6WQ       TCGA-S9-A7IQ 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A7IS       TCGA-S9-A7IX       TCGA-S9-A7IY       TCGA-S9-A7IZ 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A7J0       TCGA-S9-A7J1       TCGA-S9-A7J2       TCGA-S9-A7J3 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A7QW       TCGA-S9-A7QX       TCGA-S9-A7QY       TCGA-S9-A7QZ 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A7R1       TCGA-S9-A7R2       TCGA-S9-A7R3       TCGA-S9-A7R4 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-S9-A7R7       TCGA-S9-A7R8       TCGA-S9-A89V       TCGA-S9-A89Z 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-TM-A7C3       TCGA-TM-A7C4       TCGA-TM-A7C5       TCGA-TM-A7CA 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-TM-A7CF       TCGA-TM-A84B       TCGA-TM-A84C       TCGA-TM-A84F 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-TM-A84G       TCGA-TM-A84H       TCGA-TM-A84I       TCGA-TM-A84J 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-TM-A84L       TCGA-TM-A84M       TCGA-TM-A84O       TCGA-TM-A84Q 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-TM-A84R       TCGA-TM-A84S       TCGA-TM-A84T       TCGA-TQ-A7RG 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-TQ-A7RK       TCGA-TQ-A7RM       TCGA-TQ-A7RN       TCGA-TQ-A7RO 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-TQ-A7RP       TCGA-TQ-A7RQ       TCGA-TQ-A7RR       TCGA-TQ-A7RS 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-TQ-A7RU       TCGA-TQ-A7RV       TCGA-TQ-A7RW       TCGA-TQ-A8XE 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-VM-A8C8       TCGA-VM-A8CA       TCGA-VM-A8CD       TCGA-VM-A8CE 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
      TCGA-VM-A8CF       TCGA-VM-A8CH       TCGA-WY-A858       TCGA-WY-A859 
"ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" "ZNF709 WILD-TYPE" 
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ZNF709 MUTATED             0                1                 3
  ZNF709 WILD-TYPE         192              129               187
D31V6, multiclass
                   clus
vv                  ZNF709 MUTATED ZNF709 WILD-TYPE
  ASTROCYTOMA                    0              192
  OLIGOASTROCYTOMA               1              129
  OLIGODENDROGLIOMA              3              187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ZNF709 MUTATED                                  0     0
  ZNF709 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  ZNF709 MUTATED                           1     3
  ZNF709 WILD-TYPE                        20   469
D31V7, multiclass
                                  clus
vv                                 ZNF709 MUTATED ZNF709 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     1               20
  WHITE                                         3              469
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V8, binary
                  cls
clus                 0   1
  ZNF709 MUTATED     1   3
  ZNF709 WILD-TYPE  31 443
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF709 MUTATED      1    3
  ZNF709 WILD-TYPE   31  443
                        clus
vv                       ZNF709 MUTATED ZNF709 WILD-TYPE
  HISPANIC OR LATINO                  1               31
  NOT HISPANIC OR LATINO              3              443
[1] 2 2
[1] FALSE

Clustering(32) Variable = PLXNA3 MUTATION ANALYSIS
D32V1, survival
                  sevent
clus2                0   1
  PLXNA3 MUTATED     9   0
  PLXNA3 WILD-TYPE 381 119
  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
               9              500 
  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
               0              119 
$`PLXNA3 MUTATED`
TCGA-CS-5396 TCGA-DU-5872 TCGA-DU-6392 TCGA-FG-6688 TCGA-FG-8185 TCGA-FG-A4MU 
        9.96        17.49       211.17        18.77        14.24        10.72 
TCGA-HT-A615 TCGA-P5-A737 TCGA-QH-A6CU 
       16.93        12.23        14.83 

$`PLXNA3 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
       40.18         0.10        21.01         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5874 
       13.38         8.45         6.81       182.33        18.94        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       16.01        20.09        14.96        22.52        32.61        38.27 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       18.38        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       48.69        20.45        18.64         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       13.74        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 
       56.58        13.45        41.49        45.60        68.32        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54         6.18        10.55        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 
       20.81        20.71        19.00        42.77        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
        7.56        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CV 
        2.53        12.62        15.85        14.04        19.33        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
            9.96             0.03 
  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
          211.17           182.33 
  PLXNA3 MUTATED PLXNA3 WILD-TYPE 
          14.830           20.995 
[1] "10.0 - 211.2 (14.8)" "0.0 - 182.3 (21.0)" 
[1] "hr="   "1e+07"
D32V2, continuous
D32V3, binary
                  cls
clus                 0   1
  PLXNA3 MUTATED     6   3
  PLXNA3 WILD-TYPE 223 280
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PLXNA3 MUTATED      6    3
  PLXNA3 WILD-TYPE  223  280
        clus
vv       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  FEMALE              6              223
  MALE                3              280
[1] 2 2
[1] FALSE
D32V4, binary
                  cls
clus                 0   1
  PLXNA3 MUTATED     1   7
  PLXNA3 WILD-TYPE 185 284
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PLXNA3 MUTATED      1    7
  PLXNA3 WILD-TYPE  185  284
     clus
vv    PLXNA3 MUTATED PLXNA3 WILD-TYPE
  NO               1              185
  YES              7              284
[1] 2 2
[1] FALSE
D32V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  PLXNA3 MUTATED             3                3                 3
  PLXNA3 WILD-TYPE         189              127               187
D32V6, multiclass
                   clus
vv                  PLXNA3 MUTATED PLXNA3 WILD-TYPE
  ASTROCYTOMA                    3              189
  OLIGOASTROCYTOMA               3              127
  OLIGODENDROGLIOMA              3              187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PLXNA3 MUTATED                                  0     0
  PLXNA3 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  PLXNA3 MUTATED                           2     7
  PLXNA3 WILD-TYPE                        19   465
D32V7, multiclass
                                  clus
vv                                 PLXNA3 MUTATED PLXNA3 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     2               19
  WHITE                                         7              465
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V8, binary
                  cls
clus                 0   1
  PLXNA3 MUTATED     0   9
  PLXNA3 WILD-TYPE  32 437
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PLXNA3 MUTATED      0    9
  PLXNA3 WILD-TYPE   32  437
                        clus
vv                       PLXNA3 MUTATED PLXNA3 WILD-TYPE
  HISPANIC OR LATINO                  0               32
  NOT HISPANIC OR LATINO              9              437
[1] 2 2
[1] FALSE

Clustering(33) Variable = ROBO3 MUTATION ANALYSIS
D33V1, survival
                 sevent
clus2               0   1
  ROBO3 MUTATED     5   0
  ROBO3 WILD-TYPE 385 119
  ROBO3 MUTATED ROBO3 WILD-TYPE 
              5             504 
  ROBO3 MUTATED ROBO3 WILD-TYPE 
              0             119 
$`ROBO3 MUTATED`
TCGA-CS-6667 TCGA-DB-A64L TCGA-HT-7676 TCGA-P5-A5F2 TCGA-TQ-A7RN 
        7.56        24.20         0.16         7.63        33.73 

$`ROBO3 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6668 TCGA-CS-6669 
       23.84        17.95        12.43        46.95        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       72.95        31.63        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 
       11.24        17.88        30.74        16.18        19.96        31.82 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D 
       63.88        46.06         8.02        30.21        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
      211.17        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7677 TCGA-HT-7680 
       56.09        57.60         0.23        14.27        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F4 
        7.99         2.37         2.30         4.11         5.88         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       36.69        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  ROBO3 MUTATED ROBO3 WILD-TYPE 
           0.16            0.03 
  ROBO3 MUTATED ROBO3 WILD-TYPE 
          33.73          211.17 
  ROBO3 MUTATED ROBO3 WILD-TYPE 
           7.63           20.76 
[1] "0.2 - 33.7 (7.6)"   "0.0 - 211.2 (20.8)"
[1] "hr="     "3300000"
D33V2, continuous
D33V3, binary
                 cls
clus                0   1
  ROBO3 MUTATED     3   2
  ROBO3 WILD-TYPE 226 281
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ROBO3 MUTATED      3    2
  ROBO3 WILD-TYPE  226  281
        clus
vv       ROBO3 MUTATED ROBO3 WILD-TYPE
  FEMALE             3             226
  MALE               2             281
[1] 2 2
[1] FALSE
D33V4, binary
                 cls
clus                0   1
  ROBO3 MUTATED     2   2
  ROBO3 WILD-TYPE 184 289
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ROBO3 MUTATED      2    2
  ROBO3 WILD-TYPE  184  289
     clus
vv    ROBO3 MUTATED ROBO3 WILD-TYPE
  NO              2             184
  YES             2             289
[1] 2 2
[1] FALSE
D33V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ROBO3 MUTATED             2                0                 3
  ROBO3 WILD-TYPE         190              130               187
D33V6, multiclass
                   clus
vv                  ROBO3 MUTATED ROBO3 WILD-TYPE
  ASTROCYTOMA                   2             190
  OLIGOASTROCYTOMA              0             130
  OLIGODENDROGLIOMA             3             187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ROBO3 MUTATED                                  0     0
  ROBO3 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  ROBO3 MUTATED                           0     5
  ROBO3 WILD-TYPE                        21   467
D33V7, multiclass
                                  clus
vv                                 ROBO3 MUTATED ROBO3 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        5             467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V8, binary
                 cls
clus                0   1
  ROBO3 MUTATED     1   4
  ROBO3 WILD-TYPE  31 442
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ROBO3 MUTATED      1    4
  ROBO3 WILD-TYPE   31  442
                        clus
vv                       ROBO3 MUTATED ROBO3 WILD-TYPE
  HISPANIC OR LATINO                 1              31
  NOT HISPANIC OR LATINO             4             442
[1] 2 2
[1] FALSE

Clustering(34) Variable = RB1 MUTATION ANALYSIS
D34V1, survival
               sevent
clus2             0   1
  RB1 MUTATED     3   3
  RB1 WILD-TYPE 387 116
  RB1 MUTATED RB1 WILD-TYPE 
            6           503 
  RB1 MUTATED RB1 WILD-TYPE 
            3           116 
$`RB1 MUTATED`
TCGA-DH-A669 TCGA-DU-5847 TCGA-DU-6392 TCGA-DU-7290 TCGA-E1-A7YM TCGA-FG-6688 
       30.21        18.02       211.17        10.36        21.30        18.77 

$`RB1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66B 
       19.96        31.82        63.88        46.06         8.02        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       13.71        18.61        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7292 TCGA-DU-7294 
        8.84        90.77        30.67        26.30         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       18.94        44.02        62.01        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       26.76        17.16        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 
       51.52        37.38         7.50        44.42         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ 
       19.46        12.43        16.18        23.90        75.02        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       15.32         0.76        32.45        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-6690 
       47.77        25.48        52.21        36.82        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 
       41.33        18.44        15.35        17.88        40.08        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       18.38        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       48.69        20.45        18.64         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       13.74        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A 
       16.93         1.81        16.14        16.83        21.40         6.38 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54         6.18        10.55 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X 
       12.76        20.81        20.71        19.00        42.77        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        4.11         5.88         7.63         0.76         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50         5.03        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       32.65        59.38        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        28.14        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        43.04        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  RB1 MUTATED RB1 WILD-TYPE 
        10.36          0.03 
  RB1 MUTATED RB1 WILD-TYPE 
       211.17        182.33 
  RB1 MUTATED RB1 WILD-TYPE 
       20.035        20.710 
[1] "10.4 - 211.2 (20.0)" "0.0 - 182.3 (20.7)" 
[1] "hr=" "1.1"
D34V2, continuous
D34V3, binary
               cls
clus              0   1
  RB1 MUTATED     4   2
  RB1 WILD-TYPE 225 281
[1] "tbl2"
               cls
clus            [,1] [,2]
  RB1 MUTATED      4    2
  RB1 WILD-TYPE  225  281
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  FEMALE           4           225
  MALE             2           281
[1] 2 2
[1] FALSE
D34V4, binary
               cls
clus              0   1
  RB1 MUTATED     2   4
  RB1 WILD-TYPE 184 287
[1] "tbl2"
               cls
clus            [,1] [,2]
  RB1 MUTATED      2    4
  RB1 WILD-TYPE  184  287
     clus
vv    RB1 MUTATED RB1 WILD-TYPE
  NO            2           184
  YES           4           287
[1] 2 2
[1] FALSE
D34V5, continuous
[1] "Remove cluster labels:" "RB1 MUTATED"           
clus
  RB1 MUTATED RB1 WILD-TYPE 
            2           304 
   TCGA-CS-4938    TCGA-CS-4941    TCGA-CS-4942    TCGA-CS-4943    TCGA-CS-4944 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-CS-5390    TCGA-CS-5393    TCGA-CS-5395    TCGA-CS-5396    TCGA-CS-5397 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-CS-6186    TCGA-CS-6188    TCGA-CS-6290    TCGA-CS-6665    TCGA-CS-6666 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-CS-6667    TCGA-CS-6668    TCGA-CS-6669    TCGA-DB-5274    TCGA-DB-A4XE 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DB-A64L    TCGA-DB-A64Q    TCGA-DB-A64R    TCGA-DB-A64S    TCGA-DB-A64U 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DB-A64V    TCGA-DB-A64W    TCGA-DB-A64X    TCGA-DB-A75L    TCGA-DB-A75O 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DH-5140    TCGA-DH-5142    TCGA-DH-5143    TCGA-DH-5144    TCGA-DH-A66B 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DH-A66D    TCGA-DH-A66F    TCGA-DH-A66G    TCGA-DH-A7UR    TCGA-DH-A7UU 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DH-A7UV    TCGA-DU-5851    TCGA-DU-5852    TCGA-DU-5853    TCGA-DU-5854 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-5855    TCGA-DU-5870    TCGA-DU-5871    TCGA-DU-5874    TCGA-DU-6396 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-6401    TCGA-DU-6403    TCGA-DU-6404    TCGA-DU-6405    TCGA-DU-6407 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-6408    TCGA-DU-6410    TCGA-DU-7009    TCGA-DU-7011    TCGA-DU-7013 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-7015    TCGA-DU-7018    TCGA-DU-7019    TCGA-DU-7294    TCGA-DU-7298 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-7299    TCGA-DU-7300    TCGA-DU-7301    TCGA-DU-7302    TCGA-DU-7304 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-7306    TCGA-DU-7309    TCGA-DU-8158    TCGA-DU-8161    TCGA-DU-8162 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-8163    TCGA-DU-8165    TCGA-DU-8167    TCGA-DU-8168    TCGA-DU-A5TP 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-A5TR    TCGA-DU-A5TS    TCGA-DU-A5TU    TCGA-DU-A5TW    TCGA-DU-A6S2 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-A6S6    TCGA-DU-A6S7    TCGA-DU-A6S8    TCGA-DU-A76R    TCGA-DU-A7T6 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-A7T8    TCGA-DU-A7TA    TCGA-DU-A7TB    TCGA-DU-A7TC    TCGA-DU-A7TD 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-DU-A7TG    TCGA-E1-5302    TCGA-E1-5303    TCGA-E1-5304    TCGA-E1-5305 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-E1-5307    TCGA-E1-5311    TCGA-E1-5318    TCGA-E1-5319    TCGA-E1-5322 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-E1-A7YE    TCGA-E1-A7YH    TCGA-E1-A7YI    TCGA-E1-A7YJ    TCGA-E1-A7YK 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-E1-A7YL    TCGA-E1-A7YN    TCGA-E1-A7YO    TCGA-E1-A7YQ    TCGA-E1-A7YS 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-E1-A7YV    TCGA-E1-A7YW    TCGA-E1-A7YY    TCGA-E1-A7Z2    TCGA-E1-A7Z4 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-E1-A7Z6    TCGA-FG-5963    TCGA-FG-5965    TCGA-FG-6689    TCGA-FG-6690 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-FG-6691    TCGA-FG-7636    TCGA-FG-7638    TCGA-FG-8181    TCGA-FG-8185 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-FG-8186    TCGA-FG-8187    TCGA-FG-8188    TCGA-FG-8189    TCGA-FG-A4MT 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-FG-A4MW    TCGA-FG-A4MX    TCGA-FG-A60J    TCGA-FG-A60L    TCGA-FG-A6J1 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-FG-A6J3    TCGA-FG-A711    TCGA-FG-A713    TCGA-FG-A87Q    TCGA-HT-7468 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-HT-7470    TCGA-HT-7475    TCGA-HT-7477    TCGA-HT-7481    TCGA-HT-7482 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-HT-7485    TCGA-HT-7607    TCGA-HT-7609    TCGA-HT-7611    TCGA-HT-7686 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-HT-7689    TCGA-HT-7692    TCGA-HT-7693    TCGA-HT-7694    TCGA-HT-7854 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-HT-7855    TCGA-HT-7856    TCGA-HT-7858    TCGA-HT-7875    TCGA-HT-7884 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-HT-8013    TCGA-HT-8105    TCGA-HT-8113    TCGA-HT-8564    TCGA-HT-A4DV 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-HT-A5R7    TCGA-HT-A5RA    TCGA-HT-A5RC    TCGA-HT-A615    TCGA-HT-A617 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-HT-A618    TCGA-HT-A61A    TCGA-HT-A61B    TCGA-HT-A61C    TCGA-HT-A74L 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-IK-7675    TCGA-KT-A74X    TCGA-KT-A7W1    TCGA-P5-A5EU    TCGA-P5-A5EV 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-P5-A5EW    TCGA-P5-A5EX    TCGA-P5-A5F0    TCGA-P5-A5F2    TCGA-P5-A5F4 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-P5-A5F6    TCGA-P5-A731    TCGA-QH-A65R    TCGA-QH-A65S    TCGA-QH-A65V 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-QH-A65X    TCGA-QH-A65Z    TCGA-QH-A6CS    TCGA-QH-A6CU    TCGA-QH-A6CV 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-QH-A6CW    TCGA-QH-A6CX    TCGA-QH-A6CY    TCGA-QH-A6CZ    TCGA-QH-A6X3 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-QH-A6X4    TCGA-QH-A6X5    TCGA-QH-A6X8    TCGA-QH-A6X9    TCGA-QH-A6XA 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-QH-A6XC    TCGA-QH-A86X    TCGA-QH-A870    TCGA-RY-A83Y    TCGA-RY-A840 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-RY-A845    TCGA-RY-A847    TCGA-S9-A6TS    TCGA-S9-A6TU    TCGA-S9-A6TV 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-S9-A6TW    TCGA-S9-A6TX    TCGA-S9-A6TY    TCGA-S9-A6TZ    TCGA-S9-A6U0 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-S9-A6U1    TCGA-S9-A6U2    TCGA-S9-A6U5    TCGA-S9-A6U6    TCGA-S9-A6U8 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-S9-A6UA    TCGA-S9-A6UB    TCGA-S9-A6WD    TCGA-S9-A6WE    TCGA-S9-A6WG 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-S9-A6WH    TCGA-S9-A6WI    TCGA-S9-A6WL    TCGA-S9-A6WM    TCGA-S9-A6WN 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-S9-A6WO    TCGA-S9-A6WP    TCGA-S9-A6WQ    TCGA-S9-A7IQ    TCGA-S9-A7IS 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-S9-A7IX    TCGA-S9-A7IY    TCGA-S9-A7IZ    TCGA-S9-A7J0    TCGA-S9-A7J1 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-S9-A7J2    TCGA-S9-A7J3    TCGA-S9-A7QW    TCGA-S9-A7QX    TCGA-S9-A7QY 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-S9-A7QZ    TCGA-S9-A7R1    TCGA-S9-A7R2    TCGA-S9-A7R3    TCGA-S9-A7R4 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-S9-A7R7    TCGA-S9-A7R8    TCGA-S9-A89V    TCGA-S9-A89Z    TCGA-TM-A7C3 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-TM-A7C4    TCGA-TM-A7C5    TCGA-TM-A7CA    TCGA-TM-A7CF    TCGA-TM-A84B 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-TM-A84C    TCGA-TM-A84F    TCGA-TM-A84G    TCGA-TM-A84H    TCGA-TM-A84I 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-TM-A84J    TCGA-TM-A84L    TCGA-TM-A84M    TCGA-TM-A84O    TCGA-TM-A84Q 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-TM-A84R    TCGA-TM-A84S    TCGA-TM-A84T    TCGA-TQ-A7RG    TCGA-TQ-A7RK 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-TQ-A7RM    TCGA-TQ-A7RN    TCGA-TQ-A7RO    TCGA-TQ-A7RP    TCGA-TQ-A7RQ 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-TQ-A7RR    TCGA-TQ-A7RS    TCGA-TQ-A7RU    TCGA-TQ-A7RV    TCGA-TQ-A7RW 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-TQ-A8XE    TCGA-VM-A8C8    TCGA-VM-A8CA    TCGA-VM-A8CD    TCGA-VM-A8CE 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-VM-A8CF    TCGA-VM-A8CH    TCGA-WY-A858    TCGA-WY-A859 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
               vv
clus            ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  RB1 MUTATED             5                0                 1
  RB1 WILD-TYPE         187              130               189
D34V6, multiclass
                   clus
vv                  RB1 MUTATED RB1 WILD-TYPE
  ASTROCYTOMA                 5           187
  OLIGOASTROCYTOMA            0           130
  OLIGODENDROGLIOMA           1           189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  RB1 MUTATED                                  0     0
  RB1 WILD-TYPE                                1     8
               vv
clus            BLACK OR AFRICAN AMERICAN WHITE
  RB1 MUTATED                           1     5
  RB1 WILD-TYPE                        20   467
D34V7, multiclass
                                  clus
vv                                 RB1 MUTATED RB1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE           0             1
  ASIAN                                      0             8
  BLACK OR AFRICAN AMERICAN                  1            20
  WHITE                                      5           467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V8, binary
               cls
clus              0   1
  RB1 MUTATED     0   6
  RB1 WILD-TYPE  32 440
[1] "tbl2"
               cls
clus            [,1] [,2]
  RB1 MUTATED      0    6
  RB1 WILD-TYPE   32  440
                        clus
vv                       RB1 MUTATED RB1 WILD-TYPE
  HISPANIC OR LATINO               0            32
  NOT HISPANIC OR LATINO           6           440
[1] 2 2
[1] FALSE

Clustering(35) Variable = SRPX MUTATION ANALYSIS
D35V1, survival
                sevent
clus2              0   1
  SRPX MUTATED     1   3
  SRPX WILD-TYPE 389 116
  SRPX MUTATED SRPX WILD-TYPE 
             4            505 
  SRPX MUTATED SRPX WILD-TYPE 
             3            116 
$`SRPX MUTATED`
TCGA-DH-5144 TCGA-DU-7006 TCGA-E1-5319 TCGA-E1-A7YQ 
        8.02        11.47        95.57        51.88 

$`SRPX WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-A669 TCGA-DH-A66B 
       19.96        31.82        63.88        46.06        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
        2.40        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
      134.27        78.21       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       75.02        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       17.82        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  SRPX MUTATED SRPX WILD-TYPE 
          8.02           0.03 
  SRPX MUTATED SRPX WILD-TYPE 
         95.57         211.17 
  SRPX MUTATED SRPX WILD-TYPE 
        31.675         20.710 
[1] "8.0 - 95.6 (31.7)"  "0.0 - 211.2 (20.7)"
[1] "hr=" "2.3"
D35V2, continuous
D35V3, binary
                cls
clus               0   1
  SRPX MUTATED     4   0
  SRPX WILD-TYPE 225 283
[1] "tbl2"
                cls
clus             [,1] [,2]
  SRPX MUTATED      4    0
  SRPX WILD-TYPE  225  283
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  FEMALE            4            225
  MALE              0            283
[1] 2 2
[1] FALSE
D35V4, binary
                cls
clus               0   1
  SRPX MUTATED     1   2
  SRPX WILD-TYPE 185 289
[1] "tbl2"
                cls
clus             [,1] [,2]
  SRPX MUTATED      1    2
  SRPX WILD-TYPE  185  289
     clus
vv    SRPX MUTATED SRPX WILD-TYPE
  NO             1            185
  YES            2            289
[1] 2 2
[1] FALSE
D35V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  SRPX MUTATED             1                0                 3
  SRPX WILD-TYPE         191              130               187
D35V6, multiclass
                   clus
vv                  SRPX MUTATED SRPX WILD-TYPE
  ASTROCYTOMA                  1            191
  OLIGOASTROCYTOMA             0            130
  OLIGODENDROGLIOMA            3            187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SRPX MUTATED                                  0     0
  SRPX WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  SRPX MUTATED                           1     3
  SRPX WILD-TYPE                        20   469
D35V7, multiclass
                                  clus
vv                                 SRPX MUTATED SRPX WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   1             20
  WHITE                                       3            469
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V8, binary
                cls
clus               0   1
  SRPX MUTATED     0   4
  SRPX WILD-TYPE  32 442
[1] "tbl2"
                cls
clus             [,1] [,2]
  SRPX MUTATED      0    4
  SRPX WILD-TYPE   32  442
                        clus
vv                       SRPX MUTATED SRPX WILD-TYPE
  HISPANIC OR LATINO                0             32
  NOT HISPANIC OR LATINO            4            442
[1] 2 2
[1] FALSE

Clustering(36) Variable = PDGFRA MUTATION ANALYSIS
D36V1, survival
                  sevent
clus2                0   1
  PDGFRA MUTATED     4   5
  PDGFRA WILD-TYPE 386 114
  PDGFRA MUTATED PDGFRA WILD-TYPE 
               9              500 
  PDGFRA MUTATED PDGFRA WILD-TYPE 
               5              114 
$`PDGFRA MUTATED`
TCGA-CS-4941 TCGA-CS-6665 TCGA-DU-6392 TCGA-E1-A7YI TCGA-FG-A6J1 TCGA-HT-7469 
        7.69        12.43       211.17         3.65        16.44        11.54 
TCGA-HT-7478 TCGA-HT-7882 TCGA-S9-A7IS 
        6.38         3.72         7.92 

$`PDGFRA WILD-TYPE`
TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5390 TCGA-CS-5393 
        4.70        43.89        18.15        10.62        64.64        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.10        21.01         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-CS-6670 
       17.95        46.95         7.56        49.94        49.12         6.61 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        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-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 
       11.24        17.88        30.74        16.18        19.96        31.82 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D 
       63.88        46.06         8.02        30.21        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
       19.46        12.43        16.18        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       17.82        21.53        15.02        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 
       36.66        48.69        20.45        18.64         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        0.10         6.67        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7479 TCGA-HT-7480 
        3.75        17.42         6.54        24.26        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        3.68         5.33        35.47        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23         2.20         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IX 
       26.47        18.61        18.64        14.07        36.13        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  PDGFRA MUTATED PDGFRA WILD-TYPE 
            3.65             0.03 
  PDGFRA MUTATED PDGFRA WILD-TYPE 
          211.17           182.33 
  PDGFRA MUTATED PDGFRA WILD-TYPE 
           7.920           20.995 
[1] "3.6 - 211.2 (7.9)"  "0.0 - 182.3 (21.0)"
[1] "hr=" "2.3"
D36V2, continuous
D36V3, binary
                  cls
clus                 0   1
  PDGFRA MUTATED     6   4
  PDGFRA WILD-TYPE 223 279
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PDGFRA MUTATED      6    4
  PDGFRA WILD-TYPE  223  279
        clus
vv       PDGFRA MUTATED PDGFRA WILD-TYPE
  FEMALE              6              223
  MALE                4              279
[1] 2 2
[1] FALSE
D36V4, binary
                  cls
clus                 0   1
  PDGFRA MUTATED     3   7
  PDGFRA WILD-TYPE 183 284
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PDGFRA MUTATED      3    7
  PDGFRA WILD-TYPE  183  284
     clus
vv    PDGFRA MUTATED PDGFRA WILD-TYPE
  NO               3              183
  YES              7              284
[1] 2 2
[1] FALSE
D36V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  PDGFRA MUTATED             6                0                 4
  PDGFRA WILD-TYPE         186              130               186
D36V6, multiclass
                   clus
vv                  PDGFRA MUTATED PDGFRA WILD-TYPE
  ASTROCYTOMA                    6              186
  OLIGOASTROCYTOMA               0              130
  OLIGODENDROGLIOMA              4              186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PDGFRA MUTATED                                  0     0
  PDGFRA WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  PDGFRA MUTATED                           0    10
  PDGFRA WILD-TYPE                        21   462
D36V7, multiclass
                                  clus
vv                                 PDGFRA MUTATED PDGFRA WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                        10              462
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V8, binary
                  cls
clus                 0   1
  PDGFRA MUTATED     2   8
  PDGFRA WILD-TYPE  30 438
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PDGFRA MUTATED      2    8
  PDGFRA WILD-TYPE   30  438
                        clus
vv                       PDGFRA MUTATED PDGFRA WILD-TYPE
  HISPANIC OR LATINO                  2               30
  NOT HISPANIC OR LATINO              8              438
[1] 2 2
[1] FALSE

Clustering(37) Variable = ZNF512B MUTATION ANALYSIS
D37V1, survival
                   sevent
clus2                 0   1
  ZNF512B MUTATED     5   0
  ZNF512B WILD-TYPE 385 119
  ZNF512B MUTATED ZNF512B WILD-TYPE 
                5               504 
  ZNF512B MUTATED ZNF512B WILD-TYPE 
                0               119 
$`ZNF512B MUTATED`
TCGA-DU-6392 TCGA-HT-7471 TCGA-HT-7688 TCGA-S9-A6U6 TCGA-TQ-A7RK 
      211.17         0.13        31.69        35.15        44.09 

$`ZNF512B WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       11.54        40.11         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7689 
        0.76        44.68         6.05        42.74         0.10        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U8 
       36.82        24.39        25.81        29.85        32.61        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RM 
       21.37        19.69        15.98         2.04        40.41        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  ZNF512B MUTATED ZNF512B WILD-TYPE 
             0.13              0.03 
  ZNF512B MUTATED ZNF512B WILD-TYPE 
           211.17            182.33 
  ZNF512B MUTATED ZNF512B WILD-TYPE 
            35.15             20.68 
[1] "0.1 - 211.2 (35.1)" "0.0 - 182.3 (20.7)"
[1] "hr="   "1e+07"
D37V2, continuous
D37V3, binary
                   cls
clus                  0   1
  ZNF512B MUTATED     2   3
  ZNF512B WILD-TYPE 227 280
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZNF512B MUTATED      2    3
  ZNF512B WILD-TYPE  227  280
        clus
vv       ZNF512B MUTATED ZNF512B WILD-TYPE
  FEMALE               2               227
  MALE                 3               280
[1] 2 2
[1] FALSE
D37V4, binary
                   cls
clus                  0   1
  ZNF512B MUTATED     1   3
  ZNF512B WILD-TYPE 185 288
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZNF512B MUTATED      1    3
  ZNF512B WILD-TYPE  185  288
     clus
vv    ZNF512B MUTATED ZNF512B WILD-TYPE
  NO                1               185
  YES               3               288
[1] 2 2
[1] FALSE
D37V5, continuous
[1] "Remove cluster labels:" "ZNF512B MUTATED"       
clus
  ZNF512B MUTATED ZNF512B WILD-TYPE 
                2               304 
       TCGA-CS-4938        TCGA-CS-4941        TCGA-CS-4942        TCGA-CS-4943 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-CS-4944        TCGA-CS-5390        TCGA-CS-5393        TCGA-CS-5395 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-CS-5396        TCGA-CS-5397        TCGA-CS-6186        TCGA-CS-6188 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-CS-6290        TCGA-CS-6665        TCGA-CS-6666        TCGA-CS-6667 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-CS-6668        TCGA-CS-6669        TCGA-DB-5274        TCGA-DB-A4XE 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DB-A64L        TCGA-DB-A64Q        TCGA-DB-A64R        TCGA-DB-A64S 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DB-A64U        TCGA-DB-A64V        TCGA-DB-A64W        TCGA-DB-A64X 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DB-A75L        TCGA-DB-A75O        TCGA-DH-5140        TCGA-DH-5142 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DH-5143        TCGA-DH-5144        TCGA-DH-A66B        TCGA-DH-A66D 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DH-A66F        TCGA-DH-A66G        TCGA-DH-A7UR        TCGA-DH-A7UU 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DH-A7UV        TCGA-DU-5851        TCGA-DU-5852        TCGA-DU-5853 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-5854        TCGA-DU-5855        TCGA-DU-5870        TCGA-DU-5871 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-5874        TCGA-DU-6396        TCGA-DU-6401        TCGA-DU-6403 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-6404        TCGA-DU-6405        TCGA-DU-6407        TCGA-DU-6408 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-6410        TCGA-DU-7009        TCGA-DU-7011        TCGA-DU-7013 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-7015        TCGA-DU-7018        TCGA-DU-7019        TCGA-DU-7294 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-7298        TCGA-DU-7299        TCGA-DU-7300        TCGA-DU-7301 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-7302        TCGA-DU-7304        TCGA-DU-7306        TCGA-DU-7309 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-8158        TCGA-DU-8161        TCGA-DU-8162        TCGA-DU-8163 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-8165        TCGA-DU-8167        TCGA-DU-8168        TCGA-DU-A5TP 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-A5TR        TCGA-DU-A5TS        TCGA-DU-A5TU        TCGA-DU-A5TW 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-A6S2        TCGA-DU-A6S6        TCGA-DU-A6S7        TCGA-DU-A6S8 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-A76R        TCGA-DU-A7T6        TCGA-DU-A7T8        TCGA-DU-A7TA 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-DU-A7TB        TCGA-DU-A7TC        TCGA-DU-A7TD        TCGA-DU-A7TG 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-E1-5302        TCGA-E1-5303        TCGA-E1-5304        TCGA-E1-5305 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-E1-5307        TCGA-E1-5311        TCGA-E1-5318        TCGA-E1-5319 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-E1-5322        TCGA-E1-A7YE        TCGA-E1-A7YH        TCGA-E1-A7YI 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-E1-A7YJ        TCGA-E1-A7YK        TCGA-E1-A7YL        TCGA-E1-A7YM 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-E1-A7YN        TCGA-E1-A7YO        TCGA-E1-A7YQ        TCGA-E1-A7YS 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-E1-A7YV        TCGA-E1-A7YW        TCGA-E1-A7YY        TCGA-E1-A7Z2 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-E1-A7Z4        TCGA-E1-A7Z6        TCGA-FG-5963        TCGA-FG-5965 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-FG-6688        TCGA-FG-6689        TCGA-FG-6690        TCGA-FG-6691 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-FG-7636        TCGA-FG-7638        TCGA-FG-8181        TCGA-FG-8185 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-FG-8186        TCGA-FG-8187        TCGA-FG-8188        TCGA-FG-8189 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-FG-A4MT        TCGA-FG-A4MW        TCGA-FG-A4MX        TCGA-FG-A60J 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-FG-A60L        TCGA-FG-A6J1        TCGA-FG-A6J3        TCGA-FG-A711 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-FG-A713        TCGA-FG-A87Q        TCGA-HT-7468        TCGA-HT-7470 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-HT-7475        TCGA-HT-7477        TCGA-HT-7481        TCGA-HT-7482 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-HT-7485        TCGA-HT-7607        TCGA-HT-7609        TCGA-HT-7611 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-HT-7686        TCGA-HT-7689        TCGA-HT-7692        TCGA-HT-7693 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-HT-7694        TCGA-HT-7854        TCGA-HT-7855        TCGA-HT-7856 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-HT-7858        TCGA-HT-7875        TCGA-HT-7884        TCGA-HT-8013 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-HT-8105        TCGA-HT-8113        TCGA-HT-8564        TCGA-HT-A4DV 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-HT-A5R7        TCGA-HT-A5RA        TCGA-HT-A5RC        TCGA-HT-A615 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-HT-A617        TCGA-HT-A618        TCGA-HT-A61A        TCGA-HT-A61B 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-HT-A61C        TCGA-HT-A74L        TCGA-IK-7675        TCGA-KT-A74X 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-KT-A7W1        TCGA-P5-A5EU        TCGA-P5-A5EV        TCGA-P5-A5EW 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-P5-A5EX        TCGA-P5-A5F0        TCGA-P5-A5F2        TCGA-P5-A5F4 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-P5-A5F6        TCGA-P5-A731        TCGA-QH-A65R        TCGA-QH-A65S 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-QH-A65V        TCGA-QH-A65X        TCGA-QH-A65Z        TCGA-QH-A6CS 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-QH-A6CU        TCGA-QH-A6CV        TCGA-QH-A6CW        TCGA-QH-A6CX 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-QH-A6CY        TCGA-QH-A6CZ        TCGA-QH-A6X3        TCGA-QH-A6X4 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-QH-A6X5        TCGA-QH-A6X8        TCGA-QH-A6X9        TCGA-QH-A6XA 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-QH-A6XC        TCGA-QH-A86X        TCGA-QH-A870        TCGA-RY-A83Y 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-RY-A840        TCGA-RY-A845        TCGA-RY-A847        TCGA-S9-A6TS 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A6TU        TCGA-S9-A6TV        TCGA-S9-A6TW        TCGA-S9-A6TX 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A6TY        TCGA-S9-A6TZ        TCGA-S9-A6U0        TCGA-S9-A6U1 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A6U2        TCGA-S9-A6U5        TCGA-S9-A6U8        TCGA-S9-A6UA 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A6UB        TCGA-S9-A6WD        TCGA-S9-A6WE        TCGA-S9-A6WG 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A6WH        TCGA-S9-A6WI        TCGA-S9-A6WL        TCGA-S9-A6WM 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A6WN        TCGA-S9-A6WO        TCGA-S9-A6WP        TCGA-S9-A6WQ 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A7IQ        TCGA-S9-A7IS        TCGA-S9-A7IX        TCGA-S9-A7IY 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A7IZ        TCGA-S9-A7J0        TCGA-S9-A7J1        TCGA-S9-A7J2 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A7J3        TCGA-S9-A7QW        TCGA-S9-A7QX        TCGA-S9-A7QY 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A7QZ        TCGA-S9-A7R1        TCGA-S9-A7R2        TCGA-S9-A7R3 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A7R4        TCGA-S9-A7R7        TCGA-S9-A7R8        TCGA-S9-A89V 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-S9-A89Z        TCGA-TM-A7C3        TCGA-TM-A7C4        TCGA-TM-A7C5 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-TM-A7CA        TCGA-TM-A7CF        TCGA-TM-A84B        TCGA-TM-A84C 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-TM-A84F        TCGA-TM-A84G        TCGA-TM-A84H        TCGA-TM-A84I 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-TM-A84J        TCGA-TM-A84L        TCGA-TM-A84M        TCGA-TM-A84O 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-TM-A84Q        TCGA-TM-A84R        TCGA-TM-A84S        TCGA-TM-A84T 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-TQ-A7RG        TCGA-TQ-A7RM        TCGA-TQ-A7RN        TCGA-TQ-A7RO 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-TQ-A7RP        TCGA-TQ-A7RQ        TCGA-TQ-A7RR        TCGA-TQ-A7RS 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-TQ-A7RU        TCGA-TQ-A7RV        TCGA-TQ-A7RW        TCGA-TQ-A8XE 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-VM-A8C8        TCGA-VM-A8CA        TCGA-VM-A8CD        TCGA-VM-A8CE 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
       TCGA-VM-A8CF        TCGA-VM-A8CH        TCGA-WY-A858        TCGA-WY-A859 
"ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" "ZNF512B WILD-TYPE" 
                   vv
clus                ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ZNF512B MUTATED             2                1                 2
  ZNF512B WILD-TYPE         190              129               188
D37V6, multiclass
                   clus
vv                  ZNF512B MUTATED ZNF512B WILD-TYPE
  ASTROCYTOMA                     2               190
  OLIGOASTROCYTOMA                1               129
  OLIGODENDROGLIOMA               2               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ZNF512B MUTATED                                  0     0
  ZNF512B WILD-TYPE                                1     8
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  ZNF512B MUTATED                           0     5
  ZNF512B WILD-TYPE                        21   467
D37V7, multiclass
                                  clus
vv                                 ZNF512B MUTATED ZNF512B WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 8
  BLACK OR AFRICAN AMERICAN                      0                21
  WHITE                                          5               467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V8, binary
                   cls
clus                  0   1
  ZNF512B MUTATED     1   4
  ZNF512B WILD-TYPE  31 442
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZNF512B MUTATED      1    4
  ZNF512B WILD-TYPE   31  442
                        clus
vv                       ZNF512B MUTATED ZNF512B WILD-TYPE
  HISPANIC OR LATINO                   1                31
  NOT HISPANIC OR LATINO               4               442
[1] 2 2
[1] FALSE

Clustering(38) Variable = ZMIZ1 MUTATION ANALYSIS
D38V1, survival
                 sevent
clus2               0   1
  ZMIZ1 MUTATED     8   1
  ZMIZ1 WILD-TYPE 382 118
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
              9             500 
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
              1             118 
$`ZMIZ1 MUTATED`
TCGA-DU-6392 TCGA-DU-7009 TCGA-HT-8564 TCGA-QH-A6CU TCGA-QH-A6X8 TCGA-R8-A6MO 
      211.17       154.36        15.72        14.83        16.73        32.65 
TCGA-RY-A843 TCGA-TQ-A7RH TCGA-TQ-A7RN 
        2.07        15.98        33.73 

$`ZMIZ1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7010 TCGA-DU-7011 
        2.40        11.47        62.96       156.23        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CV TCGA-QH-A6CW 
       12.62        15.85        14.04        19.33        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       94.03        59.38        30.87         5.46         9.90        28.08 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       28.14        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RI 
       18.61        14.93        23.80        21.37        19.69         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       40.41        44.09        36.69        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
           2.07            0.03 
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
         211.17          182.33 
  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE 
          16.73           20.76 
[1] "2.1 - 211.2 (16.7)" "0.0 - 182.3 (20.8)"
[1] "hr=" "5.2"
D38V2, continuous
D38V3, binary
                 cls
clus                0   1
  ZMIZ1 MUTATED     5   4
  ZMIZ1 WILD-TYPE 224 279
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZMIZ1 MUTATED      5    4
  ZMIZ1 WILD-TYPE  224  279
        clus
vv       ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  FEMALE             5             224
  MALE               4             279
[1] 2 2
[1] FALSE
D38V4, binary
                 cls
clus                0   1
  ZMIZ1 MUTATED     3   6
  ZMIZ1 WILD-TYPE 183 285
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZMIZ1 MUTATED      3    6
  ZMIZ1 WILD-TYPE  183  285
     clus
vv    ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  NO              3             183
  YES             6             285
[1] 2 2
[1] FALSE
D38V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ZMIZ1 MUTATED             3                1                 5
  ZMIZ1 WILD-TYPE         189              129               185
D38V6, multiclass
                   clus
vv                  ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  ASTROCYTOMA                   3             189
  OLIGOASTROCYTOMA              1             129
  OLIGODENDROGLIOMA             5             185
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ZMIZ1 MUTATED                                  0     1
  ZMIZ1 WILD-TYPE                                1     7
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  ZMIZ1 MUTATED                           1     7
  ZMIZ1 WILD-TYPE                        20   465
D38V7, multiclass
                                  clus
vv                                 ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        1               7
  BLACK OR AFRICAN AMERICAN                    1              20
  WHITE                                        7             465
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V8, binary
                 cls
clus                0   1
  ZMIZ1 MUTATED     3   6
  ZMIZ1 WILD-TYPE  29 440
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZMIZ1 MUTATED      3    6
  ZMIZ1 WILD-TYPE   29  440
                        clus
vv                       ZMIZ1 MUTATED ZMIZ1 WILD-TYPE
  HISPANIC OR LATINO                 3              29
  NOT HISPANIC OR LATINO             6             440
[1] 2 2
[1] FALSE

Clustering(39) Variable = TMEM216 MUTATION ANALYSIS
D39V1, survival
                   sevent
clus2                 0   1
  TMEM216 MUTATED     3   0
  TMEM216 WILD-TYPE 387 119
  TMEM216 MUTATED TMEM216 WILD-TYPE 
                3               506 
  TMEM216 MUTATED TMEM216 WILD-TYPE 
                0               119 
$`TMEM216 MUTATED`
TCGA-FG-A60J TCGA-HT-A5R9 TCGA-P5-A5F4 
       14.76         0.07         0.76 

$`TMEM216 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
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-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 
       14.99       105.21         6.54         8.84        90.77        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       26.30        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       62.01        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        5.10        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O 
       95.11        20.98        22.29        11.41        26.76        17.16 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
        7.50        44.42         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       16.18        21.30        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 
       41.33        18.44        15.35        17.88        40.08        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.38        18.71        23.70        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.63         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  TMEM216 MUTATED TMEM216 WILD-TYPE 
             0.07              0.03 
  TMEM216 MUTATED TMEM216 WILD-TYPE 
            14.76            211.17 
  TMEM216 MUTATED TMEM216 WILD-TYPE 
             0.76             20.81 
[1] "0.1 - 14.8 (0.8)"   "0.0 - 211.2 (20.8)"
[1] "hr="    "440000"
D39V2, continuous
D39V3, binary
                   cls
clus                  0   1
  TMEM216 MUTATED     3   0
  TMEM216 WILD-TYPE 226 283
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM216 MUTATED      3    0
  TMEM216 WILD-TYPE  226  283
        clus
vv       TMEM216 MUTATED TMEM216 WILD-TYPE
  FEMALE               3               226
  MALE                 0               283
[1] 2 2
[1] FALSE
D39V4, binary
                   cls
clus                  0   1
  TMEM216 MUTATED     1   1
  TMEM216 WILD-TYPE 185 290
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM216 MUTATED      1    1
  TMEM216 WILD-TYPE  185  290
     clus
vv    TMEM216 MUTATED TMEM216 WILD-TYPE
  NO                1               185
  YES               1               290
[1] 2 2
[1] FALSE
D39V5, continuous
[1] "Remove cluster labels:" "TMEM216 MUTATED"       
clus
  TMEM216 MUTATED TMEM216 WILD-TYPE 
                2               304 
       TCGA-CS-4938        TCGA-CS-4941        TCGA-CS-4942        TCGA-CS-4943 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-CS-4944        TCGA-CS-5390        TCGA-CS-5393        TCGA-CS-5395 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-CS-5396        TCGA-CS-5397        TCGA-CS-6186        TCGA-CS-6188 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-CS-6290        TCGA-CS-6665        TCGA-CS-6666        TCGA-CS-6667 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-CS-6668        TCGA-CS-6669        TCGA-DB-5274        TCGA-DB-A4XE 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DB-A64L        TCGA-DB-A64Q        TCGA-DB-A64R        TCGA-DB-A64S 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DB-A64U        TCGA-DB-A64V        TCGA-DB-A64W        TCGA-DB-A64X 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DB-A75L        TCGA-DB-A75O        TCGA-DH-5140        TCGA-DH-5142 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DH-5143        TCGA-DH-5144        TCGA-DH-A66B        TCGA-DH-A66D 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DH-A66F        TCGA-DH-A66G        TCGA-DH-A7UR        TCGA-DH-A7UU 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DH-A7UV        TCGA-DU-5851        TCGA-DU-5852        TCGA-DU-5853 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-5854        TCGA-DU-5855        TCGA-DU-5870        TCGA-DU-5871 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-5874        TCGA-DU-6396        TCGA-DU-6401        TCGA-DU-6403 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-6404        TCGA-DU-6405        TCGA-DU-6407        TCGA-DU-6408 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-6410        TCGA-DU-7009        TCGA-DU-7011        TCGA-DU-7013 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-7015        TCGA-DU-7018        TCGA-DU-7019        TCGA-DU-7294 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-7298        TCGA-DU-7299        TCGA-DU-7300        TCGA-DU-7301 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-7302        TCGA-DU-7304        TCGA-DU-7306        TCGA-DU-7309 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-8158        TCGA-DU-8161        TCGA-DU-8162        TCGA-DU-8163 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-8165        TCGA-DU-8167        TCGA-DU-8168        TCGA-DU-A5TP 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-A5TR        TCGA-DU-A5TS        TCGA-DU-A5TU        TCGA-DU-A5TW 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-A6S2        TCGA-DU-A6S6        TCGA-DU-A6S7        TCGA-DU-A6S8 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-A76R        TCGA-DU-A7T6        TCGA-DU-A7T8        TCGA-DU-A7TA 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-DU-A7TB        TCGA-DU-A7TC        TCGA-DU-A7TD        TCGA-DU-A7TG 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-E1-5302        TCGA-E1-5303        TCGA-E1-5304        TCGA-E1-5305 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-E1-5307        TCGA-E1-5311        TCGA-E1-5318        TCGA-E1-5319 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-E1-5322        TCGA-E1-A7YE        TCGA-E1-A7YH        TCGA-E1-A7YI 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-E1-A7YJ        TCGA-E1-A7YK        TCGA-E1-A7YL        TCGA-E1-A7YM 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-E1-A7YN        TCGA-E1-A7YO        TCGA-E1-A7YQ        TCGA-E1-A7YS 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-E1-A7YV        TCGA-E1-A7YW        TCGA-E1-A7YY        TCGA-E1-A7Z2 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-E1-A7Z4        TCGA-E1-A7Z6        TCGA-FG-5963        TCGA-FG-5965 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-FG-6688        TCGA-FG-6689        TCGA-FG-6690        TCGA-FG-6691 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-FG-7636        TCGA-FG-7638        TCGA-FG-8181        TCGA-FG-8185 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-FG-8186        TCGA-FG-8187        TCGA-FG-8188        TCGA-FG-8189 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-FG-A4MT        TCGA-FG-A4MW        TCGA-FG-A4MX        TCGA-FG-A60L 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-FG-A6J1        TCGA-FG-A6J3        TCGA-FG-A711        TCGA-FG-A713 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-FG-A87Q        TCGA-HT-7468        TCGA-HT-7470        TCGA-HT-7475 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-HT-7477        TCGA-HT-7481        TCGA-HT-7482        TCGA-HT-7485 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-HT-7607        TCGA-HT-7609        TCGA-HT-7611        TCGA-HT-7686 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-HT-7689        TCGA-HT-7692        TCGA-HT-7693        TCGA-HT-7694 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-HT-7854        TCGA-HT-7855        TCGA-HT-7856        TCGA-HT-7858 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-HT-7875        TCGA-HT-7884        TCGA-HT-8013        TCGA-HT-8105 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-HT-8113        TCGA-HT-8564        TCGA-HT-A4DV        TCGA-HT-A5R7 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-HT-A5RA        TCGA-HT-A5RC        TCGA-HT-A615        TCGA-HT-A617 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-HT-A618        TCGA-HT-A61A        TCGA-HT-A61B        TCGA-HT-A61C 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-HT-A74L        TCGA-IK-7675        TCGA-KT-A74X        TCGA-KT-A7W1 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-P5-A5EU        TCGA-P5-A5EV        TCGA-P5-A5EW        TCGA-P5-A5EX 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-P5-A5F0        TCGA-P5-A5F2        TCGA-P5-A5F6        TCGA-P5-A731 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-QH-A65R        TCGA-QH-A65S        TCGA-QH-A65V        TCGA-QH-A65X 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-QH-A65Z        TCGA-QH-A6CS        TCGA-QH-A6CU        TCGA-QH-A6CV 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-QH-A6CW        TCGA-QH-A6CX        TCGA-QH-A6CY        TCGA-QH-A6CZ 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-QH-A6X3        TCGA-QH-A6X4        TCGA-QH-A6X5        TCGA-QH-A6X8 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-QH-A6X9        TCGA-QH-A6XA        TCGA-QH-A6XC        TCGA-QH-A86X 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-QH-A870        TCGA-RY-A83Y        TCGA-RY-A840        TCGA-RY-A845 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-RY-A847        TCGA-S9-A6TS        TCGA-S9-A6TU        TCGA-S9-A6TV 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A6TW        TCGA-S9-A6TX        TCGA-S9-A6TY        TCGA-S9-A6TZ 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A6U0        TCGA-S9-A6U1        TCGA-S9-A6U2        TCGA-S9-A6U5 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A6U6        TCGA-S9-A6U8        TCGA-S9-A6UA        TCGA-S9-A6UB 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A6WD        TCGA-S9-A6WE        TCGA-S9-A6WG        TCGA-S9-A6WH 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A6WI        TCGA-S9-A6WL        TCGA-S9-A6WM        TCGA-S9-A6WN 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A6WO        TCGA-S9-A6WP        TCGA-S9-A6WQ        TCGA-S9-A7IQ 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A7IS        TCGA-S9-A7IX        TCGA-S9-A7IY        TCGA-S9-A7IZ 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A7J0        TCGA-S9-A7J1        TCGA-S9-A7J2        TCGA-S9-A7J3 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A7QW        TCGA-S9-A7QX        TCGA-S9-A7QY        TCGA-S9-A7QZ 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A7R1        TCGA-S9-A7R2        TCGA-S9-A7R3        TCGA-S9-A7R4 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-S9-A7R7        TCGA-S9-A7R8        TCGA-S9-A89V        TCGA-S9-A89Z 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-TM-A7C3        TCGA-TM-A7C4        TCGA-TM-A7C5        TCGA-TM-A7CA 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-TM-A7CF        TCGA-TM-A84B        TCGA-TM-A84C        TCGA-TM-A84F 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-TM-A84G        TCGA-TM-A84H        TCGA-TM-A84I        TCGA-TM-A84J 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-TM-A84L        TCGA-TM-A84M        TCGA-TM-A84O        TCGA-TM-A84Q 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-TM-A84R        TCGA-TM-A84S        TCGA-TM-A84T        TCGA-TQ-A7RG 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-TQ-A7RK        TCGA-TQ-A7RM        TCGA-TQ-A7RN        TCGA-TQ-A7RO 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-TQ-A7RP        TCGA-TQ-A7RQ        TCGA-TQ-A7RR        TCGA-TQ-A7RS 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-TQ-A7RU        TCGA-TQ-A7RV        TCGA-TQ-A7RW        TCGA-TQ-A8XE 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-VM-A8C8        TCGA-VM-A8CA        TCGA-VM-A8CD        TCGA-VM-A8CE 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
       TCGA-VM-A8CF        TCGA-VM-A8CH        TCGA-WY-A858        TCGA-WY-A859 
"TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" "TMEM216 WILD-TYPE" 
                   vv
clus                ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  TMEM216 MUTATED             0                1                 2
  TMEM216 WILD-TYPE         192              129               188
D39V6, multiclass
                   clus
vv                  TMEM216 MUTATED TMEM216 WILD-TYPE
  ASTROCYTOMA                     0               192
  OLIGOASTROCYTOMA                1               129
  OLIGODENDROGLIOMA               2               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TMEM216 MUTATED                                  0     0
  TMEM216 WILD-TYPE                                1     8
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  TMEM216 MUTATED                           0     3
  TMEM216 WILD-TYPE                        21   469
D39V7, multiclass
                                  clus
vv                                 TMEM216 MUTATED TMEM216 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 8
  BLACK OR AFRICAN AMERICAN                      0                21
  WHITE                                          3               469
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V8, binary
                   cls
clus                  0   1
  TMEM216 MUTATED     0   3
  TMEM216 WILD-TYPE  32 443
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM216 MUTATED      0    3
  TMEM216 WILD-TYPE   32  443
                        clus
vv                       TMEM216 MUTATED TMEM216 WILD-TYPE
  HISPANIC OR LATINO                   0                32
  NOT HISPANIC OR LATINO               3               443
[1] 2 2
[1] FALSE

Clustering(40) Variable = ARID2 MUTATION ANALYSIS
D40V1, survival
                 sevent
clus2               0   1
  ARID2 MUTATED     8   3
  ARID2 WILD-TYPE 382 116
  ARID2 MUTATED ARID2 WILD-TYPE 
             11             498 
  ARID2 MUTATED ARID2 WILD-TYPE 
              3             116 
$`ARID2 MUTATED`
TCGA-DB-A75M TCGA-DH-A7UR TCGA-DU-5855 TCGA-DU-6392 TCGA-DU-A5TY TCGA-DU-A7TB 
       17.88        54.25         6.81       211.17        33.96        51.52 
TCGA-E1-5303 TCGA-FG-A6IZ TCGA-S9-A7IS TCGA-S9-A89V TCGA-TM-A7CA 
       67.46        15.02         7.92        18.71        34.78 

$`ARID2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       18.51        12.10        11.24        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       27.81        17.19        17.19        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 
        8.45       182.33        18.94        17.49        15.16        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       90.77        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       18.94        44.02        62.01        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 
       29.85        31.69        24.43        26.17        24.99        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TC 
       17.16        21.30        17.98       139.04        84.33        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5304 TCGA-E1-5305 
        7.50        44.42         0.56        50.14        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6J1 
       18.71        23.70        14.76        17.82        21.53        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23         2.20         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IX 
       26.47        18.61        18.64        14.07        36.13        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C3 
       99.06        30.05        98.63        31.59        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       48.33        49.32        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  ARID2 MUTATED ARID2 WILD-TYPE 
           6.81            0.03 
  ARID2 MUTATED ARID2 WILD-TYPE 
         211.17          182.33 
  ARID2 MUTATED ARID2 WILD-TYPE 
         33.960          20.695 
[1] "6.8 - 211.2 (34.0)" "0.0 - 182.3 (20.7)"
[1] "hr=" "1.5"
D40V2, continuous
D40V3, binary
                 cls
clus                0   1
  ARID2 MUTATED     5   6
  ARID2 WILD-TYPE 224 277
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ARID2 MUTATED      5    6
  ARID2 WILD-TYPE  224  277
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  FEMALE             5             224
  MALE               6             277
[1] 2 2
[1] FALSE
D40V4, binary
                 cls
clus                0   1
  ARID2 MUTATED     2   9
  ARID2 WILD-TYPE 184 282
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ARID2 MUTATED      2    9
  ARID2 WILD-TYPE  184  282
     clus
vv    ARID2 MUTATED ARID2 WILD-TYPE
  NO              2             184
  YES             9             282
[1] 2 2
[1] FALSE
D40V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ARID2 MUTATED             7                1                 3
  ARID2 WILD-TYPE         185              129               187
D40V6, multiclass
                   clus
vv                  ARID2 MUTATED ARID2 WILD-TYPE
  ASTROCYTOMA                   7             185
  OLIGOASTROCYTOMA              1             129
  OLIGODENDROGLIOMA             3             187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ARID2 MUTATED                                  0     1
  ARID2 WILD-TYPE                                1     7
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  ARID2 MUTATED                           0    10
  ARID2 WILD-TYPE                        21   462
D40V7, multiclass
                                  clus
vv                                 ARID2 MUTATED ARID2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        1               7
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                       10             462
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D40V8, binary
                 cls
clus                0   1
  ARID2 MUTATED     0  11
  ARID2 WILD-TYPE  32 435
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ARID2 MUTATED      0   11
  ARID2 WILD-TYPE   32  435
                        clus
vv                       ARID2 MUTATED ARID2 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO            11             435
[1] 2 2
[1] FALSE

Clustering(41) Variable = RBPJ MUTATION ANALYSIS
D41V1, survival
                sevent
clus2              0   1
  RBPJ MUTATED     6   1
  RBPJ WILD-TYPE 384 118
  RBPJ MUTATED RBPJ WILD-TYPE 
             7            502 
  RBPJ MUTATED RBPJ WILD-TYPE 
             1            118 
$`RBPJ MUTATED`
TCGA-DH-A7UR TCGA-DU-6410 TCGA-FG-5964 TCGA-HT-8106 TCGA-HT-A5R9 TCGA-S9-A6WL 
       54.25         7.96        52.21         0.10         0.07        31.10 
TCGA-S9-A7IS 
        7.92 

$`RBPJ WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7US TCGA-DH-A7UT 
       42.05        27.81        17.19        17.19        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6542 
      133.74        19.89        16.83        94.52       114.08         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5965 
       39.48         0.23         0.20        47.77        25.48        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        6.25         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
       26.04         0.13        20.22        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       84.99        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
       36.13        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        43.04        43.20        13.51         0.10         7.89 
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-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  RBPJ MUTATED RBPJ WILD-TYPE 
          0.07           0.03 
  RBPJ MUTATED RBPJ WILD-TYPE 
         54.25         211.17 
  RBPJ MUTATED RBPJ WILD-TYPE 
          7.96          20.76 
[1] "0.1 - 54.2 (8.0)"   "0.0 - 211.2 (20.8)"
[1] "hr=" "1.2"
D41V2, continuous
D41V3, binary
                cls
clus               0   1
  RBPJ MUTATED     3   4
  RBPJ WILD-TYPE 226 279
[1] "tbl2"
                cls
clus             [,1] [,2]
  RBPJ MUTATED      3    4
  RBPJ WILD-TYPE  226  279
        clus
vv       RBPJ MUTATED RBPJ WILD-TYPE
  FEMALE            3            226
  MALE              4            279
[1] 2 2
[1] FALSE
D41V4, binary
                cls
clus               0   1
  RBPJ MUTATED     3   3
  RBPJ WILD-TYPE 183 288
[1] "tbl2"
                cls
clus             [,1] [,2]
  RBPJ MUTATED      3    3
  RBPJ WILD-TYPE  183  288
     clus
vv    RBPJ MUTATED RBPJ WILD-TYPE
  NO             3            183
  YES            3            288
[1] 2 2
[1] FALSE
D41V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  RBPJ MUTATED             3                0                 4
  RBPJ WILD-TYPE         189              130               186
D41V6, multiclass
                   clus
vv                  RBPJ MUTATED RBPJ WILD-TYPE
  ASTROCYTOMA                  3            189
  OLIGOASTROCYTOMA             0            130
  OLIGODENDROGLIOMA            4            186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  RBPJ MUTATED                                  0     0
  RBPJ WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  RBPJ MUTATED                           0     7
  RBPJ WILD-TYPE                        21   465
D41V7, multiclass
                                  clus
vv                                 RBPJ MUTATED RBPJ WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       7            465
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D41V8, binary
                cls
clus               0   1
  RBPJ MUTATED     0   7
  RBPJ WILD-TYPE  32 439
[1] "tbl2"
                cls
clus             [,1] [,2]
  RBPJ MUTATED      0    7
  RBPJ WILD-TYPE   32  439
                        clus
vv                       RBPJ MUTATED RBPJ WILD-TYPE
  HISPANIC OR LATINO                0             32
  NOT HISPANIC OR LATINO            7            439
[1] 2 2
[1] FALSE

Clustering(42) Variable = CUL4B MUTATION ANALYSIS
D42V1, survival
                 sevent
clus2               0   1
  CUL4B MUTATED     9   1
  CUL4B WILD-TYPE 381 118
  CUL4B MUTATED CUL4B WILD-TYPE 
             10             499 
  CUL4B MUTATED CUL4B WILD-TYPE 
              1             118 
$`CUL4B MUTATED`
TCGA-CS-6670 TCGA-DU-6392 TCGA-FG-A4MW TCGA-FG-A87N TCGA-HT-A615 TCGA-HT-A61B 
        6.61       211.17        18.38        18.64        16.93        17.52 
TCGA-QH-A65R TCGA-S9-A6TZ TCGA-S9-A6WM TCGA-S9-A6WN 
       15.16        36.82        19.86        26.47 

$`CUL4B WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
       49.12       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MX TCGA-FG-A4MY 
       22.52        32.61        38.27        10.72        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87Q 
       28.54        10.78        36.66        48.69        20.45         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        5.33         2.70         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
        6.38        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54         6.18        10.55 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X 
       12.76        20.81        20.71        19.00        42.77        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        4.11         5.88         7.63         0.76         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
        4.41         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
        5.03        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       28.14        35.38        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WO 
      135.22        85.55        38.56        84.99        31.10        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  CUL4B MUTATED CUL4B WILD-TYPE 
           6.61            0.03 
  CUL4B MUTATED CUL4B WILD-TYPE 
         211.17          182.33 
  CUL4B MUTATED CUL4B WILD-TYPE 
          18.51           20.81 
[1] "6.6 - 211.2 (18.5)" "0.0 - 182.3 (20.8)"
[1] "hr=" "3.3"
D42V2, continuous
D42V3, binary
                 cls
clus                0   1
  CUL4B MUTATED     7   3
  CUL4B WILD-TYPE 222 280
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CUL4B MUTATED      7    3
  CUL4B WILD-TYPE  222  280
        clus
vv       CUL4B MUTATED CUL4B WILD-TYPE
  FEMALE             7             222
  MALE               3             280
[1] 2 2
[1] FALSE
D42V4, binary
                 cls
clus                0   1
  CUL4B MUTATED     2   8
  CUL4B WILD-TYPE 184 283
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CUL4B MUTATED      2    8
  CUL4B WILD-TYPE  184  283
     clus
vv    CUL4B MUTATED CUL4B WILD-TYPE
  NO              2             184
  YES             8             283
[1] 2 2
[1] FALSE
D42V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  CUL4B MUTATED             6                1                 3
  CUL4B WILD-TYPE         186              129               187
D42V6, multiclass
                   clus
vv                  CUL4B MUTATED CUL4B WILD-TYPE
  ASTROCYTOMA                   6             186
  OLIGOASTROCYTOMA              1             129
  OLIGODENDROGLIOMA             3             187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  CUL4B MUTATED                                  0     1
  CUL4B WILD-TYPE                                1     7
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  CUL4B MUTATED                           0     9
  CUL4B WILD-TYPE                        21   463
D42V7, multiclass
                                  clus
vv                                 CUL4B MUTATED CUL4B WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        1               7
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        9             463
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D42V8, binary
                 cls
clus                0   1
  CUL4B MUTATED     0  10
  CUL4B WILD-TYPE  32 436
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CUL4B MUTATED      0   10
  CUL4B WILD-TYPE   32  436
                        clus
vv                       CUL4B MUTATED CUL4B WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO            10             436
[1] 2 2
[1] FALSE

Clustering(43) Variable = SLC6A3 MUTATION ANALYSIS
D43V1, survival
                  sevent
clus2                0   1
  SLC6A3 MUTATED     7   2
  SLC6A3 WILD-TYPE 383 117
  SLC6A3 MUTATED SLC6A3 WILD-TYPE 
               9              500 
  SLC6A3 MUTATED SLC6A3 WILD-TYPE 
               2              117 
$`SLC6A3 MUTATED`
TCGA-DB-A4XD TCGA-DU-6392 TCGA-DU-6400 TCGA-HT-7471 TCGA-HT-7855 TCGA-HT-7882 
       39.78       211.17         1.22         0.13        19.23         3.72 
TCGA-HT-8105 TCGA-HW-A5KL TCGA-WY-A85E 
        6.25        20.81        20.81 

$`SLC6A3 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        46.72        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
       65.75        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 
        0.33         0.13         3.68         5.33        35.47        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       37.87        33.01        12.23         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 
       56.58        13.45        41.49        45.60        68.32        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54         6.18        10.55        12.76 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23         2.20         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       43.04        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D 
       46.88        37.71 

  SLC6A3 MUTATED SLC6A3 WILD-TYPE 
            0.13             0.03 
  SLC6A3 MUTATED SLC6A3 WILD-TYPE 
          211.17           182.33 
  SLC6A3 MUTATED SLC6A3 WILD-TYPE 
          19.230           20.845 
[1] "0.1 - 211.2 (19.2)" "0.0 - 182.3 (20.8)"
[1] "hr=" "1.4"
D43V2, continuous
D43V3, binary
                  cls
clus                 0   1
  SLC6A3 MUTATED     5   4
  SLC6A3 WILD-TYPE 224 279
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SLC6A3 MUTATED      5    4
  SLC6A3 WILD-TYPE  224  279
        clus
vv       SLC6A3 MUTATED SLC6A3 WILD-TYPE
  FEMALE              5              224
  MALE                4              279
[1] 2 2
[1] FALSE
D43V4, binary
                  cls
clus                 0   1
  SLC6A3 MUTATED     3   5
  SLC6A3 WILD-TYPE 183 286
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SLC6A3 MUTATED      3    5
  SLC6A3 WILD-TYPE  183  286
     clus
vv    SLC6A3 MUTATED SLC6A3 WILD-TYPE
  NO               3              183
  YES              5              286
[1] 2 2
[1] FALSE
D43V5, continuous
[1] "Remove cluster labels:" "SLC6A3 MUTATED"        
clus
  SLC6A3 MUTATED SLC6A3 WILD-TYPE 
               2              304 
      TCGA-CS-4938       TCGA-CS-4941       TCGA-CS-4942       TCGA-CS-4943 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-CS-4944       TCGA-CS-5390       TCGA-CS-5393       TCGA-CS-5395 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-CS-5396       TCGA-CS-5397       TCGA-CS-6186       TCGA-CS-6188 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-CS-6290       TCGA-CS-6665       TCGA-CS-6666       TCGA-CS-6667 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-CS-6668       TCGA-CS-6669       TCGA-DB-5274       TCGA-DB-A4XE 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DB-A64L       TCGA-DB-A64Q       TCGA-DB-A64R       TCGA-DB-A64S 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DB-A64U       TCGA-DB-A64V       TCGA-DB-A64W       TCGA-DB-A64X 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DB-A75L       TCGA-DB-A75O       TCGA-DH-5140       TCGA-DH-5142 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DH-5143       TCGA-DH-5144       TCGA-DH-A66B       TCGA-DH-A66D 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DH-A66F       TCGA-DH-A66G       TCGA-DH-A7UR       TCGA-DH-A7UU 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DH-A7UV       TCGA-DU-5851       TCGA-DU-5852       TCGA-DU-5853 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-5854       TCGA-DU-5855       TCGA-DU-5870       TCGA-DU-5871 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-5874       TCGA-DU-6396       TCGA-DU-6401       TCGA-DU-6403 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-6404       TCGA-DU-6405       TCGA-DU-6407       TCGA-DU-6408 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-6410       TCGA-DU-7009       TCGA-DU-7011       TCGA-DU-7013 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-7015       TCGA-DU-7018       TCGA-DU-7019       TCGA-DU-7294 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-7298       TCGA-DU-7299       TCGA-DU-7300       TCGA-DU-7301 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-7302       TCGA-DU-7304       TCGA-DU-7306       TCGA-DU-7309 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-8158       TCGA-DU-8161       TCGA-DU-8162       TCGA-DU-8163 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-8165       TCGA-DU-8167       TCGA-DU-8168       TCGA-DU-A5TP 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-A5TR       TCGA-DU-A5TS       TCGA-DU-A5TU       TCGA-DU-A5TW 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-A6S2       TCGA-DU-A6S6       TCGA-DU-A6S7       TCGA-DU-A6S8 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-A76R       TCGA-DU-A7T6       TCGA-DU-A7T8       TCGA-DU-A7TA 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-DU-A7TB       TCGA-DU-A7TC       TCGA-DU-A7TD       TCGA-DU-A7TG 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-E1-5302       TCGA-E1-5303       TCGA-E1-5304       TCGA-E1-5305 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-E1-5307       TCGA-E1-5311       TCGA-E1-5318       TCGA-E1-5319 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-E1-5322       TCGA-E1-A7YE       TCGA-E1-A7YH       TCGA-E1-A7YI 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-E1-A7YJ       TCGA-E1-A7YK       TCGA-E1-A7YL       TCGA-E1-A7YM 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-E1-A7YN       TCGA-E1-A7YO       TCGA-E1-A7YQ       TCGA-E1-A7YS 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-E1-A7YV       TCGA-E1-A7YW       TCGA-E1-A7YY       TCGA-E1-A7Z2 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-E1-A7Z4       TCGA-E1-A7Z6       TCGA-FG-5963       TCGA-FG-5965 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-FG-6688       TCGA-FG-6689       TCGA-FG-6690       TCGA-FG-6691 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-FG-7636       TCGA-FG-7638       TCGA-FG-8181       TCGA-FG-8185 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-FG-8186       TCGA-FG-8187       TCGA-FG-8188       TCGA-FG-8189 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-FG-A4MT       TCGA-FG-A4MW       TCGA-FG-A4MX       TCGA-FG-A60J 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-FG-A60L       TCGA-FG-A6J1       TCGA-FG-A6J3       TCGA-FG-A711 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-FG-A713       TCGA-FG-A87Q       TCGA-HT-7468       TCGA-HT-7470 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-HT-7475       TCGA-HT-7477       TCGA-HT-7481       TCGA-HT-7482 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-HT-7485       TCGA-HT-7607       TCGA-HT-7609       TCGA-HT-7611 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-HT-7686       TCGA-HT-7689       TCGA-HT-7692       TCGA-HT-7693 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-HT-7694       TCGA-HT-7854       TCGA-HT-7856       TCGA-HT-7858 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-HT-7875       TCGA-HT-7884       TCGA-HT-8013       TCGA-HT-8113 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-HT-8564       TCGA-HT-A4DV       TCGA-HT-A5R7       TCGA-HT-A5RA 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-HT-A5RC       TCGA-HT-A615       TCGA-HT-A617       TCGA-HT-A618 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-HT-A61A       TCGA-HT-A61B       TCGA-HT-A61C       TCGA-HT-A74L 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-IK-7675       TCGA-KT-A74X       TCGA-KT-A7W1       TCGA-P5-A5EU 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-P5-A5EV       TCGA-P5-A5EW       TCGA-P5-A5EX       TCGA-P5-A5F0 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-P5-A5F2       TCGA-P5-A5F4       TCGA-P5-A5F6       TCGA-P5-A731 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-QH-A65R       TCGA-QH-A65S       TCGA-QH-A65V       TCGA-QH-A65X 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-QH-A65Z       TCGA-QH-A6CS       TCGA-QH-A6CU       TCGA-QH-A6CV 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-QH-A6CW       TCGA-QH-A6CX       TCGA-QH-A6CY       TCGA-QH-A6CZ 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-QH-A6X3       TCGA-QH-A6X4       TCGA-QH-A6X5       TCGA-QH-A6X8 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-QH-A6X9       TCGA-QH-A6XA       TCGA-QH-A6XC       TCGA-QH-A86X 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-QH-A870       TCGA-RY-A83Y       TCGA-RY-A840       TCGA-RY-A845 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-RY-A847       TCGA-S9-A6TS       TCGA-S9-A6TU       TCGA-S9-A6TV 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A6TW       TCGA-S9-A6TX       TCGA-S9-A6TY       TCGA-S9-A6TZ 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A6U0       TCGA-S9-A6U1       TCGA-S9-A6U2       TCGA-S9-A6U5 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A6U6       TCGA-S9-A6U8       TCGA-S9-A6UA       TCGA-S9-A6UB 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A6WD       TCGA-S9-A6WE       TCGA-S9-A6WG       TCGA-S9-A6WH 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A6WI       TCGA-S9-A6WL       TCGA-S9-A6WM       TCGA-S9-A6WN 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A6WO       TCGA-S9-A6WP       TCGA-S9-A6WQ       TCGA-S9-A7IQ 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A7IS       TCGA-S9-A7IX       TCGA-S9-A7IY       TCGA-S9-A7IZ 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A7J0       TCGA-S9-A7J1       TCGA-S9-A7J2       TCGA-S9-A7J3 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A7QW       TCGA-S9-A7QX       TCGA-S9-A7QY       TCGA-S9-A7QZ 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A7R1       TCGA-S9-A7R2       TCGA-S9-A7R3       TCGA-S9-A7R4 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-S9-A7R7       TCGA-S9-A7R8       TCGA-S9-A89V       TCGA-S9-A89Z 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-TM-A7C3       TCGA-TM-A7C4       TCGA-TM-A7C5       TCGA-TM-A7CA 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-TM-A7CF       TCGA-TM-A84B       TCGA-TM-A84C       TCGA-TM-A84F 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-TM-A84G       TCGA-TM-A84H       TCGA-TM-A84I       TCGA-TM-A84J 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-TM-A84L       TCGA-TM-A84M       TCGA-TM-A84O       TCGA-TM-A84Q 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-TM-A84R       TCGA-TM-A84S       TCGA-TM-A84T       TCGA-TQ-A7RG 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-TQ-A7RK       TCGA-TQ-A7RM       TCGA-TQ-A7RN       TCGA-TQ-A7RO 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-TQ-A7RP       TCGA-TQ-A7RQ       TCGA-TQ-A7RR       TCGA-TQ-A7RS 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-TQ-A7RU       TCGA-TQ-A7RV       TCGA-TQ-A7RW       TCGA-TQ-A8XE 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-VM-A8C8       TCGA-VM-A8CA       TCGA-VM-A8CD       TCGA-VM-A8CE 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
      TCGA-VM-A8CF       TCGA-VM-A8CH       TCGA-WY-A858       TCGA-WY-A859 
"SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" "SLC6A3 WILD-TYPE" 
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  SLC6A3 MUTATED             4                1                 4
  SLC6A3 WILD-TYPE         188              129               186
D43V6, multiclass
                   clus
vv                  SLC6A3 MUTATED SLC6A3 WILD-TYPE
  ASTROCYTOMA                    4              188
  OLIGOASTROCYTOMA               1              129
  OLIGODENDROGLIOMA              4              186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SLC6A3 MUTATED                                  0     0
  SLC6A3 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  SLC6A3 MUTATED                           0     9
  SLC6A3 WILD-TYPE                        21   463
D43V7, multiclass
                                  clus
vv                                 SLC6A3 MUTATED SLC6A3 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                         9              463
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D43V8, binary
                  cls
clus                 0   1
  SLC6A3 MUTATED     1   6
  SLC6A3 WILD-TYPE  31 440
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SLC6A3 MUTATED      1    6
  SLC6A3 WILD-TYPE   31  440
                        clus
vv                       SLC6A3 MUTATED SLC6A3 WILD-TYPE
  HISPANIC OR LATINO                  1               31
  NOT HISPANIC OR LATINO              6              440
[1] 2 2
[1] FALSE

Clustering(44) Variable = SETD2 MUTATION ANALYSIS
D44V1, survival
                 sevent
clus2               0   1
  SETD2 MUTATED     6   4
  SETD2 WILD-TYPE 384 115
  SETD2 MUTATED SETD2 WILD-TYPE 
             10             499 
  SETD2 MUTATED SETD2 WILD-TYPE 
              4             115 
$`SETD2 MUTATED`
TCGA-DH-5140 TCGA-DH-A669 TCGA-DU-6392 TCGA-DU-8164 TCGA-E1-A7YK TCGA-E1-A7YM 
       19.96        30.21       211.17        21.40        12.43        21.30 
TCGA-FG-6688 TCGA-FG-A6J3 TCGA-HT-7684 TCGA-HT-A74H 
       18.77        22.26         6.05         2.43 

$`SETD2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66B TCGA-DH-A66D 
       31.82        63.88        46.06         8.02        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       20.68        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       26.76        17.16        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 
       51.52        37.38         7.50        44.42         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       19.46        16.18        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       25.48        52.21        36.82        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       16.44        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
        0.76        44.68        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74J 
       16.83        21.40         6.38        17.52        17.65        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  SETD2 MUTATED SETD2 WILD-TYPE 
           2.43            0.03 
  SETD2 MUTATED SETD2 WILD-TYPE 
         211.17          182.33 
  SETD2 MUTATED SETD2 WILD-TYPE 
          20.63           20.71 
[1] "2.4 - 211.2 (20.6)" "0.0 - 182.3 (20.7)"
[1] "hr=" "1.4"
D44V2, continuous
D44V3, binary
                 cls
clus                0   1
  SETD2 MUTATED     4   6
  SETD2 WILD-TYPE 225 277
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SETD2 MUTATED      4    6
  SETD2 WILD-TYPE  225  277
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  FEMALE             4             225
  MALE               6             277
[1] 2 2
[1] FALSE
D44V4, binary
                 cls
clus                0   1
  SETD2 MUTATED     3   7
  SETD2 WILD-TYPE 183 284
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SETD2 MUTATED      3    7
  SETD2 WILD-TYPE  183  284
     clus
vv    SETD2 MUTATED SETD2 WILD-TYPE
  NO              3             183
  YES             7             284
[1] 2 2
[1] FALSE
D44V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  SETD2 MUTATED             6                2                 2
  SETD2 WILD-TYPE         186              128               188
D44V6, multiclass
                   clus
vv                  SETD2 MUTATED SETD2 WILD-TYPE
  ASTROCYTOMA                   6             186
  OLIGOASTROCYTOMA              2             128
  OLIGODENDROGLIOMA             2             188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SETD2 MUTATED                                  0     0
  SETD2 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  SETD2 MUTATED                           1     9
  SETD2 WILD-TYPE                        20   463
D44V7, multiclass
                                  clus
vv                                 SETD2 MUTATED SETD2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    1              20
  WHITE                                        9             463
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D44V8, binary
                 cls
clus                0   1
  SETD2 MUTATED     0  10
  SETD2 WILD-TYPE  32 436
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SETD2 MUTATED      0   10
  SETD2 WILD-TYPE   32  436
                        clus
vv                       SETD2 MUTATED SETD2 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO            10             436
[1] 2 2
[1] FALSE

Clustering(45) Variable = KRT3 MUTATION ANALYSIS
D45V1, survival
                sevent
clus2              0   1
  KRT3 MUTATED     2   2
  KRT3 WILD-TYPE 388 117
  KRT3 MUTATED KRT3 WILD-TYPE 
             4            505 
  KRT3 MUTATED KRT3 WILD-TYPE 
             2            117 
$`KRT3 MUTATED`
TCGA-DU-5854 TCGA-DU-6397 TCGA-IK-7675 TCGA-S9-A6WO 
        8.45        46.06        19.00        18.61 

$`KRT3 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
        6.74        13.38         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  KRT3 MUTATED KRT3 WILD-TYPE 
          8.45           0.03 
  KRT3 MUTATED KRT3 WILD-TYPE 
         46.06         211.17 
  KRT3 MUTATED KRT3 WILD-TYPE 
        18.805         20.810 
[1] "8.4 - 46.1 (18.8)"  "0.0 - 211.2 (20.8)"
[1] "hr=" "3.2"
D45V2, continuous
D45V3, binary
                cls
clus               0   1
  KRT3 MUTATED     1   3
  KRT3 WILD-TYPE 228 280
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRT3 MUTATED      1    3
  KRT3 WILD-TYPE  228  280
        clus
vv       KRT3 MUTATED KRT3 WILD-TYPE
  FEMALE            1            228
  MALE              3            280
[1] 2 2
[1] FALSE
D45V4, binary
                cls
clus               0   1
  KRT3 MUTATED     1   3
  KRT3 WILD-TYPE 185 288
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRT3 MUTATED      1    3
  KRT3 WILD-TYPE  185  288
     clus
vv    KRT3 MUTATED KRT3 WILD-TYPE
  NO             1            185
  YES            3            288
[1] 2 2
[1] FALSE
D45V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  KRT3 MUTATED             2                0                 2
  KRT3 WILD-TYPE         190              130               188
D45V6, multiclass
                   clus
vv                  KRT3 MUTATED KRT3 WILD-TYPE
  ASTROCYTOMA                  2            190
  OLIGOASTROCYTOMA             0            130
  OLIGODENDROGLIOMA            2            188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  KRT3 MUTATED                                  0     0
  KRT3 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  KRT3 MUTATED                           0     4
  KRT3 WILD-TYPE                        21   468
D45V7, multiclass
                                  clus
vv                                 KRT3 MUTATED KRT3 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       4            468
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D45V8, binary
                cls
clus               0   1
  KRT3 MUTATED     1   3
  KRT3 WILD-TYPE  31 443
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRT3 MUTATED      1    3
  KRT3 WILD-TYPE   31  443
                        clus
vv                       KRT3 MUTATED KRT3 WILD-TYPE
  HISPANIC OR LATINO                1             31
  NOT HISPANIC OR LATINO            3            443
[1] 2 2
[1] FALSE

Clustering(46) Variable = MYT1 MUTATION ANALYSIS
D46V1, survival
                sevent
clus2              0   1
  MYT1 MUTATED     4   2
  MYT1 WILD-TYPE 386 117
  MYT1 MUTATED MYT1 WILD-TYPE 
             6            503 
  MYT1 MUTATED MYT1 WILD-TYPE 
             2            117 
$`MYT1 MUTATED`
TCGA-DU-6392 TCGA-DU-7299 TCGA-HT-8018 TCGA-S9-A7R7 TCGA-TM-A84F TCGA-TM-A84H 
      211.17        44.02        37.87        98.63        59.05        30.44 

$`MYT1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7300 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8019 TCGA-HT-8104 
       16.24         9.40        63.55         0.10        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       99.06        30.05        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84G TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       40.64        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        43.04        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  MYT1 MUTATED MYT1 WILD-TYPE 
         30.44           0.03 
  MYT1 MUTATED MYT1 WILD-TYPE 
        211.17         182.33 
  MYT1 MUTATED MYT1 WILD-TYPE 
        51.535         20.610 
[1] "30.4 - 211.2 (51.5)" "0.0 - 182.3 (20.6)" 
[1] "hr=" "2.2"
D46V2, continuous
D46V3, binary
                cls
clus               0   1
  MYT1 MUTATED     3   3
  MYT1 WILD-TYPE 226 280
[1] "tbl2"
                cls
clus             [,1] [,2]
  MYT1 MUTATED      3    3
  MYT1 WILD-TYPE  226  280
        clus
vv       MYT1 MUTATED MYT1 WILD-TYPE
  FEMALE            3            226
  MALE              3            280
[1] 2 2
[1] FALSE
D46V4, binary
                cls
clus               0   1
  MYT1 MUTATED     0   6
  MYT1 WILD-TYPE 186 285
[1] "tbl2"
                cls
clus             [,1] [,2]
  MYT1 MUTATED      0    6
  MYT1 WILD-TYPE  186  285
     clus
vv    MYT1 MUTATED MYT1 WILD-TYPE
  NO             0            186
  YES            6            285
[1] 2 2
[1] FALSE
D46V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  MYT1 MUTATED             4                2                 0
  MYT1 WILD-TYPE         188              128               190
D46V6, multiclass
                   clus
vv                  MYT1 MUTATED MYT1 WILD-TYPE
  ASTROCYTOMA                  4            188
  OLIGOASTROCYTOMA             2            128
  OLIGODENDROGLIOMA            0            190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  MYT1 MUTATED                                  0     0
  MYT1 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  MYT1 MUTATED                           0     6
  MYT1 WILD-TYPE                        21   466
D46V7, multiclass
                                  clus
vv                                 MYT1 MUTATED MYT1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       6            466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D46V8, binary
                cls
clus               0   1
  MYT1 MUTATED     0   6
  MYT1 WILD-TYPE  32 440
[1] "tbl2"
                cls
clus             [,1] [,2]
  MYT1 MUTATED      0    6
  MYT1 WILD-TYPE   32  440
                        clus
vv                       MYT1 MUTATED MYT1 WILD-TYPE
  HISPANIC OR LATINO                0             32
  NOT HISPANIC OR LATINO            6            440
[1] 2 2
[1] FALSE

Clustering(47) Variable = SMOC1 MUTATION ANALYSIS
D47V1, survival
                 sevent
clus2               0   1
  SMOC1 MUTATED     3   0
  SMOC1 WILD-TYPE 387 119
  SMOC1 MUTATED SMOC1 WILD-TYPE 
              3             506 
  SMOC1 MUTATED SMOC1 WILD-TYPE 
              0             119 
$`SMOC1 MUTATED`
TCGA-CS-4944 TCGA-HT-7475 TCGA-WY-A858 
       10.62        17.42        43.96 

$`SMOC1 WILD-TYPE`
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-5390 TCGA-CS-5393 
        4.70         7.69        43.89        18.15        64.64        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.10        21.01         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23         2.20         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       43.04        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       51.06        13.32        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  SMOC1 MUTATED SMOC1 WILD-TYPE 
          10.62            0.03 
  SMOC1 MUTATED SMOC1 WILD-TYPE 
          43.96          211.17 
  SMOC1 MUTATED SMOC1 WILD-TYPE 
          17.42           20.76 
[1] "10.6 - 44.0 (17.4)" "0.0 - 211.2 (20.8)"
[1] "hr="     "3300000"
D47V2, continuous
D47V3, binary
                 cls
clus                0   1
  SMOC1 MUTATED     1   2
  SMOC1 WILD-TYPE 228 281
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SMOC1 MUTATED      1    2
  SMOC1 WILD-TYPE  228  281
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  FEMALE             1             228
  MALE               2             281
[1] 2 2
[1] FALSE
D47V4, binary
                 cls
clus                0   1
  SMOC1 MUTATED     0   2
  SMOC1 WILD-TYPE 186 289
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SMOC1 MUTATED      0    2
  SMOC1 WILD-TYPE  186  289
     clus
vv    SMOC1 MUTATED SMOC1 WILD-TYPE
  NO              0             186
  YES             2             289
[1] 2 2
[1] FALSE
D47V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  SMOC1 MUTATED             2                1                 0
  SMOC1 WILD-TYPE         190              129               190
D47V6, multiclass
                   clus
vv                  SMOC1 MUTATED SMOC1 WILD-TYPE
  ASTROCYTOMA                   2             190
  OLIGOASTROCYTOMA              1             129
  OLIGODENDROGLIOMA             0             190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SMOC1 MUTATED                                  0     0
  SMOC1 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  SMOC1 MUTATED                           0     3
  SMOC1 WILD-TYPE                        21   469
D47V7, multiclass
                                  clus
vv                                 SMOC1 MUTATED SMOC1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        3             469
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D47V8, binary
                 cls
clus                0   1
  SMOC1 MUTATED     0   1
  SMOC1 WILD-TYPE  32 445
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SMOC1 MUTATED      0    1
  SMOC1 WILD-TYPE   32  445
                        clus
vv                       SMOC1 MUTATED SMOC1 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO             1             445
[1] 2 2
[1] FALSE

Clustering(48) Variable = ZBTB20 MUTATION ANALYSIS
D48V1, survival
                  sevent
clus2                0   1
  ZBTB20 MUTATED    17   3
  ZBTB20 WILD-TYPE 373 116
  ZBTB20 MUTATED ZBTB20 WILD-TYPE 
              20              489 
  ZBTB20 MUTATED ZBTB20 WILD-TYPE 
               3              116 
$`ZBTB20 MUTATED`
TCGA-DB-A4XH TCGA-DB-A64V TCGA-DB-A64W TCGA-DH-A7US TCGA-DU-5849 TCGA-DU-6392 
       31.63        29.23        14.40        23.21        14.56       211.17 
TCGA-DU-6408 TCGA-E1-A7YS TCGA-FG-8187 TCGA-FG-A6J1 TCGA-HT-7605 TCGA-HT-7608 
      114.08        15.32        20.09        16.44         4.57        22.06 
TCGA-HT-7881 TCGA-HT-8563 TCGA-HT-8564 TCGA-HW-A5KJ TCGA-QH-A65R TCGA-RY-A847 
       35.47        28.27        15.72        10.55        15.16        30.67 
TCGA-S9-A6WL TCGA-TQ-A7RV 
       31.10        61.41 

$`ZBTB20 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       33.57        72.95        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       31.40        27.45        27.81        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 
       17.88        30.74        16.18        19.96        31.82        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F 
       46.06         8.02        30.21        42.05        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       17.19        54.25        17.46        13.71        18.61        18.02 
TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 
       17.46         6.74        13.38         8.45         6.81       182.33 
TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       18.94        17.49        15.16        52.11        22.42        49.02 
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-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-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU TCGA-E1-A7YV 
       21.30        23.90        75.02        51.88         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        17.82        21.53        15.02        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7606 
        4.01         5.03        29.85        23.18       122.47        17.29 
TCGA-HT-7607 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
        3.16        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        0.13         3.68         5.33         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       42.54         6.18        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        3.45         2.37         4.41         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
       28.08         2.07        19.59        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        28.14        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-TQ-A8XE 
       30.05        26.14        25.87        33.93        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       43.04        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       46.88        37.71        20.81 

  ZBTB20 MUTATED ZBTB20 WILD-TYPE 
            4.57             0.03 
  ZBTB20 MUTATED ZBTB20 WILD-TYPE 
          211.17           182.33 
  ZBTB20 MUTATED ZBTB20 WILD-TYPE 
          22.635           20.680 
[1] "4.6 - 211.2 (22.6)" "0.0 - 182.3 (20.7)"
[1] "hr=" "2"  
D48V2, continuous
D48V3, binary
                  cls
clus                 0   1
  ZBTB20 MUTATED     7  14
  ZBTB20 WILD-TYPE 222 269
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZBTB20 MUTATED      7   14
  ZBTB20 WILD-TYPE  222  269
        clus
vv       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  FEMALE              7              222
  MALE               14              269
[1] 2 2
[1] FALSE
D48V4, binary
                  cls
clus                 0   1
  ZBTB20 MUTATED    11   9
  ZBTB20 WILD-TYPE 175 282
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZBTB20 MUTATED     11    9
  ZBTB20 WILD-TYPE  175  282
     clus
vv    ZBTB20 MUTATED ZBTB20 WILD-TYPE
  NO              11              175
  YES              9              282
[1] 2 2
[1] FALSE
D48V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ZBTB20 MUTATED             5                4                12
  ZBTB20 WILD-TYPE         187              126               178
D48V6, multiclass
                   clus
vv                  ZBTB20 MUTATED ZBTB20 WILD-TYPE
  ASTROCYTOMA                    5              187
  OLIGOASTROCYTOMA               4              126
  OLIGODENDROGLIOMA             12              178
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ZBTB20 MUTATED                                  0     0
  ZBTB20 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  ZBTB20 MUTATED                           3    18
  ZBTB20 WILD-TYPE                        18   454
D48V7, multiclass
                                  clus
vv                                 ZBTB20 MUTATED ZBTB20 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     3               18
  WHITE                                        18              454
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D48V8, binary
                  cls
clus                 0   1
  ZBTB20 MUTATED     2  18
  ZBTB20 WILD-TYPE  30 428
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZBTB20 MUTATED      2   18
  ZBTB20 WILD-TYPE   30  428
                        clus
vv                       ZBTB20 MUTATED ZBTB20 WILD-TYPE
  HISPANIC OR LATINO                  2               30
  NOT HISPANIC OR LATINO             18              428
[1] 2 2
[1] FALSE

Clustering(49) Variable = PPL MUTATION ANALYSIS
D49V1, survival
               sevent
clus2             0   1
  PPL MUTATED     6   0
  PPL WILD-TYPE 384 119
  PPL MUTATED PPL WILD-TYPE 
            6           503 
  PPL MUTATED PPL WILD-TYPE 
            0           119 
$`PPL MUTATED`
TCGA-DH-A66B TCGA-DU-6392 TCGA-HT-A615 TCGA-R8-A6MK TCGA-TQ-A7RV TCGA-VM-A8C8 
       42.05       211.17        16.93        88.83        61.41        43.04 

$`PPL WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A616 TCGA-HT-A617 
       27.35         0.10         5.33         2.70         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        94.03        32.65        59.38        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       33.93        26.99        31.36        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  PPL MUTATED PPL WILD-TYPE 
        16.93          0.03 
  PPL MUTATED PPL WILD-TYPE 
       211.17        182.33 
  PPL MUTATED PPL WILD-TYPE 
       52.225        20.680 
[1] "16.9 - 211.2 (52.2)" "0.0 - 182.3 (20.7)" 
[1] "hr="     "2.7e+07"
D49V2, continuous
D49V3, binary
               cls
clus              0   1
  PPL MUTATED     3   3
  PPL WILD-TYPE 226 280
[1] "tbl2"
               cls
clus            [,1] [,2]
  PPL MUTATED      3    3
  PPL WILD-TYPE  226  280
        clus
vv       PPL MUTATED PPL WILD-TYPE
  FEMALE           3           226
  MALE             3           280
[1] 2 2
[1] FALSE
D49V4, binary
               cls
clus              0   1
  PPL MUTATED     2   4
  PPL WILD-TYPE 184 287
[1] "tbl2"
               cls
clus            [,1] [,2]
  PPL MUTATED      2    4
  PPL WILD-TYPE  184  287
     clus
vv    PPL MUTATED PPL WILD-TYPE
  NO            2           184
  YES           4           287
[1] 2 2
[1] FALSE
D49V5, continuous
               vv
clus            ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  PPL MUTATED             3                0                 3
  PPL WILD-TYPE         189              130               187
D49V6, multiclass
                   clus
vv                  PPL MUTATED PPL WILD-TYPE
  ASTROCYTOMA                 3           189
  OLIGOASTROCYTOMA            0           130
  OLIGODENDROGLIOMA           3           187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PPL MUTATED                                  0     0
  PPL WILD-TYPE                                1     8
               vv
clus            BLACK OR AFRICAN AMERICAN WHITE
  PPL MUTATED                           0     6
  PPL WILD-TYPE                        21   466
D49V7, multiclass
                                  clus
vv                                 PPL MUTATED PPL WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE           0             1
  ASIAN                                      0             8
  BLACK OR AFRICAN AMERICAN                  0            21
  WHITE                                      6           466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D49V8, binary
               cls
clus              0   1
  PPL MUTATED     1   4
  PPL WILD-TYPE  31 442
[1] "tbl2"
               cls
clus            [,1] [,2]
  PPL MUTATED      1    4
  PPL WILD-TYPE   31  442
                        clus
vv                       PPL MUTATED PPL WILD-TYPE
  HISPANIC OR LATINO               1            31
  NOT HISPANIC OR LATINO           4           442
[1] 2 2
[1] FALSE

Clustering(50) Variable = PTPN11 MUTATION ANALYSIS
D50V1, survival
                  sevent
clus2                0   1
  PTPN11 MUTATED     5   2
  PTPN11 WILD-TYPE 385 117
  PTPN11 MUTATED PTPN11 WILD-TYPE 
               7              502 
  PTPN11 MUTATED PTPN11 WILD-TYPE 
               2              117 
$`PTPN11 MUTATED`
TCGA-CS-5395 TCGA-FG-7641 TCGA-HT-7854 TCGA-HT-7857 TCGA-HT-7860 TCGA-VM-A8C8 
       21.01        20.61        39.48         0.23         0.49        43.04 
TCGA-VW-A8FI 
        8.05 

$`PTPN11 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
       40.18         0.10         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7643 
       18.44        15.35        17.88        40.08        22.55        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7874 
       14.53        19.23        39.09        50.63        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       34.19        13.74        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       61.41        26.99        31.36        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
       23.21        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  PTPN11 MUTATED PTPN11 WILD-TYPE 
            0.23             0.03 
  PTPN11 MUTATED PTPN11 WILD-TYPE 
           43.04           211.17 
  PTPN11 MUTATED PTPN11 WILD-TYPE 
           20.61            20.76 
[1] "0.2 - 43.0 (20.6)"  "0.0 - 211.2 (20.8)"
[1] "hr=" "2.2"
D50V2, continuous
D50V3, binary
                  cls
clus                 0   1
  PTPN11 MUTATED     3   4
  PTPN11 WILD-TYPE 226 279
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PTPN11 MUTATED      3    4
  PTPN11 WILD-TYPE  226  279
        clus
vv       PTPN11 MUTATED PTPN11 WILD-TYPE
  FEMALE              3              226
  MALE                4              279
[1] 2 2
[1] FALSE
D50V4, binary
                  cls
clus                 0   1
  PTPN11 MUTATED     2   4
  PTPN11 WILD-TYPE 184 287
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PTPN11 MUTATED      2    4
  PTPN11 WILD-TYPE  184  287
     clus
vv    PTPN11 MUTATED PTPN11 WILD-TYPE
  NO               2              184
  YES              4              287
[1] 2 2
[1] FALSE
D50V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  PTPN11 MUTATED             4                0                 3
  PTPN11 WILD-TYPE         188              130               187
D50V6, multiclass
                   clus
vv                  PTPN11 MUTATED PTPN11 WILD-TYPE
  ASTROCYTOMA                    4              188
  OLIGOASTROCYTOMA               0              130
  OLIGODENDROGLIOMA              3              187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PTPN11 MUTATED                                  0     0
  PTPN11 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  PTPN11 MUTATED                           1     6
  PTPN11 WILD-TYPE                        20   466
D50V7, multiclass
                                  clus
vv                                 PTPN11 MUTATED PTPN11 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     1               20
  WHITE                                         6              466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D50V8, binary
                  cls
clus                 0   1
  PTPN11 MUTATED     0   5
  PTPN11 WILD-TYPE  32 441
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PTPN11 MUTATED      0    5
  PTPN11 WILD-TYPE   32  441
                        clus
vv                       PTPN11 MUTATED PTPN11 WILD-TYPE
  HISPANIC OR LATINO                  0               32
  NOT HISPANIC OR LATINO              5              441
[1] 2 2
[1] FALSE

Clustering(51) Variable = RET MUTATION ANALYSIS
D51V1, survival
               sevent
clus2             0   1
  RET MUTATED     5   2
  RET WILD-TYPE 385 117
  RET MUTATED RET WILD-TYPE 
            7           502 
  RET MUTATED RET WILD-TYPE 
            2           117 
$`RET MUTATED`
TCGA-DU-5852 TCGA-DU-6392 TCGA-DU-7290 TCGA-DU-A6S7 TCGA-P5-A77X TCGA-S9-A6WL 
        6.74       211.17        10.36        20.98         3.45        31.10 
TCGA-TM-A7CA 
       34.78 

$`RET WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7292 
        6.54         8.84        90.77        30.67        26.30         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76K 
       33.96        25.55        21.57        95.11        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       26.76        17.16        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 
       51.52        37.38         7.50        44.42         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
       19.46        12.43        16.18        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       17.82        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       84.99        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        43.04        43.20        13.51         0.10         7.89 
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-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  RET MUTATED RET WILD-TYPE 
         3.45          0.03 
  RET MUTATED RET WILD-TYPE 
       211.17        182.33 
  RET MUTATED RET WILD-TYPE 
       20.980        20.695 
[1] "3.5 - 211.2 (21.0)" "0.0 - 182.3 (20.7)"
[1] "hr=" "1.4"
D51V2, continuous
D51V3, binary
               cls
clus              0   1
  RET MUTATED     5   2
  RET WILD-TYPE 224 281
[1] "tbl2"
               cls
clus            [,1] [,2]
  RET MUTATED      5    2
  RET WILD-TYPE  224  281
        clus
vv       RET MUTATED RET WILD-TYPE
  FEMALE           5           224
  MALE             2           281
[1] 2 2
[1] FALSE
D51V4, binary
               cls
clus              0   1
  RET MUTATED     4   3
  RET WILD-TYPE 182 288
[1] "tbl2"
               cls
clus            [,1] [,2]
  RET MUTATED      4    3
  RET WILD-TYPE  182  288
     clus
vv    RET MUTATED RET WILD-TYPE
  NO            4           182
  YES           3           288
[1] 2 2
[1] FALSE
D51V5, continuous
               vv
clus            ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  RET MUTATED             5                2                 0
  RET WILD-TYPE         187              128               190
D51V6, multiclass
                   clus
vv                  RET MUTATED RET WILD-TYPE
  ASTROCYTOMA                 5           187
  OLIGOASTROCYTOMA            2           128
  OLIGODENDROGLIOMA           0           190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  RET MUTATED                                  0     0
  RET WILD-TYPE                                1     8
               vv
clus            BLACK OR AFRICAN AMERICAN WHITE
  RET MUTATED                           0     7
  RET WILD-TYPE                        21   465
D51V7, multiclass
                                  clus
vv                                 RET MUTATED RET WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE           0             1
  ASIAN                                      0             8
  BLACK OR AFRICAN AMERICAN                  0            21
  WHITE                                      7           465
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D51V8, binary
               cls
clus              0   1
  RET MUTATED     0   7
  RET WILD-TYPE  32 439
[1] "tbl2"
               cls
clus            [,1] [,2]
  RET MUTATED      0    7
  RET WILD-TYPE   32  439
                        clus
vv                       RET MUTATED RET WILD-TYPE
  HISPANIC OR LATINO               0            32
  NOT HISPANIC OR LATINO           7           439
[1] 2 2
[1] FALSE

Clustering(52) Variable = ANKRD36 MUTATION ANALYSIS
D52V1, survival
                   sevent
clus2                 0   1
  ANKRD36 MUTATED     3   4
  ANKRD36 WILD-TYPE 387 115
  ANKRD36 MUTATED ANKRD36 WILD-TYPE 
                7               502 
  ANKRD36 MUTATED ANKRD36 WILD-TYPE 
                4               115 
$`ANKRD36 MUTATED`
TCGA-DU-7012 TCGA-DU-A5TS TCGA-E1-5304 TCGA-E1-A7Z6 TCGA-S9-A6TS TCGA-S9-A6U6 
        6.54        31.69        41.13        32.35        62.17        35.15 
TCGA-TM-A84H 
       30.44 

$`ANKRD36 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
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-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
       14.99       105.21         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU 
       15.48        14.17        33.27        29.85        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
        0.56        50.14        67.46        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-EZ-7264 TCGA-F6-A8O3 
      146.14        13.08        73.48       145.05        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       17.82        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TU 
        9.90        28.08         2.07        19.59        30.67        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       25.81        29.85        32.61        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        43.04        43.20        13.51         0.10         7.89 
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-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  ANKRD36 MUTATED ANKRD36 WILD-TYPE 
             6.54              0.03 
  ANKRD36 MUTATED ANKRD36 WILD-TYPE 
            62.17            211.17 
  ANKRD36 MUTATED ANKRD36 WILD-TYPE 
           32.350            20.645 
[1] "6.5 - 62.2 (32.4)"  "0.0 - 211.2 (20.6)"
[1] "hr=" "2.3"
D52V2, continuous
D52V3, binary
                   cls
clus                  0   1
  ANKRD36 MUTATED     4   3
  ANKRD36 WILD-TYPE 225 280
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ANKRD36 MUTATED      4    3
  ANKRD36 WILD-TYPE  225  280
        clus
vv       ANKRD36 MUTATED ANKRD36 WILD-TYPE
  FEMALE               4               225
  MALE                 3               280
[1] 2 2
[1] FALSE
D52V4, binary
                   cls
clus                  0   1
  ANKRD36 MUTATED     0   7
  ANKRD36 WILD-TYPE 186 284
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ANKRD36 MUTATED      0    7
  ANKRD36 WILD-TYPE  186  284
     clus
vv    ANKRD36 MUTATED ANKRD36 WILD-TYPE
  NO                0               186
  YES               7               284
[1] 2 2
[1] FALSE
D52V5, continuous
                   vv
clus                ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ANKRD36 MUTATED             5                1                 1
  ANKRD36 WILD-TYPE         187              129               189
D52V6, multiclass
                   clus
vv                  ANKRD36 MUTATED ANKRD36 WILD-TYPE
  ASTROCYTOMA                     5               187
  OLIGOASTROCYTOMA                1               129
  OLIGODENDROGLIOMA               1               189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ANKRD36 MUTATED                                  0     0
  ANKRD36 WILD-TYPE                                1     8
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  ANKRD36 MUTATED                           2     5
  ANKRD36 WILD-TYPE                        19   467
D52V7, multiclass
                                  clus
vv                                 ANKRD36 MUTATED ANKRD36 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 8
  BLACK OR AFRICAN AMERICAN                      2                19
  WHITE                                          5               467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D52V8, binary
                   cls
clus                  0   1
  ANKRD36 MUTATED     0   7
  ANKRD36 WILD-TYPE  32 439
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ANKRD36 MUTATED      0    7
  ANKRD36 WILD-TYPE   32  439
                        clus
vv                       ANKRD36 MUTATED ANKRD36 WILD-TYPE
  HISPANIC OR LATINO                   0                32
  NOT HISPANIC OR LATINO               7               439
[1] 2 2
[1] FALSE

Clustering(53) Variable = NEU2 MUTATION ANALYSIS
D53V1, survival
                sevent
clus2              0   1
  NEU2 MUTATED     3   2
  NEU2 WILD-TYPE 387 117
  NEU2 MUTATED NEU2 WILD-TYPE 
             5            504 
  NEU2 MUTATED NEU2 WILD-TYPE 
             2            117 
$`NEU2 MUTATED`
TCGA-DU-6399 TCGA-HT-A74H TCGA-HW-8322 TCGA-P5-A733 TCGA-TQ-A8XE 
       65.75         2.43         6.18        13.61        31.36 

$`NEU2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       75.16        46.06         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
       17.65        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       40.01        42.54        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
       10.95         9.01         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       33.93        61.41        26.99        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  NEU2 MUTATED NEU2 WILD-TYPE 
          2.43           0.03 
  NEU2 MUTATED NEU2 WILD-TYPE 
         65.75         211.17 
  NEU2 MUTATED NEU2 WILD-TYPE 
         13.61          20.76 
[1] "2.4 - 65.8 (13.6)"  "0.0 - 211.2 (20.8)"
[1] "hr=" "2.3"
D53V2, continuous
D53V3, binary
                cls
clus               0   1
  NEU2 MUTATED     2   3
  NEU2 WILD-TYPE 227 280
[1] "tbl2"
                cls
clus             [,1] [,2]
  NEU2 MUTATED      2    3
  NEU2 WILD-TYPE  227  280
        clus
vv       NEU2 MUTATED NEU2 WILD-TYPE
  FEMALE            2            227
  MALE              3            280
[1] 2 2
[1] FALSE
D53V4, binary
                cls
clus               0   1
  NEU2 MUTATED     2   3
  NEU2 WILD-TYPE 184 288
[1] "tbl2"
                cls
clus             [,1] [,2]
  NEU2 MUTATED      2    3
  NEU2 WILD-TYPE  184  288
     clus
vv    NEU2 MUTATED NEU2 WILD-TYPE
  NO             2            184
  YES            3            288
[1] 2 2
[1] FALSE
D53V5, continuous
[1] "Remove cluster labels:" "NEU2 MUTATED"          
clus
  NEU2 MUTATED NEU2 WILD-TYPE 
             1            305 
    TCGA-CS-4938     TCGA-CS-4941     TCGA-CS-4942     TCGA-CS-4943 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-CS-4944     TCGA-CS-5390     TCGA-CS-5393     TCGA-CS-5395 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-CS-5396     TCGA-CS-5397     TCGA-CS-6186     TCGA-CS-6188 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-CS-6290     TCGA-CS-6665     TCGA-CS-6666     TCGA-CS-6667 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-CS-6668     TCGA-CS-6669     TCGA-DB-5274     TCGA-DB-A4XE 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DB-A64L     TCGA-DB-A64Q     TCGA-DB-A64R     TCGA-DB-A64S 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DB-A64U     TCGA-DB-A64V     TCGA-DB-A64W     TCGA-DB-A64X 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DB-A75L     TCGA-DB-A75O     TCGA-DH-5140     TCGA-DH-5142 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DH-5143     TCGA-DH-5144     TCGA-DH-A66B     TCGA-DH-A66D 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DH-A66F     TCGA-DH-A66G     TCGA-DH-A7UR     TCGA-DH-A7UU 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DH-A7UV     TCGA-DU-5851     TCGA-DU-5852     TCGA-DU-5853 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-5854     TCGA-DU-5855     TCGA-DU-5870     TCGA-DU-5871 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-5874     TCGA-DU-6396     TCGA-DU-6401     TCGA-DU-6403 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-6404     TCGA-DU-6405     TCGA-DU-6407     TCGA-DU-6408 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-6410     TCGA-DU-7009     TCGA-DU-7011     TCGA-DU-7013 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-7015     TCGA-DU-7018     TCGA-DU-7019     TCGA-DU-7294 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-7298     TCGA-DU-7299     TCGA-DU-7300     TCGA-DU-7301 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-7302     TCGA-DU-7304     TCGA-DU-7306     TCGA-DU-7309 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-8158     TCGA-DU-8161     TCGA-DU-8162     TCGA-DU-8163 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-8165     TCGA-DU-8167     TCGA-DU-8168     TCGA-DU-A5TP 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-A5TR     TCGA-DU-A5TS     TCGA-DU-A5TU     TCGA-DU-A5TW 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-A6S2     TCGA-DU-A6S6     TCGA-DU-A6S7     TCGA-DU-A6S8 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-A76R     TCGA-DU-A7T6     TCGA-DU-A7T8     TCGA-DU-A7TA 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-DU-A7TB     TCGA-DU-A7TC     TCGA-DU-A7TD     TCGA-DU-A7TG 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-E1-5302     TCGA-E1-5303     TCGA-E1-5304     TCGA-E1-5305 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-E1-5307     TCGA-E1-5311     TCGA-E1-5318     TCGA-E1-5319 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-E1-5322     TCGA-E1-A7YE     TCGA-E1-A7YH     TCGA-E1-A7YI 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-E1-A7YJ     TCGA-E1-A7YK     TCGA-E1-A7YL     TCGA-E1-A7YM 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-E1-A7YN     TCGA-E1-A7YO     TCGA-E1-A7YQ     TCGA-E1-A7YS 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-E1-A7YV     TCGA-E1-A7YW     TCGA-E1-A7YY     TCGA-E1-A7Z2 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-E1-A7Z4     TCGA-E1-A7Z6     TCGA-FG-5963     TCGA-FG-5965 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-FG-6688     TCGA-FG-6689     TCGA-FG-6690     TCGA-FG-6691 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-FG-7636     TCGA-FG-7638     TCGA-FG-8181     TCGA-FG-8185 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-FG-8186     TCGA-FG-8187     TCGA-FG-8188     TCGA-FG-8189 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-FG-A4MT     TCGA-FG-A4MW     TCGA-FG-A4MX     TCGA-FG-A60J 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-FG-A60L     TCGA-FG-A6J1     TCGA-FG-A6J3     TCGA-FG-A711 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-FG-A713     TCGA-FG-A87Q     TCGA-HT-7468     TCGA-HT-7470 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-HT-7475     TCGA-HT-7477     TCGA-HT-7481     TCGA-HT-7482 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-HT-7485     TCGA-HT-7607     TCGA-HT-7609     TCGA-HT-7611 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-HT-7686     TCGA-HT-7689     TCGA-HT-7692     TCGA-HT-7693 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-HT-7694     TCGA-HT-7854     TCGA-HT-7855     TCGA-HT-7856 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-HT-7858     TCGA-HT-7875     TCGA-HT-7884     TCGA-HT-8013 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-HT-8105     TCGA-HT-8113     TCGA-HT-8564     TCGA-HT-A4DV 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-HT-A5R7     TCGA-HT-A5RA     TCGA-HT-A5RC     TCGA-HT-A615 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-HT-A617     TCGA-HT-A618     TCGA-HT-A61A     TCGA-HT-A61B 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-HT-A61C     TCGA-HT-A74L     TCGA-IK-7675     TCGA-KT-A74X 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-KT-A7W1     TCGA-P5-A5EU     TCGA-P5-A5EV     TCGA-P5-A5EW 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-P5-A5EX     TCGA-P5-A5F0     TCGA-P5-A5F2     TCGA-P5-A5F4 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-P5-A5F6     TCGA-P5-A731     TCGA-QH-A65R     TCGA-QH-A65S 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-QH-A65V     TCGA-QH-A65X     TCGA-QH-A65Z     TCGA-QH-A6CS 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-QH-A6CU     TCGA-QH-A6CV     TCGA-QH-A6CW     TCGA-QH-A6CX 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-QH-A6CY     TCGA-QH-A6CZ     TCGA-QH-A6X3     TCGA-QH-A6X4 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-QH-A6X5     TCGA-QH-A6X8     TCGA-QH-A6X9     TCGA-QH-A6XA 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-QH-A6XC     TCGA-QH-A86X     TCGA-QH-A870     TCGA-RY-A83Y 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-RY-A840     TCGA-RY-A845     TCGA-RY-A847     TCGA-S9-A6TS 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A6TU     TCGA-S9-A6TV     TCGA-S9-A6TW     TCGA-S9-A6TX 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A6TY     TCGA-S9-A6TZ     TCGA-S9-A6U0     TCGA-S9-A6U1 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A6U2     TCGA-S9-A6U5     TCGA-S9-A6U6     TCGA-S9-A6U8 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A6UA     TCGA-S9-A6UB     TCGA-S9-A6WD     TCGA-S9-A6WE 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A6WG     TCGA-S9-A6WH     TCGA-S9-A6WI     TCGA-S9-A6WL 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A6WM     TCGA-S9-A6WN     TCGA-S9-A6WO     TCGA-S9-A6WP 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A6WQ     TCGA-S9-A7IQ     TCGA-S9-A7IS     TCGA-S9-A7IX 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A7IY     TCGA-S9-A7IZ     TCGA-S9-A7J0     TCGA-S9-A7J1 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A7J2     TCGA-S9-A7J3     TCGA-S9-A7QW     TCGA-S9-A7QX 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A7QY     TCGA-S9-A7QZ     TCGA-S9-A7R1     TCGA-S9-A7R2 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A7R3     TCGA-S9-A7R4     TCGA-S9-A7R7     TCGA-S9-A7R8 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-S9-A89V     TCGA-S9-A89Z     TCGA-TM-A7C3     TCGA-TM-A7C4 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-TM-A7C5     TCGA-TM-A7CA     TCGA-TM-A7CF     TCGA-TM-A84B 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-TM-A84C     TCGA-TM-A84F     TCGA-TM-A84G     TCGA-TM-A84H 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-TM-A84I     TCGA-TM-A84J     TCGA-TM-A84L     TCGA-TM-A84M 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-TM-A84O     TCGA-TM-A84Q     TCGA-TM-A84R     TCGA-TM-A84S 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-TM-A84T     TCGA-TQ-A7RG     TCGA-TQ-A7RK     TCGA-TQ-A7RM 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-TQ-A7RN     TCGA-TQ-A7RO     TCGA-TQ-A7RP     TCGA-TQ-A7RQ 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-TQ-A7RR     TCGA-TQ-A7RS     TCGA-TQ-A7RU     TCGA-TQ-A7RV 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-TQ-A7RW     TCGA-VM-A8C8     TCGA-VM-A8CA     TCGA-VM-A8CD 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-VM-A8CE     TCGA-VM-A8CF     TCGA-VM-A8CH     TCGA-WY-A858 
"NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" "NEU2 WILD-TYPE" 
    TCGA-WY-A859 
"NEU2 WILD-TYPE" 
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  NEU2 MUTATED             2                0                 3
  NEU2 WILD-TYPE         190              130               187
D53V6, multiclass
                   clus
vv                  NEU2 MUTATED NEU2 WILD-TYPE
  ASTROCYTOMA                  2            190
  OLIGOASTROCYTOMA             0            130
  OLIGODENDROGLIOMA            3            187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NEU2 MUTATED                                  0     0
  NEU2 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  NEU2 MUTATED                           0     5
  NEU2 WILD-TYPE                        21   467
D53V7, multiclass
                                  clus
vv                                 NEU2 MUTATED NEU2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       5            467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D53V8, binary
                cls
clus               0   1
  NEU2 MUTATED     1   4
  NEU2 WILD-TYPE  31 442
[1] "tbl2"
                cls
clus             [,1] [,2]
  NEU2 MUTATED      1    4
  NEU2 WILD-TYPE   31  442
                        clus
vv                       NEU2 MUTATED NEU2 WILD-TYPE
  HISPANIC OR LATINO                1             31
  NOT HISPANIC OR LATINO            4            442
[1] 2 2
[1] FALSE

Clustering(54) Variable = PRX MUTATION ANALYSIS
D54V1, survival
               sevent
clus2             0   1
  PRX MUTATED     6   4
  PRX WILD-TYPE 384 115
  PRX MUTATED PRX WILD-TYPE 
           10           499 
  PRX MUTATED PRX WILD-TYPE 
            4           115 
$`PRX MUTATED`
TCGA-DU-6392 TCGA-DU-7300 TCGA-FG-A4MW TCGA-HT-8018 TCGA-HT-8564 TCGA-HT-A74H 
      211.17        62.01        18.38        37.87        15.72         2.43 
TCGA-P5-A5EX TCGA-S9-A6U0 TCGA-S9-A7J0 TCGA-S9-A7QX 
        7.99        24.39        20.02        18.54 

$`PRX WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MX TCGA-FG-A4MY 
       22.52        32.61        38.27        10.72        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
        9.40        63.55         0.10        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        13.74        28.27         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
        6.38        17.52        17.65        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54         6.18        10.55 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X 
       12.76        20.81        20.71        19.00        42.77        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
       14.40         0.23         6.71         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
        5.03        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       28.14        35.38        36.82        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       26.93        23.51        19.99         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       15.06        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  PRX MUTATED PRX WILD-TYPE 
         2.43          0.03 
  PRX MUTATED PRX WILD-TYPE 
       211.17        182.33 
  PRX MUTATED PRX WILD-TYPE 
        19.28         20.81 
[1] "2.4 - 211.2 (19.3)" "0.0 - 182.3 (20.8)"
[1] "hr=" "1.2"
D54V2, continuous
D54V3, binary
               cls
clus              0   1
  PRX MUTATED     6   4
  PRX WILD-TYPE 223 279
[1] "tbl2"
               cls
clus            [,1] [,2]
  PRX MUTATED      6    4
  PRX WILD-TYPE  223  279
        clus
vv       PRX MUTATED PRX WILD-TYPE
  FEMALE           6           223
  MALE             4           279
[1] 2 2
[1] FALSE
D54V4, binary
               cls
clus              0   1
  PRX MUTATED     2   8
  PRX WILD-TYPE 184 283
[1] "tbl2"
               cls
clus            [,1] [,2]
  PRX MUTATED      2    8
  PRX WILD-TYPE  184  283
     clus
vv    PRX MUTATED PRX WILD-TYPE
  NO            2           184
  YES           8           283
[1] 2 2
[1] FALSE
D54V5, continuous
               vv
clus            ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  PRX MUTATED             5                2                 3
  PRX WILD-TYPE         187              128               187
D54V6, multiclass
                   clus
vv                  PRX MUTATED PRX WILD-TYPE
  ASTROCYTOMA                 5           187
  OLIGOASTROCYTOMA            2           128
  OLIGODENDROGLIOMA           3           187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PRX MUTATED                                  0     0
  PRX WILD-TYPE                                1     8
               vv
clus            BLACK OR AFRICAN AMERICAN WHITE
  PRX MUTATED                           0    10
  PRX WILD-TYPE                        21   462
D54V7, multiclass
                                  clus
vv                                 PRX MUTATED PRX WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE           0             1
  ASIAN                                      0             8
  BLACK OR AFRICAN AMERICAN                  0            21
  WHITE                                     10           462
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D54V8, binary
               cls
clus              0   1
  PRX MUTATED     1   9
  PRX WILD-TYPE  31 437
[1] "tbl2"
               cls
clus            [,1] [,2]
  PRX MUTATED      1    9
  PRX WILD-TYPE   31  437
                        clus
vv                       PRX MUTATED PRX WILD-TYPE
  HISPANIC OR LATINO               1            31
  NOT HISPANIC OR LATINO           9           437
[1] 2 2
[1] FALSE

Clustering(55) Variable = RBBP6 MUTATION ANALYSIS
D55V1, survival
                 sevent
clus2               0   1
  RBBP6 MUTATED     5   1
  RBBP6 WILD-TYPE 385 118
  RBBP6 MUTATED RBBP6 WILD-TYPE 
              6             503 
  RBBP6 MUTATED RBBP6 WILD-TYPE 
              1             118 
$`RBBP6 MUTATED`
TCGA-DU-6392 TCGA-DU-7010 TCGA-QH-A65Z TCGA-R8-A6MK TCGA-R8-A6MO TCGA-S9-A6WP 
      211.17        14.99        14.04        88.83        32.65        18.64 

$`RBBP6 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7011 
        2.40        11.47        62.96       156.23       154.36       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
        2.53        12.62        15.85        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6ML TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       12.99        94.03        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WQ 
       84.99        31.10        19.86        26.47        18.61        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        43.04        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  RBBP6 MUTATED RBBP6 WILD-TYPE 
          14.04            0.03 
  RBBP6 MUTATED RBBP6 WILD-TYPE 
         211.17          182.33 
  RBBP6 MUTATED RBBP6 WILD-TYPE 
         25.645          20.710 
[1] "14.0 - 211.2 (25.6)" "0.0 - 182.3 (20.7)" 
[1] "hr=" "3.4"
D55V2, continuous
D55V3, binary
                 cls
clus                0   1
  RBBP6 MUTATED     3   3
  RBBP6 WILD-TYPE 226 280
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBBP6 MUTATED      3    3
  RBBP6 WILD-TYPE  226  280
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  FEMALE             3             226
  MALE               3             280
[1] 2 2
[1] FALSE
D55V4, binary
                 cls
clus                0   1
  RBBP6 MUTATED     3   3
  RBBP6 WILD-TYPE 183 288
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBBP6 MUTATED      3    3
  RBBP6 WILD-TYPE  183  288
     clus
vv    RBBP6 MUTATED RBBP6 WILD-TYPE
  NO              3             183
  YES             3             288
[1] 2 2
[1] FALSE
D55V5, continuous
[1] "Remove cluster labels:" "RBBP6 MUTATED"         
clus
  RBBP6 MUTATED RBBP6 WILD-TYPE 
              2             304 
     TCGA-CS-4938      TCGA-CS-4941      TCGA-CS-4942      TCGA-CS-4943 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-CS-4944      TCGA-CS-5390      TCGA-CS-5393      TCGA-CS-5395 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-CS-5396      TCGA-CS-5397      TCGA-CS-6186      TCGA-CS-6188 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-CS-6290      TCGA-CS-6665      TCGA-CS-6666      TCGA-CS-6667 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-CS-6668      TCGA-CS-6669      TCGA-DB-5274      TCGA-DB-A4XE 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DB-A64L      TCGA-DB-A64Q      TCGA-DB-A64R      TCGA-DB-A64S 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DB-A64U      TCGA-DB-A64V      TCGA-DB-A64W      TCGA-DB-A64X 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DB-A75L      TCGA-DB-A75O      TCGA-DH-5140      TCGA-DH-5142 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DH-5143      TCGA-DH-5144      TCGA-DH-A66B      TCGA-DH-A66D 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DH-A66F      TCGA-DH-A66G      TCGA-DH-A7UR      TCGA-DH-A7UU 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DH-A7UV      TCGA-DU-5851      TCGA-DU-5852      TCGA-DU-5853 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-5854      TCGA-DU-5855      TCGA-DU-5870      TCGA-DU-5871 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-5874      TCGA-DU-6396      TCGA-DU-6401      TCGA-DU-6403 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-6404      TCGA-DU-6405      TCGA-DU-6407      TCGA-DU-6408 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-6410      TCGA-DU-7009      TCGA-DU-7011      TCGA-DU-7013 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-7015      TCGA-DU-7018      TCGA-DU-7019      TCGA-DU-7294 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-7298      TCGA-DU-7299      TCGA-DU-7300      TCGA-DU-7301 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-7302      TCGA-DU-7304      TCGA-DU-7306      TCGA-DU-7309 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-8158      TCGA-DU-8161      TCGA-DU-8162      TCGA-DU-8163 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-8165      TCGA-DU-8167      TCGA-DU-8168      TCGA-DU-A5TP 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-A5TR      TCGA-DU-A5TS      TCGA-DU-A5TU      TCGA-DU-A5TW 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-A6S2      TCGA-DU-A6S6      TCGA-DU-A6S7      TCGA-DU-A6S8 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-A76R      TCGA-DU-A7T6      TCGA-DU-A7T8      TCGA-DU-A7TA 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-DU-A7TB      TCGA-DU-A7TC      TCGA-DU-A7TD      TCGA-DU-A7TG 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-E1-5302      TCGA-E1-5303      TCGA-E1-5304      TCGA-E1-5305 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-E1-5307      TCGA-E1-5311      TCGA-E1-5318      TCGA-E1-5319 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-E1-5322      TCGA-E1-A7YE      TCGA-E1-A7YH      TCGA-E1-A7YI 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-E1-A7YJ      TCGA-E1-A7YK      TCGA-E1-A7YL      TCGA-E1-A7YM 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-E1-A7YN      TCGA-E1-A7YO      TCGA-E1-A7YQ      TCGA-E1-A7YS 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-E1-A7YV      TCGA-E1-A7YW      TCGA-E1-A7YY      TCGA-E1-A7Z2 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-E1-A7Z4      TCGA-E1-A7Z6      TCGA-FG-5963      TCGA-FG-5965 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-FG-6688      TCGA-FG-6689      TCGA-FG-6690      TCGA-FG-6691 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-FG-7636      TCGA-FG-7638      TCGA-FG-8181      TCGA-FG-8185 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-FG-8186      TCGA-FG-8187      TCGA-FG-8188      TCGA-FG-8189 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-FG-A4MT      TCGA-FG-A4MW      TCGA-FG-A4MX      TCGA-FG-A60J 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-FG-A60L      TCGA-FG-A6J1      TCGA-FG-A6J3      TCGA-FG-A711 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-FG-A713      TCGA-FG-A87Q      TCGA-HT-7468      TCGA-HT-7470 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-HT-7475      TCGA-HT-7477      TCGA-HT-7481      TCGA-HT-7482 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-HT-7485      TCGA-HT-7607      TCGA-HT-7609      TCGA-HT-7611 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-HT-7686      TCGA-HT-7689      TCGA-HT-7692      TCGA-HT-7693 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-HT-7694      TCGA-HT-7854      TCGA-HT-7855      TCGA-HT-7856 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-HT-7858      TCGA-HT-7875      TCGA-HT-7884      TCGA-HT-8013 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-HT-8105      TCGA-HT-8113      TCGA-HT-8564      TCGA-HT-A4DV 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-HT-A5R7      TCGA-HT-A5RA      TCGA-HT-A5RC      TCGA-HT-A615 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-HT-A617      TCGA-HT-A618      TCGA-HT-A61A      TCGA-HT-A61B 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-HT-A61C      TCGA-HT-A74L      TCGA-IK-7675      TCGA-KT-A74X 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-KT-A7W1      TCGA-P5-A5EU      TCGA-P5-A5EV      TCGA-P5-A5EW 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-P5-A5EX      TCGA-P5-A5F0      TCGA-P5-A5F2      TCGA-P5-A5F4 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-P5-A5F6      TCGA-P5-A731      TCGA-QH-A65R      TCGA-QH-A65S 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-QH-A65V      TCGA-QH-A65X      TCGA-QH-A6CS      TCGA-QH-A6CU 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-QH-A6CV      TCGA-QH-A6CW      TCGA-QH-A6CX      TCGA-QH-A6CY 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-QH-A6CZ      TCGA-QH-A6X3      TCGA-QH-A6X4      TCGA-QH-A6X5 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-QH-A6X8      TCGA-QH-A6X9      TCGA-QH-A6XA      TCGA-QH-A6XC 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-QH-A86X      TCGA-QH-A870      TCGA-RY-A83Y      TCGA-RY-A840 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-RY-A845      TCGA-RY-A847      TCGA-S9-A6TS      TCGA-S9-A6TU 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A6TV      TCGA-S9-A6TW      TCGA-S9-A6TX      TCGA-S9-A6TY 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A6TZ      TCGA-S9-A6U0      TCGA-S9-A6U1      TCGA-S9-A6U2 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A6U5      TCGA-S9-A6U6      TCGA-S9-A6U8      TCGA-S9-A6UA 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A6UB      TCGA-S9-A6WD      TCGA-S9-A6WE      TCGA-S9-A6WG 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A6WH      TCGA-S9-A6WI      TCGA-S9-A6WL      TCGA-S9-A6WM 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A6WN      TCGA-S9-A6WO      TCGA-S9-A6WQ      TCGA-S9-A7IQ 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A7IS      TCGA-S9-A7IX      TCGA-S9-A7IY      TCGA-S9-A7IZ 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A7J0      TCGA-S9-A7J1      TCGA-S9-A7J2      TCGA-S9-A7J3 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A7QW      TCGA-S9-A7QX      TCGA-S9-A7QY      TCGA-S9-A7QZ 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A7R1      TCGA-S9-A7R2      TCGA-S9-A7R3      TCGA-S9-A7R4 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-S9-A7R7      TCGA-S9-A7R8      TCGA-S9-A89V      TCGA-S9-A89Z 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-TM-A7C3      TCGA-TM-A7C4      TCGA-TM-A7C5      TCGA-TM-A7CA 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-TM-A7CF      TCGA-TM-A84B      TCGA-TM-A84C      TCGA-TM-A84F 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-TM-A84G      TCGA-TM-A84H      TCGA-TM-A84I      TCGA-TM-A84J 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-TM-A84L      TCGA-TM-A84M      TCGA-TM-A84O      TCGA-TM-A84Q 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-TM-A84R      TCGA-TM-A84S      TCGA-TM-A84T      TCGA-TQ-A7RG 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-TQ-A7RK      TCGA-TQ-A7RM      TCGA-TQ-A7RN      TCGA-TQ-A7RO 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-TQ-A7RP      TCGA-TQ-A7RQ      TCGA-TQ-A7RR      TCGA-TQ-A7RS 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-TQ-A7RU      TCGA-TQ-A7RV      TCGA-TQ-A7RW      TCGA-TQ-A8XE 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-VM-A8C8      TCGA-VM-A8CA      TCGA-VM-A8CD      TCGA-VM-A8CE 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-VM-A8CF      TCGA-VM-A8CH      TCGA-WY-A858      TCGA-WY-A859 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  RBBP6 MUTATED             2                1                 3
  RBBP6 WILD-TYPE         190              129               187
D55V6, multiclass
                   clus
vv                  RBBP6 MUTATED RBBP6 WILD-TYPE
  ASTROCYTOMA                   2             190
  OLIGOASTROCYTOMA              1             129
  OLIGODENDROGLIOMA             3             187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  RBBP6 MUTATED                                  0     1
  RBBP6 WILD-TYPE                                1     7
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  RBBP6 MUTATED                           0     5
  RBBP6 WILD-TYPE                        21   467
D55V7, multiclass
                                  clus
vv                                 RBBP6 MUTATED RBBP6 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        1               7
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        5             467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D55V8, binary
                 cls
clus                0   1
  RBBP6 MUTATED     0   6
  RBBP6 WILD-TYPE  32 440
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBBP6 MUTATED      0    6
  RBBP6 WILD-TYPE   32  440
                        clus
vv                       RBBP6 MUTATED RBBP6 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO             6             440
[1] 2 2
[1] FALSE

Clustering(56) Variable = CIB1 MUTATION ANALYSIS
D56V1, survival
                sevent
clus2              0   1
  CIB1 MUTATED     4   0
  CIB1 WILD-TYPE 386 119
  CIB1 MUTATED CIB1 WILD-TYPE 
             4            505 
  CIB1 MUTATED CIB1 WILD-TYPE 
             0            119 
$`CIB1 MUTATED`
TCGA-HT-7477 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-TM-A7C5 
       24.26        20.22         0.07        49.32 

$`CIB1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
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-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 
       14.99       105.21         6.54         8.84        90.77        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       26.30        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       62.01        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        5.10        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O 
       95.11        20.98        22.29        11.41        26.76        17.16 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
        7.50        44.42         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       16.18        21.30        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 
       41.33        18.44        15.35        17.88        40.08        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       18.38        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       48.69        20.45        18.64         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
        3.75        17.42         6.54         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5RA 
       28.27        15.72         0.23        26.04         0.13        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       54.77        48.33        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  CIB1 MUTATED CIB1 WILD-TYPE 
          0.07           0.03 
  CIB1 MUTATED CIB1 WILD-TYPE 
         49.32         211.17 
  CIB1 MUTATED CIB1 WILD-TYPE 
         22.24          20.71 
[1] "0.1 - 49.3 (22.2)"  "0.0 - 211.2 (20.7)"
[1] "hr="     "3300000"
D56V2, continuous
D56V3, binary
                cls
clus               0   1
  CIB1 MUTATED     2   2
  CIB1 WILD-TYPE 227 281
[1] "tbl2"
                cls
clus             [,1] [,2]
  CIB1 MUTATED      2    2
  CIB1 WILD-TYPE  227  281
        clus
vv       CIB1 MUTATED CIB1 WILD-TYPE
  FEMALE            2            227
  MALE              2            281
[1] 2 2
[1] FALSE
D56V4, binary
                cls
clus               0   1
  CIB1 MUTATED     1   2
  CIB1 WILD-TYPE 185 289
[1] "tbl2"
                cls
clus             [,1] [,2]
  CIB1 MUTATED      1    2
  CIB1 WILD-TYPE  185  289
     clus
vv    CIB1 MUTATED CIB1 WILD-TYPE
  NO             1            185
  YES            2            289
[1] 2 2
[1] FALSE
D56V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  CIB1 MUTATED             2                1                 1
  CIB1 WILD-TYPE         190              129               189
D56V6, multiclass
                   clus
vv                  CIB1 MUTATED CIB1 WILD-TYPE
  ASTROCYTOMA                  2            190
  OLIGOASTROCYTOMA             1            129
  OLIGODENDROGLIOMA            1            189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  CIB1 MUTATED                                  0     0
  CIB1 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  CIB1 MUTATED                           0     4
  CIB1 WILD-TYPE                        21   468
D56V7, multiclass
                                  clus
vv                                 CIB1 MUTATED CIB1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       4            468
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D56V8, binary
                cls
clus               0   1
  CIB1 MUTATED     0   4
  CIB1 WILD-TYPE  32 442
[1] "tbl2"
                cls
clus             [,1] [,2]
  CIB1 MUTATED      0    4
  CIB1 WILD-TYPE   32  442
                        clus
vv                       CIB1 MUTATED CIB1 WILD-TYPE
  HISPANIC OR LATINO                0             32
  NOT HISPANIC OR LATINO            4            442
[1] 2 2
[1] FALSE

Clustering(57) Variable = DDX5 MUTATION ANALYSIS
D57V1, survival
                sevent
clus2              0   1
  DDX5 MUTATED     5   0
  DDX5 WILD-TYPE 385 119
  DDX5 MUTATED DDX5 WILD-TYPE 
             5            504 
  DDX5 MUTATED DDX5 WILD-TYPE 
             0            119 
$`DDX5 MUTATED`
TCGA-CS-4943 TCGA-DU-5853 TCGA-DU-6392 TCGA-FG-8186 TCGA-HT-7687 
       18.15        13.38       211.17        16.01         0.10 

$`DDX5 WILD-TYPE`
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4944 TCGA-CS-5390 TCGA-CS-5393 
        4.70         7.69        43.89        10.62        64.64        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.10        21.01         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       17.82        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
        6.05        42.74        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       34.19        13.74        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  DDX5 MUTATED DDX5 WILD-TYPE 
          0.10           0.03 
  DDX5 MUTATED DDX5 WILD-TYPE 
        211.17         182.33 
  DDX5 MUTATED DDX5 WILD-TYPE 
         16.01          20.81 
[1] "0.1 - 211.2 (16.0)" "0.0 - 182.3 (20.8)"
[1] "hr="   "1e+07"
D57V2, continuous
D57V3, binary
                cls
clus               0   1
  DDX5 MUTATED     2   3
  DDX5 WILD-TYPE 227 280
[1] "tbl2"
                cls
clus             [,1] [,2]
  DDX5 MUTATED      2    3
  DDX5 WILD-TYPE  227  280
        clus
vv       DDX5 MUTATED DDX5 WILD-TYPE
  FEMALE            2            227
  MALE              3            280
[1] 2 2
[1] FALSE
D57V4, binary
                cls
clus               0   1
  DDX5 MUTATED     1   3
  DDX5 WILD-TYPE 185 288
[1] "tbl2"
                cls
clus             [,1] [,2]
  DDX5 MUTATED      1    3
  DDX5 WILD-TYPE  185  288
     clus
vv    DDX5 MUTATED DDX5 WILD-TYPE
  NO             1            185
  YES            3            288
[1] 2 2
[1] FALSE
D57V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  DDX5 MUTATED             2                2                 1
  DDX5 WILD-TYPE         190              128               189
D57V6, multiclass
                   clus
vv                  DDX5 MUTATED DDX5 WILD-TYPE
  ASTROCYTOMA                  2            190
  OLIGOASTROCYTOMA             2            128
  OLIGODENDROGLIOMA            1            189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DDX5 MUTATED                                  0     0
  DDX5 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  DDX5 MUTATED                           0     5
  DDX5 WILD-TYPE                        21   467
D57V7, multiclass
                                  clus
vv                                 DDX5 MUTATED DDX5 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       5            467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D57V8, binary
                cls
clus               0   1
  DDX5 MUTATED     1   3
  DDX5 WILD-TYPE  31 443
[1] "tbl2"
                cls
clus             [,1] [,2]
  DDX5 MUTATED      1    3
  DDX5 WILD-TYPE   31  443
                        clus
vv                       DDX5 MUTATED DDX5 WILD-TYPE
  HISPANIC OR LATINO                1             31
  NOT HISPANIC OR LATINO            3            443
[1] 2 2
[1] FALSE

Clustering(58) Variable = NAP1L2 MUTATION ANALYSIS
D58V1, survival
                  sevent
clus2                0   1
  NAP1L2 MUTATED     4   0
  NAP1L2 WILD-TYPE 386 119
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
               4              505 
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
               0              119 
$`NAP1L2 MUTATED`
TCGA-DH-A7UR TCGA-FG-A710 TCGA-HT-8114 TCGA-WY-A85D 
       54.25        36.66        34.19        37.71 

$`NAP1L2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7US TCGA-DH-A7UT 
       42.05        27.81        17.19        17.19        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A711 TCGA-FG-A713 
       16.44        22.26        28.54        10.78        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
       13.78         0.23        29.59        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85E 
       20.81 

  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
           34.19             0.03 
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
           54.25           211.17 
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
          37.185           20.680 
[1] "34.2 - 54.2 (37.2)" "0.0 - 211.2 (20.7)"
[1] "hr="     "9100000"
D58V2, continuous
D58V3, binary
                  cls
clus                 0   1
  NAP1L2 MUTATED     2   2
  NAP1L2 WILD-TYPE 227 281
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NAP1L2 MUTATED      2    2
  NAP1L2 WILD-TYPE  227  281
        clus
vv       NAP1L2 MUTATED NAP1L2 WILD-TYPE
  FEMALE              2              227
  MALE                2              281
[1] 2 2
[1] FALSE
D58V4, binary
                  cls
clus                 0   1
  NAP1L2 MUTATED     2   2
  NAP1L2 WILD-TYPE 184 289
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NAP1L2 MUTATED      2    2
  NAP1L2 WILD-TYPE  184  289
     clus
vv    NAP1L2 MUTATED NAP1L2 WILD-TYPE
  NO               2              184
  YES              2              289
[1] 2 2
[1] FALSE
D58V5, continuous
[1] "Remove cluster labels:" "NAP1L2 MUTATED"        
clus
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
               1              305 
      TCGA-CS-4938       TCGA-CS-4941       TCGA-CS-4942       TCGA-CS-4943 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-CS-4944       TCGA-CS-5390       TCGA-CS-5393       TCGA-CS-5395 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-CS-5396       TCGA-CS-5397       TCGA-CS-6186       TCGA-CS-6188 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-CS-6290       TCGA-CS-6665       TCGA-CS-6666       TCGA-CS-6667 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-CS-6668       TCGA-CS-6669       TCGA-DB-5274       TCGA-DB-A4XE 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DB-A64L       TCGA-DB-A64Q       TCGA-DB-A64R       TCGA-DB-A64S 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DB-A64U       TCGA-DB-A64V       TCGA-DB-A64W       TCGA-DB-A64X 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DB-A75L       TCGA-DB-A75O       TCGA-DH-5140       TCGA-DH-5142 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DH-5143       TCGA-DH-5144       TCGA-DH-A66B       TCGA-DH-A66D 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DH-A66F       TCGA-DH-A66G       TCGA-DH-A7UU       TCGA-DH-A7UV 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-5851       TCGA-DU-5852       TCGA-DU-5853       TCGA-DU-5854 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-5855       TCGA-DU-5870       TCGA-DU-5871       TCGA-DU-5874 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-6396       TCGA-DU-6401       TCGA-DU-6403       TCGA-DU-6404 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-6405       TCGA-DU-6407       TCGA-DU-6408       TCGA-DU-6410 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-7009       TCGA-DU-7011       TCGA-DU-7013       TCGA-DU-7015 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-7018       TCGA-DU-7019       TCGA-DU-7294       TCGA-DU-7298 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-7299       TCGA-DU-7300       TCGA-DU-7301       TCGA-DU-7302 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-7304       TCGA-DU-7306       TCGA-DU-7309       TCGA-DU-8158 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-8161       TCGA-DU-8162       TCGA-DU-8163       TCGA-DU-8165 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-8167       TCGA-DU-8168       TCGA-DU-A5TP       TCGA-DU-A5TR 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-A5TS       TCGA-DU-A5TU       TCGA-DU-A5TW       TCGA-DU-A6S2 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-A6S6       TCGA-DU-A6S7       TCGA-DU-A6S8       TCGA-DU-A76R 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-A7T6       TCGA-DU-A7T8       TCGA-DU-A7TA       TCGA-DU-A7TB 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DU-A7TC       TCGA-DU-A7TD       TCGA-DU-A7TG       TCGA-E1-5302 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-E1-5303       TCGA-E1-5304       TCGA-E1-5305       TCGA-E1-5307 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-E1-5311       TCGA-E1-5318       TCGA-E1-5319       TCGA-E1-5322 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-E1-A7YE       TCGA-E1-A7YH       TCGA-E1-A7YI       TCGA-E1-A7YJ 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-E1-A7YK       TCGA-E1-A7YL       TCGA-E1-A7YM       TCGA-E1-A7YN 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-E1-A7YO       TCGA-E1-A7YQ       TCGA-E1-A7YS       TCGA-E1-A7YV 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-E1-A7YW       TCGA-E1-A7YY       TCGA-E1-A7Z2       TCGA-E1-A7Z4 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-E1-A7Z6       TCGA-FG-5963       TCGA-FG-5965       TCGA-FG-6688 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-FG-6689       TCGA-FG-6690       TCGA-FG-6691       TCGA-FG-7636 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-FG-7638       TCGA-FG-8181       TCGA-FG-8185       TCGA-FG-8186 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-FG-8187       TCGA-FG-8188       TCGA-FG-8189       TCGA-FG-A4MT 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-FG-A4MW       TCGA-FG-A4MX       TCGA-FG-A60J       TCGA-FG-A60L 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-FG-A6J1       TCGA-FG-A6J3       TCGA-FG-A711       TCGA-FG-A713 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-FG-A87Q       TCGA-HT-7468       TCGA-HT-7470       TCGA-HT-7475 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-HT-7477       TCGA-HT-7481       TCGA-HT-7482       TCGA-HT-7485 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-HT-7607       TCGA-HT-7609       TCGA-HT-7611       TCGA-HT-7686 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-HT-7689       TCGA-HT-7692       TCGA-HT-7693       TCGA-HT-7694 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-HT-7854       TCGA-HT-7855       TCGA-HT-7856       TCGA-HT-7858 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-HT-7875       TCGA-HT-7884       TCGA-HT-8013       TCGA-HT-8105 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-HT-8113       TCGA-HT-8564       TCGA-HT-A4DV       TCGA-HT-A5R7 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-HT-A5RA       TCGA-HT-A5RC       TCGA-HT-A615       TCGA-HT-A617 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-HT-A618       TCGA-HT-A61A       TCGA-HT-A61B       TCGA-HT-A61C 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-HT-A74L       TCGA-IK-7675       TCGA-KT-A74X       TCGA-KT-A7W1 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-P5-A5EU       TCGA-P5-A5EV       TCGA-P5-A5EW       TCGA-P5-A5EX 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-P5-A5F0       TCGA-P5-A5F2       TCGA-P5-A5F4       TCGA-P5-A5F6 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-P5-A731       TCGA-QH-A65R       TCGA-QH-A65S       TCGA-QH-A65V 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-QH-A65X       TCGA-QH-A65Z       TCGA-QH-A6CS       TCGA-QH-A6CU 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-QH-A6CV       TCGA-QH-A6CW       TCGA-QH-A6CX       TCGA-QH-A6CY 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-QH-A6CZ       TCGA-QH-A6X3       TCGA-QH-A6X4       TCGA-QH-A6X5 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-QH-A6X8       TCGA-QH-A6X9       TCGA-QH-A6XA       TCGA-QH-A6XC 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-QH-A86X       TCGA-QH-A870       TCGA-RY-A83Y       TCGA-RY-A840 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-RY-A845       TCGA-RY-A847       TCGA-S9-A6TS       TCGA-S9-A6TU 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A6TV       TCGA-S9-A6TW       TCGA-S9-A6TX       TCGA-S9-A6TY 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A6TZ       TCGA-S9-A6U0       TCGA-S9-A6U1       TCGA-S9-A6U2 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A6U5       TCGA-S9-A6U6       TCGA-S9-A6U8       TCGA-S9-A6UA 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A6UB       TCGA-S9-A6WD       TCGA-S9-A6WE       TCGA-S9-A6WG 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A6WH       TCGA-S9-A6WI       TCGA-S9-A6WL       TCGA-S9-A6WM 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A6WN       TCGA-S9-A6WO       TCGA-S9-A6WP       TCGA-S9-A6WQ 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A7IQ       TCGA-S9-A7IS       TCGA-S9-A7IX       TCGA-S9-A7IY 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A7IZ       TCGA-S9-A7J0       TCGA-S9-A7J1       TCGA-S9-A7J2 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A7J3       TCGA-S9-A7QW       TCGA-S9-A7QX       TCGA-S9-A7QY 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A7QZ       TCGA-S9-A7R1       TCGA-S9-A7R2       TCGA-S9-A7R3 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A7R4       TCGA-S9-A7R7       TCGA-S9-A7R8       TCGA-S9-A89V 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-S9-A89Z       TCGA-TM-A7C3       TCGA-TM-A7C4       TCGA-TM-A7C5 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-TM-A7CA       TCGA-TM-A7CF       TCGA-TM-A84B       TCGA-TM-A84C 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-TM-A84F       TCGA-TM-A84G       TCGA-TM-A84H       TCGA-TM-A84I 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-TM-A84J       TCGA-TM-A84L       TCGA-TM-A84M       TCGA-TM-A84O 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-TM-A84Q       TCGA-TM-A84R       TCGA-TM-A84S       TCGA-TM-A84T 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-TQ-A7RG       TCGA-TQ-A7RK       TCGA-TQ-A7RM       TCGA-TQ-A7RN 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-TQ-A7RO       TCGA-TQ-A7RP       TCGA-TQ-A7RQ       TCGA-TQ-A7RR 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-TQ-A7RS       TCGA-TQ-A7RU       TCGA-TQ-A7RV       TCGA-TQ-A7RW 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-TQ-A8XE       TCGA-VM-A8C8       TCGA-VM-A8CA       TCGA-VM-A8CD 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-VM-A8CE       TCGA-VM-A8CF       TCGA-VM-A8CH       TCGA-WY-A858 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-WY-A859 
"NAP1L2 WILD-TYPE" 
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  NAP1L2 MUTATED             0                2                 2
  NAP1L2 WILD-TYPE         192              128               188
D58V6, multiclass
                   clus
vv                  NAP1L2 MUTATED NAP1L2 WILD-TYPE
  ASTROCYTOMA                    0              192
  OLIGOASTROCYTOMA               2              128
  OLIGODENDROGLIOMA              2              188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NAP1L2 MUTATED                                  0     0
  NAP1L2 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  NAP1L2 MUTATED                           0     4
  NAP1L2 WILD-TYPE                        21   468
D58V7, multiclass
                                  clus
vv                                 NAP1L2 MUTATED NAP1L2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                         4              468
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D58V8, binary
                  cls
clus                 0   1
  NAP1L2 MUTATED     0   3
  NAP1L2 WILD-TYPE  32 443
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NAP1L2 MUTATED      0    3
  NAP1L2 WILD-TYPE   32  443
                        clus
vv                       NAP1L2 MUTATED NAP1L2 WILD-TYPE
  HISPANIC OR LATINO                  0               32
  NOT HISPANIC OR LATINO              3              443
[1] 2 2
[1] FALSE

Clustering(59) Variable = SCN4A MUTATION ANALYSIS
D59V1, survival
                 sevent
clus2               0   1
  SCN4A MUTATED     5   1
  SCN4A WILD-TYPE 385 118
  SCN4A MUTATED SCN4A WILD-TYPE 
              6             503 
  SCN4A MUTATED SCN4A WILD-TYPE 
              1             118 
$`SCN4A MUTATED`
TCGA-DB-5274 TCGA-DU-6392 TCGA-DU-A7TG TCGA-HT-7695 TCGA-P5-A5F2 TCGA-S9-A7QZ 
       75.25       211.17        44.42        14.53         7.63        27.16 

$`SCN4A WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5276 
       49.12         6.61       122.73        81.96        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TJ 
      139.04        84.33        51.52        37.38         7.50         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7854 
        0.10         0.10         2.96        17.52         6.90        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.37         2.30         4.11         5.88         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       28.37       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        43.04        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  SCN4A MUTATED SCN4A WILD-TYPE 
           7.63            0.03 
  SCN4A MUTATED SCN4A WILD-TYPE 
         211.17          182.33 
  SCN4A MUTATED SCN4A WILD-TYPE 
          35.79           20.68 
[1] "7.6 - 211.2 (35.8)" "0.0 - 182.3 (20.7)"
[1] "hr=" "3.5"
D59V2, continuous
D59V3, binary
                 cls
clus                0   1
  SCN4A MUTATED     4   2
  SCN4A WILD-TYPE 225 281
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SCN4A MUTATED      4    2
  SCN4A WILD-TYPE  225  281
        clus
vv       SCN4A MUTATED SCN4A WILD-TYPE
  FEMALE             4             225
  MALE               2             281
[1] 2 2
[1] FALSE
D59V4, binary
                 cls
clus                0   1
  SCN4A MUTATED     3   3
  SCN4A WILD-TYPE 183 288
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SCN4A MUTATED      3    3
  SCN4A WILD-TYPE  183  288
     clus
vv    SCN4A MUTATED SCN4A WILD-TYPE
  NO              3             183
  YES             3             288
[1] 2 2
[1] FALSE
D59V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  SCN4A MUTATED             2                1                 3
  SCN4A WILD-TYPE         190              129               187
D59V6, multiclass
                   clus
vv                  SCN4A MUTATED SCN4A WILD-TYPE
  ASTROCYTOMA                   2             190
  OLIGOASTROCYTOMA              1             129
  OLIGODENDROGLIOMA             3             187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SCN4A MUTATED                                  0     0
  SCN4A WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  SCN4A MUTATED                           0     6
  SCN4A WILD-TYPE                        21   466
D59V7, multiclass
                                  clus
vv                                 SCN4A MUTATED SCN4A WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        6             466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D59V8, binary
                 cls
clus                0   1
  SCN4A MUTATED     0   6
  SCN4A WILD-TYPE  32 440
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SCN4A MUTATED      0    6
  SCN4A WILD-TYPE   32  440
                        clus
vv                       SCN4A MUTATED SCN4A WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO             6             440
[1] 2 2
[1] FALSE

Clustering(60) Variable = AGBL1 MUTATION ANALYSIS
D60V1, survival
                 sevent
clus2               0   1
  AGBL1 MUTATED     4   1
  AGBL1 WILD-TYPE 386 118
  AGBL1 MUTATED AGBL1 WILD-TYPE 
              5             504 
  AGBL1 MUTATED AGBL1 WILD-TYPE 
              1             118 
$`AGBL1 MUTATED`
TCGA-DB-A4XA TCGA-E1-A7YJ TCGA-FG-A4MU TCGA-HT-8106 TCGA-RY-A83Z 
       18.84        19.46        10.72         0.10         9.90 

$`AGBL1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       29.13        93.21         3.65        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       22.52        32.61        38.27        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        6.25         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  AGBL1 MUTATED AGBL1 WILD-TYPE 
           0.10            0.03 
  AGBL1 MUTATED AGBL1 WILD-TYPE 
          19.46          211.17 
  AGBL1 MUTATED AGBL1 WILD-TYPE 
         10.720          20.895 
[1] "0.1 - 19.5 (10.7)"  "0.0 - 211.2 (20.9)"
[1] "hr=" "3"  
D60V2, continuous
D60V3, binary
                 cls
clus                0   1
  AGBL1 MUTATED     1   4
  AGBL1 WILD-TYPE 228 279
[1] "tbl2"
                 cls
clus              [,1] [,2]
  AGBL1 MUTATED      1    4
  AGBL1 WILD-TYPE  228  279
        clus
vv       AGBL1 MUTATED AGBL1 WILD-TYPE
  FEMALE             1             228
  MALE               4             279
[1] 2 2
[1] FALSE
D60V4, binary
                 cls
clus                0   1
  AGBL1 MUTATED     1   3
  AGBL1 WILD-TYPE 185 288
[1] "tbl2"
                 cls
clus              [,1] [,2]
  AGBL1 MUTATED      1    3
  AGBL1 WILD-TYPE  185  288
     clus
vv    AGBL1 MUTATED AGBL1 WILD-TYPE
  NO              1             185
  YES             3             288
[1] 2 2
[1] FALSE
D60V5, continuous
[1] "Remove cluster labels:" "AGBL1 MUTATED"         
clus
  AGBL1 MUTATED AGBL1 WILD-TYPE 
              1             305 
     TCGA-CS-4938      TCGA-CS-4941      TCGA-CS-4942      TCGA-CS-4943 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-CS-4944      TCGA-CS-5390      TCGA-CS-5393      TCGA-CS-5395 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-CS-5396      TCGA-CS-5397      TCGA-CS-6186      TCGA-CS-6188 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-CS-6290      TCGA-CS-6665      TCGA-CS-6666      TCGA-CS-6667 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-CS-6668      TCGA-CS-6669      TCGA-DB-5274      TCGA-DB-A4XE 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DB-A64L      TCGA-DB-A64Q      TCGA-DB-A64R      TCGA-DB-A64S 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DB-A64U      TCGA-DB-A64V      TCGA-DB-A64W      TCGA-DB-A64X 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DB-A75L      TCGA-DB-A75O      TCGA-DH-5140      TCGA-DH-5142 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DH-5143      TCGA-DH-5144      TCGA-DH-A66B      TCGA-DH-A66D 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DH-A66F      TCGA-DH-A66G      TCGA-DH-A7UR      TCGA-DH-A7UU 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DH-A7UV      TCGA-DU-5851      TCGA-DU-5852      TCGA-DU-5853 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-5854      TCGA-DU-5855      TCGA-DU-5870      TCGA-DU-5871 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-5874      TCGA-DU-6396      TCGA-DU-6401      TCGA-DU-6403 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-6404      TCGA-DU-6405      TCGA-DU-6407      TCGA-DU-6408 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-6410      TCGA-DU-7009      TCGA-DU-7011      TCGA-DU-7013 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-7015      TCGA-DU-7018      TCGA-DU-7019      TCGA-DU-7294 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-7298      TCGA-DU-7299      TCGA-DU-7300      TCGA-DU-7301 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-7302      TCGA-DU-7304      TCGA-DU-7306      TCGA-DU-7309 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-8158      TCGA-DU-8161      TCGA-DU-8162      TCGA-DU-8163 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-8165      TCGA-DU-8167      TCGA-DU-8168      TCGA-DU-A5TP 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-A5TR      TCGA-DU-A5TS      TCGA-DU-A5TU      TCGA-DU-A5TW 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-A6S2      TCGA-DU-A6S6      TCGA-DU-A6S7      TCGA-DU-A6S8 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-A76R      TCGA-DU-A7T6      TCGA-DU-A7T8      TCGA-DU-A7TA 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-DU-A7TB      TCGA-DU-A7TC      TCGA-DU-A7TD      TCGA-DU-A7TG 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-E1-5302      TCGA-E1-5303      TCGA-E1-5304      TCGA-E1-5305 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-E1-5307      TCGA-E1-5311      TCGA-E1-5318      TCGA-E1-5319 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-E1-5322      TCGA-E1-A7YE      TCGA-E1-A7YH      TCGA-E1-A7YI 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-E1-A7YK      TCGA-E1-A7YL      TCGA-E1-A7YM      TCGA-E1-A7YN 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-E1-A7YO      TCGA-E1-A7YQ      TCGA-E1-A7YS      TCGA-E1-A7YV 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-E1-A7YW      TCGA-E1-A7YY      TCGA-E1-A7Z2      TCGA-E1-A7Z4 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-E1-A7Z6      TCGA-FG-5963      TCGA-FG-5965      TCGA-FG-6688 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-FG-6689      TCGA-FG-6690      TCGA-FG-6691      TCGA-FG-7636 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-FG-7638      TCGA-FG-8181      TCGA-FG-8185      TCGA-FG-8186 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-FG-8187      TCGA-FG-8188      TCGA-FG-8189      TCGA-FG-A4MT 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-FG-A4MW      TCGA-FG-A4MX      TCGA-FG-A60J      TCGA-FG-A60L 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-FG-A6J1      TCGA-FG-A6J3      TCGA-FG-A711      TCGA-FG-A713 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-FG-A87Q      TCGA-HT-7468      TCGA-HT-7470      TCGA-HT-7475 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-HT-7477      TCGA-HT-7481      TCGA-HT-7482      TCGA-HT-7485 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-HT-7607      TCGA-HT-7609      TCGA-HT-7611      TCGA-HT-7686 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-HT-7689      TCGA-HT-7692      TCGA-HT-7693      TCGA-HT-7694 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-HT-7854      TCGA-HT-7855      TCGA-HT-7856      TCGA-HT-7858 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-HT-7875      TCGA-HT-7884      TCGA-HT-8013      TCGA-HT-8105 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-HT-8113      TCGA-HT-8564      TCGA-HT-A4DV      TCGA-HT-A5R7 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-HT-A5RA      TCGA-HT-A5RC      TCGA-HT-A615      TCGA-HT-A617 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-HT-A618      TCGA-HT-A61A      TCGA-HT-A61B      TCGA-HT-A61C 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-HT-A74L      TCGA-IK-7675      TCGA-KT-A74X      TCGA-KT-A7W1 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-P5-A5EU      TCGA-P5-A5EV      TCGA-P5-A5EW      TCGA-P5-A5EX 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-P5-A5F0      TCGA-P5-A5F2      TCGA-P5-A5F4      TCGA-P5-A5F6 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-P5-A731      TCGA-QH-A65R      TCGA-QH-A65S      TCGA-QH-A65V 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-QH-A65X      TCGA-QH-A65Z      TCGA-QH-A6CS      TCGA-QH-A6CU 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-QH-A6CV      TCGA-QH-A6CW      TCGA-QH-A6CX      TCGA-QH-A6CY 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-QH-A6CZ      TCGA-QH-A6X3      TCGA-QH-A6X4      TCGA-QH-A6X5 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-QH-A6X8      TCGA-QH-A6X9      TCGA-QH-A6XA      TCGA-QH-A6XC 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-QH-A86X      TCGA-QH-A870      TCGA-RY-A83Y      TCGA-RY-A840 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-RY-A845      TCGA-RY-A847      TCGA-S9-A6TS      TCGA-S9-A6TU 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A6TV      TCGA-S9-A6TW      TCGA-S9-A6TX      TCGA-S9-A6TY 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A6TZ      TCGA-S9-A6U0      TCGA-S9-A6U1      TCGA-S9-A6U2 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A6U5      TCGA-S9-A6U6      TCGA-S9-A6U8      TCGA-S9-A6UA 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A6UB      TCGA-S9-A6WD      TCGA-S9-A6WE      TCGA-S9-A6WG 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A6WH      TCGA-S9-A6WI      TCGA-S9-A6WL      TCGA-S9-A6WM 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A6WN      TCGA-S9-A6WO      TCGA-S9-A6WP      TCGA-S9-A6WQ 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A7IQ      TCGA-S9-A7IS      TCGA-S9-A7IX      TCGA-S9-A7IY 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A7IZ      TCGA-S9-A7J0      TCGA-S9-A7J1      TCGA-S9-A7J2 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A7J3      TCGA-S9-A7QW      TCGA-S9-A7QX      TCGA-S9-A7QY 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A7QZ      TCGA-S9-A7R1      TCGA-S9-A7R2      TCGA-S9-A7R3 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A7R4      TCGA-S9-A7R7      TCGA-S9-A7R8      TCGA-S9-A89V 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-S9-A89Z      TCGA-TM-A7C3      TCGA-TM-A7C4      TCGA-TM-A7C5 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-TM-A7CA      TCGA-TM-A7CF      TCGA-TM-A84B      TCGA-TM-A84C 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-TM-A84F      TCGA-TM-A84G      TCGA-TM-A84H      TCGA-TM-A84I 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-TM-A84J      TCGA-TM-A84L      TCGA-TM-A84M      TCGA-TM-A84O 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-TM-A84Q      TCGA-TM-A84R      TCGA-TM-A84S      TCGA-TM-A84T 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-TQ-A7RG      TCGA-TQ-A7RK      TCGA-TQ-A7RM      TCGA-TQ-A7RN 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-TQ-A7RO      TCGA-TQ-A7RP      TCGA-TQ-A7RQ      TCGA-TQ-A7RR 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-TQ-A7RS      TCGA-TQ-A7RU      TCGA-TQ-A7RV      TCGA-TQ-A7RW 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-TQ-A8XE      TCGA-VM-A8C8      TCGA-VM-A8CA      TCGA-VM-A8CD 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-VM-A8CE      TCGA-VM-A8CF      TCGA-VM-A8CH      TCGA-WY-A858 
"AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" "AGBL1 WILD-TYPE" 
     TCGA-WY-A859 
"AGBL1 WILD-TYPE" 
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  AGBL1 MUTATED             3                2                 0
  AGBL1 WILD-TYPE         189              128               190
D60V6, multiclass
                   clus
vv                  AGBL1 MUTATED AGBL1 WILD-TYPE
  ASTROCYTOMA                   3             189
  OLIGOASTROCYTOMA              2             128
  OLIGODENDROGLIOMA             0             190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AGBL1 MUTATED                                  0     0
  AGBL1 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  AGBL1 MUTATED                           0     5
  AGBL1 WILD-TYPE                        21   467
D60V7, multiclass
                                  clus
vv                                 AGBL1 MUTATED AGBL1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        5             467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D60V8, binary
                 cls
clus                0   1
  AGBL1 MUTATED     0   5
  AGBL1 WILD-TYPE  32 441
[1] "tbl2"
                 cls
clus              [,1] [,2]
  AGBL1 MUTATED      0    5
  AGBL1 WILD-TYPE   32  441
                        clus
vv                       AGBL1 MUTATED AGBL1 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO             5             441
[1] 2 2
[1] FALSE

Clustering(61) Variable = TPX2 MUTATION ANALYSIS
D61V1, survival
                sevent
clus2              0   1
  TPX2 MUTATED     4   1
  TPX2 WILD-TYPE 386 118
  TPX2 MUTATED TPX2 WILD-TYPE 
             5            504 
  TPX2 MUTATED TPX2 WILD-TYPE 
             1            118 
$`TPX2 MUTATED`
TCGA-DU-6392 TCGA-HT-7688 TCGA-S9-A6WL TCGA-TQ-A7RJ TCGA-TQ-A8XE 
      211.17        31.69        31.10        40.41        31.36 

$`TPX2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23         2.20         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WM TCGA-S9-A6WN 
      135.22        85.55        38.56        84.99        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RK 
       23.80        21.37        19.69        15.98         2.04        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       33.93        61.41        26.99        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  TPX2 MUTATED TPX2 WILD-TYPE 
         31.10           0.03 
  TPX2 MUTATED TPX2 WILD-TYPE 
        211.17         182.33 
  TPX2 MUTATED TPX2 WILD-TYPE 
        31.690         20.645 
[1] "31.1 - 211.2 (31.7)" "0.0 - 182.3 (20.6)" 
[1] "hr=" "3.1"
D61V2, continuous
D61V3, binary
                cls
clus               0   1
  TPX2 MUTATED     3   2
  TPX2 WILD-TYPE 226 281
[1] "tbl2"
                cls
clus             [,1] [,2]
  TPX2 MUTATED      3    2
  TPX2 WILD-TYPE  226  281
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  FEMALE            3            226
  MALE              2            281
[1] 2 2
[1] FALSE
D61V4, binary
                cls
clus               0   1
  TPX2 MUTATED     2   3
  TPX2 WILD-TYPE 184 288
[1] "tbl2"
                cls
clus             [,1] [,2]
  TPX2 MUTATED      2    3
  TPX2 WILD-TYPE  184  288
     clus
vv    TPX2 MUTATED TPX2 WILD-TYPE
  NO             2            184
  YES            3            288
[1] 2 2
[1] FALSE
D61V5, continuous
[1] "Remove cluster labels:" "TPX2 MUTATED"          
clus
  TPX2 MUTATED TPX2 WILD-TYPE 
             2            304 
    TCGA-CS-4938     TCGA-CS-4941     TCGA-CS-4942     TCGA-CS-4943 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-CS-4944     TCGA-CS-5390     TCGA-CS-5393     TCGA-CS-5395 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-CS-5396     TCGA-CS-5397     TCGA-CS-6186     TCGA-CS-6188 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-CS-6290     TCGA-CS-6665     TCGA-CS-6666     TCGA-CS-6667 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-CS-6668     TCGA-CS-6669     TCGA-DB-5274     TCGA-DB-A4XE 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DB-A64L     TCGA-DB-A64Q     TCGA-DB-A64R     TCGA-DB-A64S 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DB-A64U     TCGA-DB-A64V     TCGA-DB-A64W     TCGA-DB-A64X 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DB-A75L     TCGA-DB-A75O     TCGA-DH-5140     TCGA-DH-5142 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DH-5143     TCGA-DH-5144     TCGA-DH-A66B     TCGA-DH-A66D 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DH-A66F     TCGA-DH-A66G     TCGA-DH-A7UR     TCGA-DH-A7UU 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DH-A7UV     TCGA-DU-5851     TCGA-DU-5852     TCGA-DU-5853 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-5854     TCGA-DU-5855     TCGA-DU-5870     TCGA-DU-5871 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-5874     TCGA-DU-6396     TCGA-DU-6401     TCGA-DU-6403 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-6404     TCGA-DU-6405     TCGA-DU-6407     TCGA-DU-6408 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-6410     TCGA-DU-7009     TCGA-DU-7011     TCGA-DU-7013 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-7015     TCGA-DU-7018     TCGA-DU-7019     TCGA-DU-7294 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-7298     TCGA-DU-7299     TCGA-DU-7300     TCGA-DU-7301 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-7302     TCGA-DU-7304     TCGA-DU-7306     TCGA-DU-7309 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-8158     TCGA-DU-8161     TCGA-DU-8162     TCGA-DU-8163 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-8165     TCGA-DU-8167     TCGA-DU-8168     TCGA-DU-A5TP 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-A5TR     TCGA-DU-A5TS     TCGA-DU-A5TU     TCGA-DU-A5TW 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-A6S2     TCGA-DU-A6S6     TCGA-DU-A6S7     TCGA-DU-A6S8 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-A76R     TCGA-DU-A7T6     TCGA-DU-A7T8     TCGA-DU-A7TA 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-DU-A7TB     TCGA-DU-A7TC     TCGA-DU-A7TD     TCGA-DU-A7TG 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-E1-5302     TCGA-E1-5303     TCGA-E1-5304     TCGA-E1-5305 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-E1-5307     TCGA-E1-5311     TCGA-E1-5318     TCGA-E1-5319 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-E1-5322     TCGA-E1-A7YE     TCGA-E1-A7YH     TCGA-E1-A7YI 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-E1-A7YJ     TCGA-E1-A7YK     TCGA-E1-A7YL     TCGA-E1-A7YM 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-E1-A7YN     TCGA-E1-A7YO     TCGA-E1-A7YQ     TCGA-E1-A7YS 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-E1-A7YV     TCGA-E1-A7YW     TCGA-E1-A7YY     TCGA-E1-A7Z2 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-E1-A7Z4     TCGA-E1-A7Z6     TCGA-FG-5963     TCGA-FG-5965 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-FG-6688     TCGA-FG-6689     TCGA-FG-6690     TCGA-FG-6691 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-FG-7636     TCGA-FG-7638     TCGA-FG-8181     TCGA-FG-8185 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-FG-8186     TCGA-FG-8187     TCGA-FG-8188     TCGA-FG-8189 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-FG-A4MT     TCGA-FG-A4MW     TCGA-FG-A4MX     TCGA-FG-A60J 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-FG-A60L     TCGA-FG-A6J1     TCGA-FG-A6J3     TCGA-FG-A711 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-FG-A713     TCGA-FG-A87Q     TCGA-HT-7468     TCGA-HT-7470 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-HT-7475     TCGA-HT-7477     TCGA-HT-7481     TCGA-HT-7482 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-HT-7485     TCGA-HT-7607     TCGA-HT-7609     TCGA-HT-7611 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-HT-7686     TCGA-HT-7689     TCGA-HT-7692     TCGA-HT-7693 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-HT-7694     TCGA-HT-7854     TCGA-HT-7855     TCGA-HT-7856 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-HT-7858     TCGA-HT-7875     TCGA-HT-7884     TCGA-HT-8013 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-HT-8105     TCGA-HT-8113     TCGA-HT-8564     TCGA-HT-A4DV 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-HT-A5R7     TCGA-HT-A5RA     TCGA-HT-A5RC     TCGA-HT-A615 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-HT-A617     TCGA-HT-A618     TCGA-HT-A61A     TCGA-HT-A61B 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-HT-A61C     TCGA-HT-A74L     TCGA-IK-7675     TCGA-KT-A74X 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-KT-A7W1     TCGA-P5-A5EU     TCGA-P5-A5EV     TCGA-P5-A5EW 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-P5-A5EX     TCGA-P5-A5F0     TCGA-P5-A5F2     TCGA-P5-A5F4 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-P5-A5F6     TCGA-P5-A731     TCGA-QH-A65R     TCGA-QH-A65S 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-QH-A65V     TCGA-QH-A65X     TCGA-QH-A65Z     TCGA-QH-A6CS 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-QH-A6CU     TCGA-QH-A6CV     TCGA-QH-A6CW     TCGA-QH-A6CX 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-QH-A6CY     TCGA-QH-A6CZ     TCGA-QH-A6X3     TCGA-QH-A6X4 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-QH-A6X5     TCGA-QH-A6X8     TCGA-QH-A6X9     TCGA-QH-A6XA 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-QH-A6XC     TCGA-QH-A86X     TCGA-QH-A870     TCGA-RY-A83Y 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-RY-A840     TCGA-RY-A845     TCGA-RY-A847     TCGA-S9-A6TS 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A6TU     TCGA-S9-A6TV     TCGA-S9-A6TW     TCGA-S9-A6TX 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A6TY     TCGA-S9-A6TZ     TCGA-S9-A6U0     TCGA-S9-A6U1 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A6U2     TCGA-S9-A6U5     TCGA-S9-A6U6     TCGA-S9-A6U8 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A6UA     TCGA-S9-A6UB     TCGA-S9-A6WD     TCGA-S9-A6WE 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A6WG     TCGA-S9-A6WH     TCGA-S9-A6WI     TCGA-S9-A6WM 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A6WN     TCGA-S9-A6WO     TCGA-S9-A6WP     TCGA-S9-A6WQ 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A7IQ     TCGA-S9-A7IS     TCGA-S9-A7IX     TCGA-S9-A7IY 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A7IZ     TCGA-S9-A7J0     TCGA-S9-A7J1     TCGA-S9-A7J2 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A7J3     TCGA-S9-A7QW     TCGA-S9-A7QX     TCGA-S9-A7QY 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A7QZ     TCGA-S9-A7R1     TCGA-S9-A7R2     TCGA-S9-A7R3 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A7R4     TCGA-S9-A7R7     TCGA-S9-A7R8     TCGA-S9-A89V 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-S9-A89Z     TCGA-TM-A7C3     TCGA-TM-A7C4     TCGA-TM-A7C5 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-TM-A7CA     TCGA-TM-A7CF     TCGA-TM-A84B     TCGA-TM-A84C 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-TM-A84F     TCGA-TM-A84G     TCGA-TM-A84H     TCGA-TM-A84I 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-TM-A84J     TCGA-TM-A84L     TCGA-TM-A84M     TCGA-TM-A84O 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-TM-A84Q     TCGA-TM-A84R     TCGA-TM-A84S     TCGA-TM-A84T 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-TQ-A7RG     TCGA-TQ-A7RK     TCGA-TQ-A7RM     TCGA-TQ-A7RN 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-TQ-A7RO     TCGA-TQ-A7RP     TCGA-TQ-A7RQ     TCGA-TQ-A7RR 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-TQ-A7RS     TCGA-TQ-A7RU     TCGA-TQ-A7RV     TCGA-TQ-A7RW 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-VM-A8C8     TCGA-VM-A8CA     TCGA-VM-A8CD     TCGA-VM-A8CE 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-VM-A8CF     TCGA-VM-A8CH     TCGA-WY-A858     TCGA-WY-A859 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  TPX2 MUTATED             2                1                 2
  TPX2 WILD-TYPE         190              129               188
D61V6, multiclass
                   clus
vv                  TPX2 MUTATED TPX2 WILD-TYPE
  ASTROCYTOMA                  2            190
  OLIGOASTROCYTOMA             1            129
  OLIGODENDROGLIOMA            2            188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TPX2 MUTATED                                  0     0
  TPX2 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  TPX2 MUTATED                           0     5
  TPX2 WILD-TYPE                        21   467
D61V7, multiclass
                                  clus
vv                                 TPX2 MUTATED TPX2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       5            467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D61V8, binary
                cls
clus               0   1
  TPX2 MUTATED     2   3
  TPX2 WILD-TYPE  30 443
[1] "tbl2"
                cls
clus             [,1] [,2]
  TPX2 MUTATED      2    3
  TPX2 WILD-TYPE   30  443
                        clus
vv                       TPX2 MUTATED TPX2 WILD-TYPE
  HISPANIC OR LATINO                2             30
  NOT HISPANIC OR LATINO            3            443
[1] 2 2
[1] FALSE

Clustering(62) Variable = KRT15 MUTATION ANALYSIS
D62V1, survival
                 sevent
clus2               0   1
  KRT15 MUTATED     4   1
  KRT15 WILD-TYPE 386 118
  KRT15 MUTATED KRT15 WILD-TYPE 
              5             504 
  KRT15 MUTATED KRT15 WILD-TYPE 
              1             118 
$`KRT15 MUTATED`
TCGA-HT-7608 TCGA-QH-A6X9 TCGA-S9-A7R2 TCGA-TM-A7C4 TCGA-TM-A84M 
       22.06         1.91        10.39        48.33        24.79 

$`KRT15 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
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-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 
       14.99       105.21         6.54         8.84        90.77        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       26.30        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       62.01        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        5.10        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O 
       95.11        20.98        22.29        11.41        26.76        17.16 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
        7.50        44.42         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       16.18        21.30        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 
       41.33        18.44        15.35        17.88        40.08        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       18.38        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       48.69        20.45        18.64         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 
       56.58        13.45        41.49        45.60        68.32        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54         6.18        10.55        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 
       20.81        20.71        19.00        42.77        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6XA TCGA-QH-A6XC 
       10.29        14.53        16.34        16.73        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       54.77        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  KRT15 MUTATED KRT15 WILD-TYPE 
           1.91            0.03 
  KRT15 MUTATED KRT15 WILD-TYPE 
          48.33          211.17 
  KRT15 MUTATED KRT15 WILD-TYPE 
         22.060          20.695 
[1] "1.9 - 48.3 (22.1)"  "0.0 - 211.2 (20.7)"
[1] "hr=" "1.4"
D62V2, continuous
D62V3, binary
                 cls
clus                0   1
  KRT15 MUTATED     2   4
  KRT15 WILD-TYPE 227 279
[1] "tbl2"
                 cls
clus              [,1] [,2]
  KRT15 MUTATED      2    4
  KRT15 WILD-TYPE  227  279
        clus
vv       KRT15 MUTATED KRT15 WILD-TYPE
  FEMALE             2             227
  MALE               4             279
[1] 2 2
[1] FALSE
D62V4, binary
                 cls
clus                0   1
  KRT15 MUTATED     4   2
  KRT15 WILD-TYPE 182 289
[1] "tbl2"
                 cls
clus              [,1] [,2]
  KRT15 MUTATED      4    2
  KRT15 WILD-TYPE  182  289
     clus
vv    KRT15 MUTATED KRT15 WILD-TYPE
  NO              4             182
  YES             2             289
[1] 2 2
[1] FALSE
D62V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  KRT15 MUTATED             3                1                 2
  KRT15 WILD-TYPE         189              129               188
D62V6, multiclass
                   clus
vv                  KRT15 MUTATED KRT15 WILD-TYPE
  ASTROCYTOMA                   3             189
  OLIGOASTROCYTOMA              1             129
  OLIGODENDROGLIOMA             2             188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  KRT15 MUTATED                                  0     0
  KRT15 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  KRT15 MUTATED                           1     5
  KRT15 WILD-TYPE                        20   467
D62V7, multiclass
                                  clus
vv                                 KRT15 MUTATED KRT15 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    1              20
  WHITE                                        5             467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D62V8, binary
                 cls
clus                0   1
  KRT15 MUTATED     0   6
  KRT15 WILD-TYPE  32 440
[1] "tbl2"
                 cls
clus              [,1] [,2]
  KRT15 MUTATED      0    6
  KRT15 WILD-TYPE   32  440
                        clus
vv                       KRT15 MUTATED KRT15 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO             6             440
[1] 2 2
[1] FALSE

Clustering(63) Variable = HTR3A MUTATION ANALYSIS
D63V1, survival
                 sevent
clus2               0   1
  HTR3A MUTATED     5   2
  HTR3A WILD-TYPE 385 117
  HTR3A MUTATED HTR3A WILD-TYPE 
              7             502 
  HTR3A MUTATED HTR3A WILD-TYPE 
              2             117 
$`HTR3A MUTATED`
TCGA-DB-5279 TCGA-DU-5852 TCGA-DU-6392 TCGA-HT-8013 TCGA-R8-A6MO TCGA-S9-A6WN 
       44.52         6.74       211.17        63.55        32.65        26.47 
TCGA-VW-A7QS 
       23.21 

$`HTR3A WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       72.92        50.86        91.13        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5853 
       13.71        18.61        18.02        14.56        17.46        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
        9.40         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       88.83        94.03        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       84.99        31.10        19.86        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        43.04        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  HTR3A MUTATED HTR3A WILD-TYPE 
           6.74            0.03 
  HTR3A MUTATED HTR3A WILD-TYPE 
         211.17          182.33 
  HTR3A MUTATED HTR3A WILD-TYPE 
         32.650          20.645 
[1] "6.7 - 211.2 (32.6)" "0.0 - 182.3 (20.6)"
[1] "hr=" "1.8"
D63V2, continuous
D63V3, binary
                 cls
clus                0   1
  HTR3A MUTATED     6   1
  HTR3A WILD-TYPE 223 282
[1] "tbl2"
                 cls
clus              [,1] [,2]
  HTR3A MUTATED      6    1
  HTR3A WILD-TYPE  223  282
        clus
vv       HTR3A MUTATED HTR3A WILD-TYPE
  FEMALE             6             223
  MALE               1             282
[1] 2 2
[1] FALSE
D63V4, binary
                 cls
clus                0   1
  HTR3A MUTATED     4   3
  HTR3A WILD-TYPE 182 288
[1] "tbl2"
                 cls
clus              [,1] [,2]
  HTR3A MUTATED      4    3
  HTR3A WILD-TYPE  182  288
     clus
vv    HTR3A MUTATED HTR3A WILD-TYPE
  NO              4             182
  YES             3             288
[1] 2 2
[1] FALSE
D63V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  HTR3A MUTATED             2                2                 3
  HTR3A WILD-TYPE         190              128               187
D63V6, multiclass
                   clus
vv                  HTR3A MUTATED HTR3A WILD-TYPE
  ASTROCYTOMA                   2             190
  OLIGOASTROCYTOMA              2             128
  OLIGODENDROGLIOMA             3             187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  HTR3A MUTATED                                  0     2
  HTR3A WILD-TYPE                                1     6
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  HTR3A MUTATED                           0     4
  HTR3A WILD-TYPE                        21   468
D63V7, multiclass
                                  clus
vv                                 HTR3A MUTATED HTR3A WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        2               6
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        4             468
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D63V8, binary
                 cls
clus                0   1
  HTR3A MUTATED     0   6
  HTR3A WILD-TYPE  32 440
[1] "tbl2"
                 cls
clus              [,1] [,2]
  HTR3A MUTATED      0    6
  HTR3A WILD-TYPE   32  440
                        clus
vv                       HTR3A MUTATED HTR3A WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO             6             440
[1] 2 2
[1] FALSE

Clustering(64) Variable = C14ORF4 MUTATION ANALYSIS
D64V1, survival
                   sevent
clus2                 0   1
  C14ORF4 MUTATED     3   0
  C14ORF4 WILD-TYPE 387 119
  C14ORF4 MUTATED C14ORF4 WILD-TYPE 
                3               506 
  C14ORF4 MUTATED C14ORF4 WILD-TYPE 
                0               119 
$`C14ORF4 MUTATED`
TCGA-HT-7881 TCGA-HT-A4DS TCGA-S9-A6TZ 
       35.47         0.23        36.82 

$`C14ORF4 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
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-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 
       14.99       105.21         6.54         8.84        90.77        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       26.30        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       62.01        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        5.10        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O 
       95.11        20.98        22.29        11.41        26.76        17.16 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
        7.50        44.42         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       16.18        21.30        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 
       41.33        18.44        15.35        17.88        40.08        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       18.38        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       48.69        20.45        18.64         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        0.13         3.68         5.33         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       28.27        15.72        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23         2.20         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       35.38        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  C14ORF4 MUTATED C14ORF4 WILD-TYPE 
             0.23              0.03 
  C14ORF4 MUTATED C14ORF4 WILD-TYPE 
            36.82            211.17 
  C14ORF4 MUTATED C14ORF4 WILD-TYPE 
           35.470            20.695 
[1] "0.2 - 36.8 (35.5)"  "0.0 - 211.2 (20.7)"
[1] "hr="     "3300000"
D64V2, continuous
D64V3, binary
                   cls
clus                  0   1
  C14ORF4 MUTATED     2   1
  C14ORF4 WILD-TYPE 227 282
[1] "tbl2"
                   cls
clus                [,1] [,2]
  C14ORF4 MUTATED      2    1
  C14ORF4 WILD-TYPE  227  282
        clus
vv       C14ORF4 MUTATED C14ORF4 WILD-TYPE
  FEMALE               2               227
  MALE                 1               282
[1] 2 2
[1] FALSE
D64V4, binary
                   cls
clus                  0   1
  C14ORF4 MUTATED     1   1
  C14ORF4 WILD-TYPE 185 290
[1] "tbl2"
                   cls
clus                [,1] [,2]
  C14ORF4 MUTATED      1    1
  C14ORF4 WILD-TYPE  185  290
     clus
vv    C14ORF4 MUTATED C14ORF4 WILD-TYPE
  NO                1               185
  YES               1               290
[1] 2 2
[1] FALSE
D64V5, continuous
[1] "Remove cluster labels:" "C14ORF4 MUTATED"       
clus
  C14ORF4 MUTATED C14ORF4 WILD-TYPE 
                1               305 
       TCGA-CS-4938        TCGA-CS-4941        TCGA-CS-4942        TCGA-CS-4943 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-CS-4944        TCGA-CS-5390        TCGA-CS-5393        TCGA-CS-5395 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-CS-5396        TCGA-CS-5397        TCGA-CS-6186        TCGA-CS-6188 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-CS-6290        TCGA-CS-6665        TCGA-CS-6666        TCGA-CS-6667 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-CS-6668        TCGA-CS-6669        TCGA-DB-5274        TCGA-DB-A4XE 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DB-A64L        TCGA-DB-A64Q        TCGA-DB-A64R        TCGA-DB-A64S 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DB-A64U        TCGA-DB-A64V        TCGA-DB-A64W        TCGA-DB-A64X 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DB-A75L        TCGA-DB-A75O        TCGA-DH-5140        TCGA-DH-5142 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DH-5143        TCGA-DH-5144        TCGA-DH-A66B        TCGA-DH-A66D 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DH-A66F        TCGA-DH-A66G        TCGA-DH-A7UR        TCGA-DH-A7UU 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DH-A7UV        TCGA-DU-5851        TCGA-DU-5852        TCGA-DU-5853 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-5854        TCGA-DU-5855        TCGA-DU-5870        TCGA-DU-5871 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-5874        TCGA-DU-6396        TCGA-DU-6401        TCGA-DU-6403 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-6404        TCGA-DU-6405        TCGA-DU-6407        TCGA-DU-6408 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-6410        TCGA-DU-7009        TCGA-DU-7011        TCGA-DU-7013 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-7015        TCGA-DU-7018        TCGA-DU-7019        TCGA-DU-7294 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-7298        TCGA-DU-7299        TCGA-DU-7300        TCGA-DU-7301 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-7302        TCGA-DU-7304        TCGA-DU-7306        TCGA-DU-7309 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-8158        TCGA-DU-8161        TCGA-DU-8162        TCGA-DU-8163 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-8165        TCGA-DU-8167        TCGA-DU-8168        TCGA-DU-A5TP 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-A5TR        TCGA-DU-A5TS        TCGA-DU-A5TU        TCGA-DU-A5TW 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-A6S2        TCGA-DU-A6S6        TCGA-DU-A6S7        TCGA-DU-A6S8 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-A76R        TCGA-DU-A7T6        TCGA-DU-A7T8        TCGA-DU-A7TA 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-DU-A7TB        TCGA-DU-A7TC        TCGA-DU-A7TD        TCGA-DU-A7TG 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-E1-5302        TCGA-E1-5303        TCGA-E1-5304        TCGA-E1-5305 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-E1-5307        TCGA-E1-5311        TCGA-E1-5318        TCGA-E1-5319 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-E1-5322        TCGA-E1-A7YE        TCGA-E1-A7YH        TCGA-E1-A7YI 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-E1-A7YJ        TCGA-E1-A7YK        TCGA-E1-A7YL        TCGA-E1-A7YM 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-E1-A7YN        TCGA-E1-A7YO        TCGA-E1-A7YQ        TCGA-E1-A7YS 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-E1-A7YV        TCGA-E1-A7YW        TCGA-E1-A7YY        TCGA-E1-A7Z2 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-E1-A7Z4        TCGA-E1-A7Z6        TCGA-FG-5963        TCGA-FG-5965 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-FG-6688        TCGA-FG-6689        TCGA-FG-6690        TCGA-FG-6691 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-FG-7636        TCGA-FG-7638        TCGA-FG-8181        TCGA-FG-8185 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-FG-8186        TCGA-FG-8187        TCGA-FG-8188        TCGA-FG-8189 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-FG-A4MT        TCGA-FG-A4MW        TCGA-FG-A4MX        TCGA-FG-A60J 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-FG-A60L        TCGA-FG-A6J1        TCGA-FG-A6J3        TCGA-FG-A711 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-FG-A713        TCGA-FG-A87Q        TCGA-HT-7468        TCGA-HT-7470 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-HT-7475        TCGA-HT-7477        TCGA-HT-7481        TCGA-HT-7482 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-HT-7485        TCGA-HT-7607        TCGA-HT-7609        TCGA-HT-7611 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-HT-7686        TCGA-HT-7689        TCGA-HT-7692        TCGA-HT-7693 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-HT-7694        TCGA-HT-7854        TCGA-HT-7855        TCGA-HT-7856 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-HT-7858        TCGA-HT-7875        TCGA-HT-7884        TCGA-HT-8013 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-HT-8105        TCGA-HT-8113        TCGA-HT-8564        TCGA-HT-A4DV 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-HT-A5R7        TCGA-HT-A5RA        TCGA-HT-A5RC        TCGA-HT-A615 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-HT-A617        TCGA-HT-A618        TCGA-HT-A61A        TCGA-HT-A61B 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-HT-A61C        TCGA-HT-A74L        TCGA-IK-7675        TCGA-KT-A74X 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-KT-A7W1        TCGA-P5-A5EU        TCGA-P5-A5EV        TCGA-P5-A5EW 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-P5-A5EX        TCGA-P5-A5F0        TCGA-P5-A5F2        TCGA-P5-A5F4 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-P5-A5F6        TCGA-P5-A731        TCGA-QH-A65R        TCGA-QH-A65S 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-QH-A65V        TCGA-QH-A65X        TCGA-QH-A65Z        TCGA-QH-A6CS 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-QH-A6CU        TCGA-QH-A6CV        TCGA-QH-A6CW        TCGA-QH-A6CX 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-QH-A6CY        TCGA-QH-A6CZ        TCGA-QH-A6X3        TCGA-QH-A6X4 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-QH-A6X5        TCGA-QH-A6X8        TCGA-QH-A6X9        TCGA-QH-A6XA 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-QH-A6XC        TCGA-QH-A86X        TCGA-QH-A870        TCGA-RY-A83Y 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-RY-A840        TCGA-RY-A845        TCGA-RY-A847        TCGA-S9-A6TS 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A6TU        TCGA-S9-A6TV        TCGA-S9-A6TW        TCGA-S9-A6TX 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A6TY        TCGA-S9-A6U0        TCGA-S9-A6U1        TCGA-S9-A6U2 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A6U5        TCGA-S9-A6U6        TCGA-S9-A6U8        TCGA-S9-A6UA 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A6UB        TCGA-S9-A6WD        TCGA-S9-A6WE        TCGA-S9-A6WG 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A6WH        TCGA-S9-A6WI        TCGA-S9-A6WL        TCGA-S9-A6WM 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A6WN        TCGA-S9-A6WO        TCGA-S9-A6WP        TCGA-S9-A6WQ 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A7IQ        TCGA-S9-A7IS        TCGA-S9-A7IX        TCGA-S9-A7IY 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A7IZ        TCGA-S9-A7J0        TCGA-S9-A7J1        TCGA-S9-A7J2 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A7J3        TCGA-S9-A7QW        TCGA-S9-A7QX        TCGA-S9-A7QY 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A7QZ        TCGA-S9-A7R1        TCGA-S9-A7R2        TCGA-S9-A7R3 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A7R4        TCGA-S9-A7R7        TCGA-S9-A7R8        TCGA-S9-A89V 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-S9-A89Z        TCGA-TM-A7C3        TCGA-TM-A7C4        TCGA-TM-A7C5 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-TM-A7CA        TCGA-TM-A7CF        TCGA-TM-A84B        TCGA-TM-A84C 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-TM-A84F        TCGA-TM-A84G        TCGA-TM-A84H        TCGA-TM-A84I 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-TM-A84J        TCGA-TM-A84L        TCGA-TM-A84M        TCGA-TM-A84O 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-TM-A84Q        TCGA-TM-A84R        TCGA-TM-A84S        TCGA-TM-A84T 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-TQ-A7RG        TCGA-TQ-A7RK        TCGA-TQ-A7RM        TCGA-TQ-A7RN 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-TQ-A7RO        TCGA-TQ-A7RP        TCGA-TQ-A7RQ        TCGA-TQ-A7RR 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-TQ-A7RS        TCGA-TQ-A7RU        TCGA-TQ-A7RV        TCGA-TQ-A7RW 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-TQ-A8XE        TCGA-VM-A8C8        TCGA-VM-A8CA        TCGA-VM-A8CD 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-VM-A8CE        TCGA-VM-A8CF        TCGA-VM-A8CH        TCGA-WY-A858 
"C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" "C14ORF4 WILD-TYPE" 
       TCGA-WY-A859 
"C14ORF4 WILD-TYPE" 
                   vv
clus                ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  C14ORF4 MUTATED             2                0                 1
  C14ORF4 WILD-TYPE         190              130               189
D64V6, multiclass
                   clus
vv                  C14ORF4 MUTATED C14ORF4 WILD-TYPE
  ASTROCYTOMA                     2               190
  OLIGOASTROCYTOMA                0               130
  OLIGODENDROGLIOMA               1               189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  C14ORF4 MUTATED                                  0     0
  C14ORF4 WILD-TYPE                                1     8
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  C14ORF4 MUTATED                           1     2
  C14ORF4 WILD-TYPE                        20   470
D64V7, multiclass
                                  clus
vv                                 C14ORF4 MUTATED C14ORF4 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 8
  BLACK OR AFRICAN AMERICAN                      1                20
  WHITE                                          2               470
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D64V8, binary
                   cls
clus                  0   1
  C14ORF4 MUTATED     0   3
  C14ORF4 WILD-TYPE  32 443
[1] "tbl2"
                   cls
clus                [,1] [,2]
  C14ORF4 MUTATED      0    3
  C14ORF4 WILD-TYPE   32  443
                        clus
vv                       C14ORF4 MUTATED C14ORF4 WILD-TYPE
  HISPANIC OR LATINO                   0                32
  NOT HISPANIC OR LATINO               3               443
[1] 2 2
[1] FALSE

Clustering(65) Variable = R3HDM1 MUTATION ANALYSIS
D65V1, survival
                  sevent
clus2                0   1
  R3HDM1 MUTATED     7   0
  R3HDM1 WILD-TYPE 383 119
  R3HDM1 MUTATED R3HDM1 WILD-TYPE 
               7              502 
  R3HDM1 MUTATED R3HDM1 WILD-TYPE 
               0              119 
$`R3HDM1 MUTATED`
TCGA-DB-5281 TCGA-DU-6392 TCGA-DU-A7TC TCGA-FG-A60K TCGA-FG-A6IZ TCGA-HT-8564 
       78.28       211.17        37.38        17.82        15.02        15.72 
TCGA-S9-A7QX 
       18.54 

$`R3HDM1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-A4X9 
       72.92        50.86        91.13        44.52        36.56        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
      139.04        84.33        51.52         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       14.76        21.53        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 
       36.66        48.69        20.45        18.64         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       34.19        13.74        28.27         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A 
       16.93         1.81        16.14        16.83        21.40         6.38 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54         6.18        10.55 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X 
       12.76        20.81        20.71        19.00        42.77        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        4.11         5.88         7.63         0.76         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50         5.03        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       32.65        59.38        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        28.14        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QY TCGA-S9-A7QZ 
        8.19         2.04        20.68        15.06        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        43.04        43.20        13.51         0.10         7.89 
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-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  R3HDM1 MUTATED R3HDM1 WILD-TYPE 
           15.02             0.03 
  R3HDM1 MUTATED R3HDM1 WILD-TYPE 
          211.17           182.33 
  R3HDM1 MUTATED R3HDM1 WILD-TYPE 
           18.54            20.76 
[1] "15.0 - 211.2 (18.5)" "0.0 - 182.3 (20.8)" 
[1] "hr="     "2.7e+07"
D65V2, continuous
D65V3, binary
                  cls
clus                 0   1
  R3HDM1 MUTATED     3   4
  R3HDM1 WILD-TYPE 226 279
[1] "tbl2"
                  cls
clus               [,1] [,2]
  R3HDM1 MUTATED      3    4
  R3HDM1 WILD-TYPE  226  279
        clus
vv       R3HDM1 MUTATED R3HDM1 WILD-TYPE
  FEMALE              3              226
  MALE                4              279
[1] 2 2
[1] FALSE
D65V4, binary
                  cls
clus                 0   1
  R3HDM1 MUTATED     3   4
  R3HDM1 WILD-TYPE 183 287
[1] "tbl2"
                  cls
clus               [,1] [,2]
  R3HDM1 MUTATED      3    4
  R3HDM1 WILD-TYPE  183  287
     clus
vv    R3HDM1 MUTATED R3HDM1 WILD-TYPE
  NO               3              183
  YES              4              287
[1] 2 2
[1] FALSE
D65V5, continuous
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  R3HDM1 MUTATED             4                2                 1
  R3HDM1 WILD-TYPE         188              128               189
D65V6, multiclass
                   clus
vv                  R3HDM1 MUTATED R3HDM1 WILD-TYPE
  ASTROCYTOMA                    4              188
  OLIGOASTROCYTOMA               2              128
  OLIGODENDROGLIOMA              1              189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  R3HDM1 MUTATED                                  0     0
  R3HDM1 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  R3HDM1 MUTATED                           0     7
  R3HDM1 WILD-TYPE                        21   465
D65V7, multiclass
                                  clus
vv                                 R3HDM1 MUTATED R3HDM1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                         7              465
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D65V8, binary
                  cls
clus                 0   1
  R3HDM1 MUTATED     1   6
  R3HDM1 WILD-TYPE  31 440
[1] "tbl2"
                  cls
clus               [,1] [,2]
  R3HDM1 MUTATED      1    6
  R3HDM1 WILD-TYPE   31  440
                        clus
vv                       R3HDM1 MUTATED R3HDM1 WILD-TYPE
  HISPANIC OR LATINO                  1               31
  NOT HISPANIC OR LATINO              6              440
[1] 2 2
[1] FALSE

Clustering(66) Variable = G6PC MUTATION ANALYSIS
D66V1, survival
                sevent
clus2              0   1
  G6PC MUTATED     3   2
  G6PC WILD-TYPE 387 117
  G6PC MUTATED G6PC WILD-TYPE 
             5            504 
  G6PC MUTATED G6PC WILD-TYPE 
             2            117 
$`G6PC MUTATED`
TCGA-DU-6392 TCGA-DU-7292 TCGA-HT-8105 TCGA-HT-A74H TCGA-IK-7675 
      211.17         7.96         6.25         2.43        19.00 

$`G6PC WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
       10.36        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
       12.23         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74J 
       16.83        21.40         6.38        17.52        17.65        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-8125 
        6.18        10.55        12.76        20.81        20.71        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  G6PC MUTATED G6PC WILD-TYPE 
          2.43           0.03 
  G6PC MUTATED G6PC WILD-TYPE 
        211.17         182.33 
  G6PC MUTATED G6PC WILD-TYPE 
          7.96          20.81 
[1] "2.4 - 211.2 (8.0)"  "0.0 - 182.3 (20.8)"
[1] "hr=" "1.1"
D66V2, continuous
D66V3, binary
                cls
clus               0   1
  G6PC MUTATED     2   4
  G6PC WILD-TYPE 227 279
[1] "tbl2"
                cls
clus             [,1] [,2]
  G6PC MUTATED      2    4
  G6PC WILD-TYPE  227  279
        clus
vv       G6PC MUTATED G6PC WILD-TYPE
  FEMALE            2            227
  MALE              4            279
[1] 2 2
[1] FALSE
D66V4, binary
                cls
clus               0   1
  G6PC MUTATED     1   5
  G6PC WILD-TYPE 185 286
[1] "tbl2"
                cls
clus             [,1] [,2]
  G6PC MUTATED      1    5
  G6PC WILD-TYPE  185  286
     clus
vv    G6PC MUTATED G6PC WILD-TYPE
  NO             1            185
  YES            5            286
[1] 2 2
[1] FALSE
D66V5, continuous
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  G6PC MUTATED             3                0                 3
  G6PC WILD-TYPE         189              130               187
D66V6, multiclass
                   clus
vv                  G6PC MUTATED G6PC WILD-TYPE
  ASTROCYTOMA                  3            189
  OLIGOASTROCYTOMA             0            130
  OLIGODENDROGLIOMA            3            187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  G6PC MUTATED                                  0     0
  G6PC WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  G6PC MUTATED                           0     6
  G6PC WILD-TYPE                        21   466
D66V7, multiclass
                                  clus
vv                                 G6PC MUTATED G6PC WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       6            466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D66V8, binary
                cls
clus               0   1
  G6PC MUTATED     2   4
  G6PC WILD-TYPE  30 442
[1] "tbl2"
                cls
clus             [,1] [,2]
  G6PC MUTATED      2    4
  G6PC WILD-TYPE   30  442
                        clus
vv                       G6PC MUTATED G6PC WILD-TYPE
  HISPANIC OR LATINO                2             30
  NOT HISPANIC OR LATINO            4            442
[1] 2 2
[1] FALSE

Clustering(67) Variable = DLC1 MUTATION ANALYSIS
D67V1, survival
                sevent
clus2              0   1
  DLC1 MUTATED     4   2
  DLC1 WILD-TYPE 386 117
  DLC1 MUTATED DLC1 WILD-TYPE 
             6            503 
  DLC1 MUTATED DLC1 WILD-TYPE 
             2            117 
$`DLC1 MUTATED`
TCGA-DU-6392 TCGA-DU-6395 TCGA-FG-7638 TCGA-HT-8011 TCGA-HT-A5RC TCGA-TQ-A7RJ 
      211.17        49.02        22.55        16.24         5.33        40.41 

$`DLC1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6396 TCGA-DU-6397 
       17.49        15.16        52.11        22.42        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       23.90        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        40.08        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8012 
       35.47         3.72        11.28        31.43         1.64         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       19.69        15.98         2.04        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        43.04        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  DLC1 MUTATED DLC1 WILD-TYPE 
          5.33           0.03 
  DLC1 MUTATED DLC1 WILD-TYPE 
        211.17         182.33 
  DLC1 MUTATED DLC1 WILD-TYPE 
         31.48          20.68 
[1] "5.3 - 211.2 (31.5)" "0.0 - 182.3 (20.7)"
[1] "hr=" "1.5"
D67V2, continuous
D67V3, binary
                cls
clus               0   1
  DLC1 MUTATED     4   2
  DLC1 WILD-TYPE 225 281
[1] "tbl2"
                cls
clus             [,1] [,2]
  DLC1 MUTATED      4    2
  DLC1 WILD-TYPE  225  281
        clus
vv       DLC1 MUTATED DLC1 WILD-TYPE
  FEMALE            4            225
  MALE              2            281
[1] 2 2
[1] FALSE
D67V4, binary
                cls
clus               0   1
  DLC1 MUTATED     0   6
  DLC1 WILD-TYPE 186 285
[1] "tbl2"
                cls
clus             [,1] [,2]
  DLC1 MUTATED      0    6
  DLC1 WILD-TYPE  186  285
     clus
vv    DLC1 MUTATED DLC1 WILD-TYPE
  NO             0            186
  YES            6            285
[1] 2 2
[1] FALSE
D67V5, continuous
[1] "Remove cluster labels:" "DLC1 MUTATED"          
clus
  DLC1 MUTATED DLC1 WILD-TYPE 
             2            304 
    TCGA-CS-4938     TCGA-CS-4941     TCGA-CS-4942     TCGA-CS-4943 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-CS-4944     TCGA-CS-5390     TCGA-CS-5393     TCGA-CS-5395 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-CS-5396     TCGA-CS-5397     TCGA-CS-6186     TCGA-CS-6188 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-CS-6290     TCGA-CS-6665     TCGA-CS-6666     TCGA-CS-6667 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-CS-6668     TCGA-CS-6669     TCGA-DB-5274     TCGA-DB-A4XE 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DB-A64L     TCGA-DB-A64Q     TCGA-DB-A64R     TCGA-DB-A64S 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DB-A64U     TCGA-DB-A64V     TCGA-DB-A64W     TCGA-DB-A64X 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DB-A75L     TCGA-DB-A75O     TCGA-DH-5140     TCGA-DH-5142 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DH-5143     TCGA-DH-5144     TCGA-DH-A66B     TCGA-DH-A66D 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DH-A66F     TCGA-DH-A66G     TCGA-DH-A7UR     TCGA-DH-A7UU 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DH-A7UV     TCGA-DU-5851     TCGA-DU-5852     TCGA-DU-5853 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-5854     TCGA-DU-5855     TCGA-DU-5870     TCGA-DU-5871 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-5874     TCGA-DU-6396     TCGA-DU-6401     TCGA-DU-6403 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-6404     TCGA-DU-6405     TCGA-DU-6407     TCGA-DU-6408 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-6410     TCGA-DU-7009     TCGA-DU-7011     TCGA-DU-7013 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-7015     TCGA-DU-7018     TCGA-DU-7019     TCGA-DU-7294 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-7298     TCGA-DU-7299     TCGA-DU-7300     TCGA-DU-7301 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-7302     TCGA-DU-7304     TCGA-DU-7306     TCGA-DU-7309 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-8158     TCGA-DU-8161     TCGA-DU-8162     TCGA-DU-8163 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-8165     TCGA-DU-8167     TCGA-DU-8168     TCGA-DU-A5TP 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-A5TR     TCGA-DU-A5TS     TCGA-DU-A5TU     TCGA-DU-A5TW 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-A6S2     TCGA-DU-A6S6     TCGA-DU-A6S7     TCGA-DU-A6S8 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-A76R     TCGA-DU-A7T6     TCGA-DU-A7T8     TCGA-DU-A7TA 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DU-A7TB     TCGA-DU-A7TC     TCGA-DU-A7TD     TCGA-DU-A7TG 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E1-5302     TCGA-E1-5303     TCGA-E1-5304     TCGA-E1-5305 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E1-5307     TCGA-E1-5311     TCGA-E1-5318     TCGA-E1-5319 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E1-5322     TCGA-E1-A7YE     TCGA-E1-A7YH     TCGA-E1-A7YI 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E1-A7YJ     TCGA-E1-A7YK     TCGA-E1-A7YL     TCGA-E1-A7YM 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E1-A7YN     TCGA-E1-A7YO     TCGA-E1-A7YQ     TCGA-E1-A7YS 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E1-A7YV     TCGA-E1-A7YW     TCGA-E1-A7YY     TCGA-E1-A7Z2 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E1-A7Z4     TCGA-E1-A7Z6     TCGA-FG-5963     TCGA-FG-5965 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FG-6688     TCGA-FG-6689     TCGA-FG-6690     TCGA-FG-6691 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FG-7636     TCGA-FG-8181     TCGA-FG-8185     TCGA-FG-8186 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FG-8187     TCGA-FG-8188     TCGA-FG-8189     TCGA-FG-A4MT 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FG-A4MW     TCGA-FG-A4MX     TCGA-FG-A60J     TCGA-FG-A60L 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FG-A6J1     TCGA-FG-A6J3     TCGA-FG-A711     TCGA-FG-A713 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FG-A87Q     TCGA-HT-7468     TCGA-HT-7470     TCGA-HT-7475 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-HT-7477     TCGA-HT-7481     TCGA-HT-7482     TCGA-HT-7485 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-HT-7607     TCGA-HT-7609     TCGA-HT-7611     TCGA-HT-7686 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-HT-7689     TCGA-HT-7692     TCGA-HT-7693     TCGA-HT-7694 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-HT-7854     TCGA-HT-7855     TCGA-HT-7856     TCGA-HT-7858 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-HT-7875     TCGA-HT-7884     TCGA-HT-8013     TCGA-HT-8105 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-HT-8113     TCGA-HT-8564     TCGA-HT-A4DV     TCGA-HT-A5R7 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-HT-A5RA     TCGA-HT-A615     TCGA-HT-A617     TCGA-HT-A618 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-HT-A61A     TCGA-HT-A61B     TCGA-HT-A61C     TCGA-HT-A74L 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-IK-7675     TCGA-KT-A74X     TCGA-KT-A7W1     TCGA-P5-A5EU 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-P5-A5EV     TCGA-P5-A5EW     TCGA-P5-A5EX     TCGA-P5-A5F0 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-P5-A5F2     TCGA-P5-A5F4     TCGA-P5-A5F6     TCGA-P5-A731 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-QH-A65R     TCGA-QH-A65S     TCGA-QH-A65V     TCGA-QH-A65X 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-QH-A65Z     TCGA-QH-A6CS     TCGA-QH-A6CU     TCGA-QH-A6CV 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-QH-A6CW     TCGA-QH-A6CX     TCGA-QH-A6CY     TCGA-QH-A6CZ 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-QH-A6X3     TCGA-QH-A6X4     TCGA-QH-A6X5     TCGA-QH-A6X8 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-QH-A6X9     TCGA-QH-A6XA     TCGA-QH-A6XC     TCGA-QH-A86X 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-QH-A870     TCGA-RY-A83Y     TCGA-RY-A840     TCGA-RY-A845 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-RY-A847     TCGA-S9-A6TS     TCGA-S9-A6TU     TCGA-S9-A6TV 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A6TW     TCGA-S9-A6TX     TCGA-S9-A6TY     TCGA-S9-A6TZ 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A6U0     TCGA-S9-A6U1     TCGA-S9-A6U2     TCGA-S9-A6U5 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A6U6     TCGA-S9-A6U8     TCGA-S9-A6UA     TCGA-S9-A6UB 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A6WD     TCGA-S9-A6WE     TCGA-S9-A6WG     TCGA-S9-A6WH 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A6WI     TCGA-S9-A6WL     TCGA-S9-A6WM     TCGA-S9-A6WN 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A6WO     TCGA-S9-A6WP     TCGA-S9-A6WQ     TCGA-S9-A7IQ 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A7IS     TCGA-S9-A7IX     TCGA-S9-A7IY     TCGA-S9-A7IZ 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A7J0     TCGA-S9-A7J1     TCGA-S9-A7J2     TCGA-S9-A7J3 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A7QW     TCGA-S9-A7QX     TCGA-S9-A7QY     TCGA-S9-A7QZ 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A7R1     TCGA-S9-A7R2     TCGA-S9-A7R3     TCGA-S9-A7R4 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-S9-A7R7     TCGA-S9-A7R8     TCGA-S9-A89V     TCGA-S9-A89Z 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-TM-A7C3     TCGA-TM-A7C4     TCGA-TM-A7C5     TCGA-TM-A7CA 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-TM-A7CF     TCGA-TM-A84B     TCGA-TM-A84C     TCGA-TM-A84F 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-TM-A84G     TCGA-TM-A84H     TCGA-TM-A84I     TCGA-TM-A84J 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-TM-A84L     TCGA-TM-A84M     TCGA-TM-A84O     TCGA-TM-A84Q 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-TM-A84R     TCGA-TM-A84S     TCGA-TM-A84T     TCGA-TQ-A7RG 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-TQ-A7RK     TCGA-TQ-A7RM     TCGA-TQ-A7RN     TCGA-TQ-A7RO 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-TQ-A7RP     TCGA-TQ-A7RQ     TCGA-TQ-A7RR     TCGA-TQ-A7RS 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-TQ-A7RU     TCGA-TQ-A7RV     TCGA-TQ-A7RW     TCGA-TQ-A8XE 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-VM-A8C8     TCGA-VM-A8CA     TCGA-VM-A8CD     TCGA-VM-A8CE 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-VM-A8CF     TCGA-VM-A8CH     TCGA-WY-A858     TCGA-WY-A859 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  DLC1 MUTATED             3                2                 1
  DLC1 WILD-TYPE         189              128               189
D67V6, multiclass
                   clus
vv                  DLC1 MUTATED DLC1 WILD-TYPE
  ASTROCYTOMA                  3            189
  OLIGOASTROCYTOMA             2            128
  OLIGODENDROGLIOMA            1            189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DLC1 MUTATED                                  0     0
  DLC1 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  DLC1 MUTATED                           0     6
  DLC1 WILD-TYPE                        21   466
D67V7, multiclass
                                  clus
vv                                 DLC1 MUTATED DLC1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       6            466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D67V8, binary
                cls
clus               0   1
  DLC1 MUTATED     1   5
  DLC1 WILD-TYPE  31 441
[1] "tbl2"
                cls
clus             [,1] [,2]
  DLC1 MUTATED      1    5
  DLC1 WILD-TYPE   31  441
                        clus
vv                       DLC1 MUTATED DLC1 WILD-TYPE
  HISPANIC OR LATINO                1             31
  NOT HISPANIC OR LATINO            5            441
[1] 2 2
[1] FALSE

Clustering(68) Variable = SLC12A7 MUTATION ANALYSIS
D68V1, survival
                   sevent
clus2                 0   1
  SLC12A7 MUTATED     5   2
  SLC12A7 WILD-TYPE 385 117
  SLC12A7 MUTATED SLC12A7 WILD-TYPE 
                7               502 
  SLC12A7 MUTATED SLC12A7 WILD-TYPE 
                2               117 
$`SLC12A7 MUTATED`
TCGA-CS-5390 TCGA-DU-5872 TCGA-DU-6392 TCGA-E1-A7YJ TCGA-E1-A7YY TCGA-P5-A5EV 
       64.64        17.49       211.17        19.46       146.14         0.23 
TCGA-TM-A7C5 
       49.32 

$`SLC12A7 WILD-TYPE`
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 
        4.70         7.69        43.89        18.15        10.62        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.10        21.01         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5874 
       13.38         8.45         6.81       182.33        18.94        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
        3.65        12.43        16.18        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7Z2 
       51.88        15.32         0.76        32.45        36.82        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 
       42.54        41.33        18.44        15.35        17.88        40.08 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       16.01        20.09        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K 
       10.72        18.38        18.71        23.70        14.76        17.82 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 
       36.66        48.69        20.45        18.64         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       34.19        13.74        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40        14.40         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        4.11         5.88         7.63         0.76         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50         5.03        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       32.65        59.38        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        28.14        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7CA 
       31.59        18.71        20.48        54.77        48.33        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        43.04        43.20        13.51         0.10         7.89 
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-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  SLC12A7 MUTATED SLC12A7 WILD-TYPE 
             0.23              0.03 
  SLC12A7 MUTATED SLC12A7 WILD-TYPE 
           211.17            182.33 
  SLC12A7 MUTATED SLC12A7 WILD-TYPE 
           49.320            20.695 
[1] "0.2 - 211.2 (49.3)" "0.0 - 182.3 (20.7)"
[1] "hr=" "2.6"
D68V2, continuous
D68V3, binary
                   cls
clus                  0   1
  SLC12A7 MUTATED     4   3
  SLC12A7 WILD-TYPE 225 280
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC12A7 MUTATED      4    3
  SLC12A7 WILD-TYPE  225  280
        clus
vv       SLC12A7 MUTATED SLC12A7 WILD-TYPE
  FEMALE               4               225
  MALE                 3               280
[1] 2 2
[1] FALSE
D68V4, binary
                   cls
clus                  0   1
  SLC12A7 MUTATED     1   5
  SLC12A7 WILD-TYPE 185 286
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC12A7 MUTATED      1    5
  SLC12A7 WILD-TYPE  185  286
     clus
vv    SLC12A7 MUTATED SLC12A7 WILD-TYPE
  NO                1               185
  YES               5               286
[1] 2 2
[1] FALSE
D68V5, continuous
                   vv
clus                ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  SLC12A7 MUTATED             3                2                 2
  SLC12A7 WILD-TYPE         189              128               188
D68V6, multiclass
                   clus
vv                  SLC12A7 MUTATED SLC12A7 WILD-TYPE
  ASTROCYTOMA                     3               189
  OLIGOASTROCYTOMA                2               128
  OLIGODENDROGLIOMA               2               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SLC12A7 MUTATED                                  0     0
  SLC12A7 WILD-TYPE                                1     8
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  SLC12A7 MUTATED                           1     6
  SLC12A7 WILD-TYPE                        20   466
D68V7, multiclass
                                  clus
vv                                 SLC12A7 MUTATED SLC12A7 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 8
  BLACK OR AFRICAN AMERICAN                      1                20
  WHITE                                          6               466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D68V8, binary
                   cls
clus                  0   1
  SLC12A7 MUTATED     0   6
  SLC12A7 WILD-TYPE  32 440
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC12A7 MUTATED      0    6
  SLC12A7 WILD-TYPE   32  440
                        clus
vv                       SLC12A7 MUTATED SLC12A7 WILD-TYPE
  HISPANIC OR LATINO                   0                32
  NOT HISPANIC OR LATINO               6               440
[1] 2 2
[1] FALSE

Clustering(69) Variable = SMARCB1 MUTATION ANALYSIS
D69V1, survival
                   sevent
clus2                 0   1
  SMARCB1 MUTATED     3   1
  SMARCB1 WILD-TYPE 387 118
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
                4               505 
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
                1               118 
$`SMARCB1 MUTATED`
TCGA-DU-6392 TCGA-DU-7019 TCGA-DU-7299 TCGA-HT-7875 
      211.17        26.30        44.02         0.33 

$`SMARCB1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7290 
      105.21         6.54         8.84        90.77        30.67        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       23.61        37.15         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
             0.33              0.03 
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
           211.17            182.33 
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
            35.16             20.68 
[1] "0.3 - 211.2 (35.2)" "0.0 - 182.3 (20.7)"
[1] "hr=" "2.7"
D69V2, continuous
D69V3, binary
                   cls
clus                  0   1
  SMARCB1 MUTATED     1   3
  SMARCB1 WILD-TYPE 228 280
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SMARCB1 MUTATED      1    3
  SMARCB1 WILD-TYPE  228  280
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  FEMALE               1               228
  MALE                 3               280
[1] 2 2
[1] FALSE
D69V4, binary
                   cls
clus                  0   1
  SMARCB1 MUTATED     0   4
  SMARCB1 WILD-TYPE 186 287
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SMARCB1 MUTATED      0    4
  SMARCB1 WILD-TYPE  186  287
     clus
vv    SMARCB1 MUTATED SMARCB1 WILD-TYPE
  NO                0               186
  YES               4               287
[1] 2 2
[1] FALSE
D69V5, continuous
                   vv
clus                ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  SMARCB1 MUTATED             2                1                 1
  SMARCB1 WILD-TYPE         190              129               189
D69V6, multiclass
                   clus
vv                  SMARCB1 MUTATED SMARCB1 WILD-TYPE
  ASTROCYTOMA                     2               190
  OLIGOASTROCYTOMA                1               129
  OLIGODENDROGLIOMA               1               189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SMARCB1 MUTATED                                  0     0
  SMARCB1 WILD-TYPE                                1     8
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  SMARCB1 MUTATED                           0     4
  SMARCB1 WILD-TYPE                        21   468
D69V7, multiclass
                                  clus
vv                                 SMARCB1 MUTATED SMARCB1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 8
  BLACK OR AFRICAN AMERICAN                      0                21
  WHITE                                          4               468
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D69V8, binary
                   cls
clus                  0   1
  SMARCB1 MUTATED     0   4
  SMARCB1 WILD-TYPE  32 442
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SMARCB1 MUTATED      0    4
  SMARCB1 WILD-TYPE   32  442
                        clus
vv                       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  HISPANIC OR LATINO                   0                32
  NOT HISPANIC OR LATINO               4               442
[1] 2 2
[1] FALSE

Clustering(70) Variable = WRN MUTATION ANALYSIS
D70V1, survival
               sevent
clus2             0   1
  WRN MUTATED     5   0
  WRN WILD-TYPE 385 119
  WRN MUTATED WRN WILD-TYPE 
            5           504 
  WRN MUTATED WRN WILD-TYPE 
            0           119 
$`WRN MUTATED`
TCGA-DU-6392 TCGA-QH-A6X8 TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ 
      211.17        16.73        33.73        31.20        26.14 

$`WRN WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 
       56.58        13.45        41.49        45.60        68.32        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54         6.18        10.55        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 
       20.81        20.71        19.00        42.77        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       10.29        14.53        16.34         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RP TCGA-TQ-A7RR TCGA-TQ-A7RU 
       40.41        44.09        36.69        30.05        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  WRN MUTATED WRN WILD-TYPE 
        16.73          0.03 
  WRN MUTATED WRN WILD-TYPE 
       211.17        182.33 
  WRN MUTATED WRN WILD-TYPE 
        31.20         20.68 
[1] "16.7 - 211.2 (31.2)" "0.0 - 182.3 (20.7)" 
[1] "hr="   "1e+07"
D70V2, continuous
D70V3, binary
               cls
clus              0   1
  WRN MUTATED     3   2
  WRN WILD-TYPE 226 281
[1] "tbl2"
               cls
clus            [,1] [,2]
  WRN MUTATED      3    2
  WRN WILD-TYPE  226  281
        clus
vv       WRN MUTATED WRN WILD-TYPE
  FEMALE           3           226
  MALE             2           281
[1] 2 2
[1] FALSE
D70V4, binary
               cls
clus              0   1
  WRN MUTATED     2   3
  WRN WILD-TYPE 184 288
[1] "tbl2"
               cls
clus            [,1] [,2]
  WRN MUTATED      2    3
  WRN WILD-TYPE  184  288
     clus
vv    WRN MUTATED WRN WILD-TYPE
  NO            2           184
  YES           3           288
[1] 2 2
[1] FALSE
D70V5, continuous
               vv
clus            ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  WRN MUTATED             1                1                 3
  WRN WILD-TYPE         191              129               187
D70V6, multiclass
                   clus
vv                  WRN MUTATED WRN WILD-TYPE
  ASTROCYTOMA                 1           191
  OLIGOASTROCYTOMA            1           129
  OLIGODENDROGLIOMA           3           187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  WRN MUTATED                                  0     0
  WRN WILD-TYPE                                1     8
               vv
clus            BLACK OR AFRICAN AMERICAN WHITE
  WRN MUTATED                           1     4
  WRN WILD-TYPE                        20   468
D70V7, multiclass
                                  clus
vv                                 WRN MUTATED WRN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE           0             1
  ASIAN                                      0             8
  BLACK OR AFRICAN AMERICAN                  1            20
  WHITE                                      4           468
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D70V8, binary
               cls
clus              0   1
  WRN MUTATED     3   2
  WRN WILD-TYPE  29 444
[1] "tbl2"
               cls
clus            [,1] [,2]
  WRN MUTATED      3    2
  WRN WILD-TYPE   29  444
                        clus
vv                       WRN MUTATED WRN WILD-TYPE
  HISPANIC OR LATINO               3            29
  NOT HISPANIC OR LATINO           2           444
[1] 2 2
[1] FALSE

Clustering(71) Variable = LAMA4 MUTATION ANALYSIS
D71V1, survival
                 sevent
clus2               0   1
  LAMA4 MUTATED     3   1
  LAMA4 WILD-TYPE 387 118
  LAMA4 MUTATED LAMA4 WILD-TYPE 
              4             505 
  LAMA4 MUTATED LAMA4 WILD-TYPE 
              1             118 
$`LAMA4 MUTATED`
TCGA-CS-6186 TCGA-QH-A6CV TCGA-TQ-A7RR TCGA-W9-A837 
       17.69        14.53        25.87        51.06 

$`LAMA4 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6188 
       40.18         0.10        21.01         9.96         6.38        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 
       56.58        13.45        41.49        45.60        68.32        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54         6.18        10.55        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 
       20.81        20.71        19.00        42.77        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.83        13.61        12.23         2.20         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       26.14        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-WH-A86K 
       23.47        37.05        16.01        23.21         8.05        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 

  LAMA4 MUTATED LAMA4 WILD-TYPE 
          14.53            0.03 
  LAMA4 MUTATED LAMA4 WILD-TYPE 
          51.06          211.17 
  LAMA4 MUTATED LAMA4 WILD-TYPE 
          21.78           20.71 
[1] "14.5 - 51.1 (21.8)" "0.0 - 211.2 (20.7)"
[1] "hr=" "1.3"
D71V2, continuous
D71V3, binary
                 cls
clus                0   1
  LAMA4 MUTATED     0   4
  LAMA4 WILD-TYPE 229 279
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LAMA4 MUTATED      0    4
  LAMA4 WILD-TYPE  229  279
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  FEMALE             0             229
  MALE               4             279
[1] 2 2
[1] FALSE
D71V4, binary
                 cls
clus                0   1
  LAMA4 MUTATED     1   3
  LAMA4 WILD-TYPE 185 288
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LAMA4 MUTATED      1    3
  LAMA4 WILD-TYPE  185  288
     clus
vv    LAMA4 MUTATED LAMA4 WILD-TYPE
  NO              1             185
  YES             3             288
[1] 2 2
[1] FALSE
D71V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  LAMA4 MUTATED             0                3                 1
  LAMA4 WILD-TYPE         192              127               189
D71V6, multiclass
                   clus
vv                  LAMA4 MUTATED LAMA4 WILD-TYPE
  ASTROCYTOMA                   0             192
  OLIGOASTROCYTOMA              3             127
  OLIGODENDROGLIOMA             1             189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  LAMA4 MUTATED                                  0     1
  LAMA4 WILD-TYPE                                1     7
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  LAMA4 MUTATED                           0     3
  LAMA4 WILD-TYPE                        21   469
D71V7, multiclass
                                  clus
vv                                 LAMA4 MUTATED LAMA4 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        1               7
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        3             469
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D71V8, binary
                 cls
clus                0   1
  LAMA4 MUTATED     1   3
  LAMA4 WILD-TYPE  31 443
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LAMA4 MUTATED      1    3
  LAMA4 WILD-TYPE   31  443
                        clus
vv                       LAMA4 MUTATED LAMA4 WILD-TYPE
  HISPANIC OR LATINO                 1              31
  NOT HISPANIC OR LATINO             3             443
[1] 2 2
[1] FALSE

Clustering(72) Variable = MAST2 MUTATION ANALYSIS
D72V1, survival
                 sevent
clus2               0   1
  MAST2 MUTATED     3   2
  MAST2 WILD-TYPE 387 117
  MAST2 MUTATED MAST2 WILD-TYPE 
              5             504 
  MAST2 MUTATED MAST2 WILD-TYPE 
              2             117 
$`MAST2 MUTATED`
TCGA-DH-5142 TCGA-DU-6392 TCGA-DU-6399 TCGA-DU-7006 TCGA-HT-7695 
       63.88       211.17        65.75        11.47        14.53 

$`MAST2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       19.96        31.82        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7007 
       16.83        94.52       114.08         7.96         2.40        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       90.77        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       18.94        44.02        62.01        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       26.76        17.16        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 
       51.52        37.38         7.50        44.42         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
       19.46        12.43        16.18        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       17.82        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7854 TCGA-HT-7855 
        0.10         2.96        17.52         6.90        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       34.19        13.74        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        43.04        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 

  MAST2 MUTATED MAST2 WILD-TYPE 
          11.47            0.03 
  MAST2 MUTATED MAST2 WILD-TYPE 
         211.17          182.33 
  MAST2 MUTATED MAST2 WILD-TYPE 
         63.880          20.695 
[1] "11.5 - 211.2 (63.9)" "0.0 - 182.3 (20.7)" 
[1] "hr=" "1.7"
D72V2, continuous
D72V3, binary
                 cls
clus                0   1
  MAST2 MUTATED     3   2
  MAST2 WILD-TYPE 226 281
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MAST2 MUTATED      3    2
  MAST2 WILD-TYPE  226  281
        clus
vv       MAST2 MUTATED MAST2 WILD-TYPE
  FEMALE             3             226
  MALE               2             281
[1] 2 2
[1] FALSE
D72V4, binary
                 cls
clus                0   1
  MAST2 MUTATED     0   5
  MAST2 WILD-TYPE 186 286
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MAST2 MUTATED      0    5
  MAST2 WILD-TYPE  186  286
     clus
vv    MAST2 MUTATED MAST2 WILD-TYPE
  NO              0             186
  YES             5             286
[1] 2 2
[1] FALSE
D72V5, continuous
[1] "Remove cluster labels:" "MAST2 MUTATED"         
clus
  MAST2 MUTATED MAST2 WILD-TYPE 
              1             305 
     TCGA-CS-4938      TCGA-CS-4941      TCGA-CS-4942      TCGA-CS-4943 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-CS-4944      TCGA-CS-5390      TCGA-CS-5393      TCGA-CS-5395 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-CS-5396      TCGA-CS-5397      TCGA-CS-6186      TCGA-CS-6188 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-CS-6290      TCGA-CS-6665      TCGA-CS-6666      TCGA-CS-6667 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-CS-6668      TCGA-CS-6669      TCGA-DB-5274      TCGA-DB-A4XE 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DB-A64L      TCGA-DB-A64Q      TCGA-DB-A64R      TCGA-DB-A64S 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DB-A64U      TCGA-DB-A64V      TCGA-DB-A64W      TCGA-DB-A64X 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DB-A75L      TCGA-DB-A75O      TCGA-DH-5140      TCGA-DH-5143 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DH-5144      TCGA-DH-A66B      TCGA-DH-A66D      TCGA-DH-A66F 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DH-A66G      TCGA-DH-A7UR      TCGA-DH-A7UU      TCGA-DH-A7UV 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-5851      TCGA-DU-5852      TCGA-DU-5853      TCGA-DU-5854 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-5855      TCGA-DU-5870      TCGA-DU-5871      TCGA-DU-5874 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-6396      TCGA-DU-6401      TCGA-DU-6403      TCGA-DU-6404 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-6405      TCGA-DU-6407      TCGA-DU-6408      TCGA-DU-6410 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-7009      TCGA-DU-7011      TCGA-DU-7013      TCGA-DU-7015 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-7018      TCGA-DU-7019      TCGA-DU-7294      TCGA-DU-7298 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-7299      TCGA-DU-7300      TCGA-DU-7301      TCGA-DU-7302 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-7304      TCGA-DU-7306      TCGA-DU-7309      TCGA-DU-8158 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-8161      TCGA-DU-8162      TCGA-DU-8163      TCGA-DU-8165 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-8167      TCGA-DU-8168      TCGA-DU-A5TP      TCGA-DU-A5TR 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-A5TS      TCGA-DU-A5TU      TCGA-DU-A5TW      TCGA-DU-A6S2 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-A6S6      TCGA-DU-A6S7      TCGA-DU-A6S8      TCGA-DU-A76R 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-A7T6      TCGA-DU-A7T8      TCGA-DU-A7TA      TCGA-DU-A7TB 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-DU-A7TC      TCGA-DU-A7TD      TCGA-DU-A7TG      TCGA-E1-5302 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-E1-5303      TCGA-E1-5304      TCGA-E1-5305      TCGA-E1-5307 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-E1-5311      TCGA-E1-5318      TCGA-E1-5319      TCGA-E1-5322 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-E1-A7YE      TCGA-E1-A7YH      TCGA-E1-A7YI      TCGA-E1-A7YJ 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-E1-A7YK      TCGA-E1-A7YL      TCGA-E1-A7YM      TCGA-E1-A7YN 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-E1-A7YO      TCGA-E1-A7YQ      TCGA-E1-A7YS      TCGA-E1-A7YV 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-E1-A7YW      TCGA-E1-A7YY      TCGA-E1-A7Z2      TCGA-E1-A7Z4 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-E1-A7Z6      TCGA-FG-5963      TCGA-FG-5965      TCGA-FG-6688 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-FG-6689      TCGA-FG-6690      TCGA-FG-6691      TCGA-FG-7636 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-FG-7638      TCGA-FG-8181      TCGA-FG-8185      TCGA-FG-8186 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-FG-8187      TCGA-FG-8188      TCGA-FG-8189      TCGA-FG-A4MT 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-FG-A4MW      TCGA-FG-A4MX      TCGA-FG-A60J      TCGA-FG-A60L 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-FG-A6J1      TCGA-FG-A6J3      TCGA-FG-A711      TCGA-FG-A713 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-FG-A87Q      TCGA-HT-7468      TCGA-HT-7470      TCGA-HT-7475 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-HT-7477      TCGA-HT-7481      TCGA-HT-7482      TCGA-HT-7485 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-HT-7607      TCGA-HT-7609      TCGA-HT-7611      TCGA-HT-7686 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-HT-7689      TCGA-HT-7692      TCGA-HT-7693      TCGA-HT-7694 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-HT-7854      TCGA-HT-7855      TCGA-HT-7856      TCGA-HT-7858 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-HT-7875      TCGA-HT-7884      TCGA-HT-8013      TCGA-HT-8105 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-HT-8113      TCGA-HT-8564      TCGA-HT-A4DV      TCGA-HT-A5R7 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-HT-A5RA      TCGA-HT-A5RC      TCGA-HT-A615      TCGA-HT-A617 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-HT-A618      TCGA-HT-A61A      TCGA-HT-A61B      TCGA-HT-A61C 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-HT-A74L      TCGA-IK-7675      TCGA-KT-A74X      TCGA-KT-A7W1 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-P5-A5EU      TCGA-P5-A5EV      TCGA-P5-A5EW      TCGA-P5-A5EX 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-P5-A5F0      TCGA-P5-A5F2      TCGA-P5-A5F4      TCGA-P5-A5F6 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-P5-A731      TCGA-QH-A65R      TCGA-QH-A65S      TCGA-QH-A65V 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-QH-A65X      TCGA-QH-A65Z      TCGA-QH-A6CS      TCGA-QH-A6CU 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-QH-A6CV      TCGA-QH-A6CW      TCGA-QH-A6CX      TCGA-QH-A6CY 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-QH-A6CZ      TCGA-QH-A6X3      TCGA-QH-A6X4      TCGA-QH-A6X5 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-QH-A6X8      TCGA-QH-A6X9      TCGA-QH-A6XA      TCGA-QH-A6XC 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-QH-A86X      TCGA-QH-A870      TCGA-RY-A83Y      TCGA-RY-A840 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-RY-A845      TCGA-RY-A847      TCGA-S9-A6TS      TCGA-S9-A6TU 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A6TV      TCGA-S9-A6TW      TCGA-S9-A6TX      TCGA-S9-A6TY 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A6TZ      TCGA-S9-A6U0      TCGA-S9-A6U1      TCGA-S9-A6U2 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A6U5      TCGA-S9-A6U6      TCGA-S9-A6U8      TCGA-S9-A6UA 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A6UB      TCGA-S9-A6WD      TCGA-S9-A6WE      TCGA-S9-A6WG 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A6WH      TCGA-S9-A6WI      TCGA-S9-A6WL      TCGA-S9-A6WM 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A6WN      TCGA-S9-A6WO      TCGA-S9-A6WP      TCGA-S9-A6WQ 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A7IQ      TCGA-S9-A7IS      TCGA-S9-A7IX      TCGA-S9-A7IY 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A7IZ      TCGA-S9-A7J0      TCGA-S9-A7J1      TCGA-S9-A7J2 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A7J3      TCGA-S9-A7QW      TCGA-S9-A7QX      TCGA-S9-A7QY 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A7QZ      TCGA-S9-A7R1      TCGA-S9-A7R2      TCGA-S9-A7R3 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A7R4      TCGA-S9-A7R7      TCGA-S9-A7R8      TCGA-S9-A89V 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-S9-A89Z      TCGA-TM-A7C3      TCGA-TM-A7C4      TCGA-TM-A7C5 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-TM-A7CA      TCGA-TM-A7CF      TCGA-TM-A84B      TCGA-TM-A84C 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-TM-A84F      TCGA-TM-A84G      TCGA-TM-A84H      TCGA-TM-A84I 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-TM-A84J      TCGA-TM-A84L      TCGA-TM-A84M      TCGA-TM-A84O 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-TM-A84Q      TCGA-TM-A84R      TCGA-TM-A84S      TCGA-TM-A84T 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-TQ-A7RG      TCGA-TQ-A7RK      TCGA-TQ-A7RM      TCGA-TQ-A7RN 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-TQ-A7RO      TCGA-TQ-A7RP      TCGA-TQ-A7RQ      TCGA-TQ-A7RR 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-TQ-A7RS      TCGA-TQ-A7RU      TCGA-TQ-A7RV      TCGA-TQ-A7RW 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-TQ-A8XE      TCGA-VM-A8C8      TCGA-VM-A8CA      TCGA-VM-A8CD 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-VM-A8CE      TCGA-VM-A8CF      TCGA-VM-A8CH      TCGA-WY-A858 
"MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" "MAST2 WILD-TYPE" 
     TCGA-WY-A859 
"MAST2 WILD-TYPE" 
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  MAST2 MUTATED             3                0                 2
  MAST2 WILD-TYPE         189              130               188
D72V6, multiclass
                   clus
vv                  MAST2 MUTATED MAST2 WILD-TYPE
  ASTROCYTOMA                   3             189
  OLIGOASTROCYTOMA              0             130
  OLIGODENDROGLIOMA             2             188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  MAST2 MUTATED                                  0     0
  MAST2 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  MAST2 MUTATED                           0     5
  MAST2 WILD-TYPE                        21   467
D72V7, multiclass
                                  clus
vv                                 MAST2 MUTATED MAST2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        5             467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D72V8, binary
                 cls
clus                0   1
  MAST2 MUTATED     0   5
  MAST2 WILD-TYPE  32 441
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MAST2 MUTATED      0    5
  MAST2 WILD-TYPE   32  441
                        clus
vv                       MAST2 MUTATED MAST2 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO             5             441
[1] 2 2
[1] FALSE

Clustering(73) Variable = ZMYM2 MUTATION ANALYSIS
D73V1, survival
                 sevent
clus2               0   1
  ZMYM2 MUTATED     6   1
  ZMYM2 WILD-TYPE 384 118
  ZMYM2 MUTATED ZMYM2 WILD-TYPE 
              7             502 
  ZMYM2 MUTATED ZMYM2 WILD-TYPE 
              1             118 
$`ZMYM2 MUTATED`
TCGA-DU-6392 TCGA-DU-7013 TCGA-DU-A6S6 TCGA-FG-5962 TCGA-FG-A4MX TCGA-HT-7875 
      211.17         8.84        95.11        47.77        18.71         0.33 
TCGA-TQ-A7RJ 
       40.41 

$`ZMYM2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
      105.21         6.54        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 
        7.96        94.32        18.94        44.02        62.01        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S7 TCGA-DU-A6S8 
       24.99        33.96        25.55        21.57        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.23         0.20        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K 
       38.27        10.72        18.38        23.70        14.76        17.82 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 
       36.66        48.69        20.45        18.64         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       13.74        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A 
       16.93         1.81        16.14        16.83        21.40         6.38 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54         6.18        10.55 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X 
       12.76        20.81        20.71        19.00        42.77        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        4.11         5.88         7.63         0.76         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50         5.03        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       32.65        59.38        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        28.14        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
       15.98         2.04        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        43.04        43.20        13.51         0.10         7.89 
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-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  ZMYM2 MUTATED ZMYM2 WILD-TYPE 
           0.33            0.03 
  ZMYM2 MUTATED ZMYM2 WILD-TYPE 
         211.17          182.33 
  ZMYM2 MUTATED ZMYM2 WILD-TYPE 
         40.410          20.695 
[1] "0.3 - 211.2 (40.4)" "0.0 - 182.3 (20.7)"
[1] "hr=" "3.8"
D73V2, continuous
D73V3, binary
                 cls
clus                0   1
  ZMYM2 MUTATED     3   4
  ZMYM2 WILD-TYPE 226 279
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZMYM2 MUTATED      3    4
  ZMYM2 WILD-TYPE  226  279
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  FEMALE             3             226
  MALE               4             279
[1] 2 2
[1] FALSE
D73V4, binary
                 cls
clus                0   1
  ZMYM2 MUTATED     1   6
  ZMYM2 WILD-TYPE 185 285
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZMYM2 MUTATED      1    6
  ZMYM2 WILD-TYPE  185  285
     clus
vv    ZMYM2 MUTATED ZMYM2 WILD-TYPE
  NO              1             185
  YES             6             285
[1] 2 2
[1] FALSE
D73V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ZMYM2 MUTATED             3                2                 2
  ZMYM2 WILD-TYPE         189              128               188
D73V6, multiclass
                   clus
vv                  ZMYM2 MUTATED ZMYM2 WILD-TYPE
  ASTROCYTOMA                   3             189
  OLIGOASTROCYTOMA              2             128
  OLIGODENDROGLIOMA             2             188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ZMYM2 MUTATED                                  0     0
  ZMYM2 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  ZMYM2 MUTATED                           0     7
  ZMYM2 WILD-TYPE                        21   465
D73V7, multiclass
                                  clus
vv                                 ZMYM2 MUTATED ZMYM2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        7             465
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D73V8, binary
                 cls
clus                0   1
  ZMYM2 MUTATED     1   6
  ZMYM2 WILD-TYPE  31 440
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZMYM2 MUTATED      1    6
  ZMYM2 WILD-TYPE   31  440
                        clus
vv                       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  HISPANIC OR LATINO                 1              31
  NOT HISPANIC OR LATINO             6             440
[1] 2 2
[1] FALSE

Clustering(74) Variable = SLFN11 MUTATION ANALYSIS
D74V1, survival
                  sevent
clus2                0   1
  SLFN11 MUTATED     4   0
  SLFN11 WILD-TYPE 386 119
  SLFN11 MUTATED SLFN11 WILD-TYPE 
               4              505 
  SLFN11 MUTATED SLFN11 WILD-TYPE 
               0              119 
$`SLFN11 MUTATED`
TCGA-DU-6392 TCGA-FG-7634 TCGA-HT-7690 TCGA-TQ-A7RR 
      211.17        15.35         0.10        25.87 

$`SLFN11 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
       14.96         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  SLFN11 MUTATED SLFN11 WILD-TYPE 
            0.10             0.03 
  SLFN11 MUTATED SLFN11 WILD-TYPE 
          211.17           182.33 
  SLFN11 MUTATED SLFN11 WILD-TYPE 
           20.61            20.71 
[1] "0.1 - 211.2 (20.6)" "0.0 - 182.3 (20.7)"
[1] "hr="   "1e+07"
D74V2, continuous
D74V3, binary
                  cls
clus                 0   1
  SLFN11 MUTATED     1   3
  SLFN11 WILD-TYPE 228 280
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SLFN11 MUTATED      1    3
  SLFN11 WILD-TYPE  228  280
        clus
vv       SLFN11 MUTATED SLFN11 WILD-TYPE
  FEMALE              1              228
  MALE                3              280
[1] 2 2
[1] FALSE
D74V4, binary
                  cls
clus                 0   1
  SLFN11 MUTATED     2   2
  SLFN11 WILD-TYPE 184 289
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SLFN11 MUTATED      2    2
  SLFN11 WILD-TYPE  184  289
     clus
vv    SLFN11 MUTATED SLFN11 WILD-TYPE
  NO               2              184
  YES              2              289
[1] 2 2
[1] FALSE
D74V5, continuous
[1] "Remove cluster labels:" "SLFN11 MUTATED"        
clus
  SLFN11 MUTATED SLFN11 WILD-TYPE 
               1              305 
      TCGA-CS-4938       TCGA-CS-4941       TCGA-CS-4942       TCGA-CS-4943 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-CS-4944       TCGA-CS-5390       TCGA-CS-5393       TCGA-CS-5395 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-CS-5396       TCGA-CS-5397       TCGA-CS-6186       TCGA-CS-6188 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-CS-6290       TCGA-CS-6665       TCGA-CS-6666       TCGA-CS-6667 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-CS-6668       TCGA-CS-6669       TCGA-DB-5274       TCGA-DB-A4XE 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DB-A64L       TCGA-DB-A64Q       TCGA-DB-A64R       TCGA-DB-A64S 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DB-A64U       TCGA-DB-A64V       TCGA-DB-A64W       TCGA-DB-A64X 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DB-A75L       TCGA-DB-A75O       TCGA-DH-5140       TCGA-DH-5142 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DH-5143       TCGA-DH-5144       TCGA-DH-A66B       TCGA-DH-A66D 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DH-A66F       TCGA-DH-A66G       TCGA-DH-A7UR       TCGA-DH-A7UU 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DH-A7UV       TCGA-DU-5851       TCGA-DU-5852       TCGA-DU-5853 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-5854       TCGA-DU-5855       TCGA-DU-5870       TCGA-DU-5871 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-5874       TCGA-DU-6396       TCGA-DU-6401       TCGA-DU-6403 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-6404       TCGA-DU-6405       TCGA-DU-6407       TCGA-DU-6408 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-6410       TCGA-DU-7009       TCGA-DU-7011       TCGA-DU-7013 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-7015       TCGA-DU-7018       TCGA-DU-7019       TCGA-DU-7294 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-7298       TCGA-DU-7299       TCGA-DU-7300       TCGA-DU-7301 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-7302       TCGA-DU-7304       TCGA-DU-7306       TCGA-DU-7309 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-8158       TCGA-DU-8161       TCGA-DU-8162       TCGA-DU-8163 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-8165       TCGA-DU-8167       TCGA-DU-8168       TCGA-DU-A5TP 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-A5TR       TCGA-DU-A5TS       TCGA-DU-A5TU       TCGA-DU-A5TW 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-A6S2       TCGA-DU-A6S6       TCGA-DU-A6S7       TCGA-DU-A6S8 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-A76R       TCGA-DU-A7T6       TCGA-DU-A7T8       TCGA-DU-A7TA 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-DU-A7TB       TCGA-DU-A7TC       TCGA-DU-A7TD       TCGA-DU-A7TG 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-E1-5302       TCGA-E1-5303       TCGA-E1-5304       TCGA-E1-5305 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-E1-5307       TCGA-E1-5311       TCGA-E1-5318       TCGA-E1-5319 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-E1-5322       TCGA-E1-A7YE       TCGA-E1-A7YH       TCGA-E1-A7YI 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-E1-A7YJ       TCGA-E1-A7YK       TCGA-E1-A7YL       TCGA-E1-A7YM 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-E1-A7YN       TCGA-E1-A7YO       TCGA-E1-A7YQ       TCGA-E1-A7YS 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-E1-A7YV       TCGA-E1-A7YW       TCGA-E1-A7YY       TCGA-E1-A7Z2 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-E1-A7Z4       TCGA-E1-A7Z6       TCGA-FG-5963       TCGA-FG-5965 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-FG-6688       TCGA-FG-6689       TCGA-FG-6690       TCGA-FG-6691 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-FG-7636       TCGA-FG-7638       TCGA-FG-8181       TCGA-FG-8185 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-FG-8186       TCGA-FG-8187       TCGA-FG-8188       TCGA-FG-8189 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-FG-A4MT       TCGA-FG-A4MW       TCGA-FG-A4MX       TCGA-FG-A60J 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-FG-A60L       TCGA-FG-A6J1       TCGA-FG-A6J3       TCGA-FG-A711 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-FG-A713       TCGA-FG-A87Q       TCGA-HT-7468       TCGA-HT-7470 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-HT-7475       TCGA-HT-7477       TCGA-HT-7481       TCGA-HT-7482 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-HT-7485       TCGA-HT-7607       TCGA-HT-7609       TCGA-HT-7611 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-HT-7686       TCGA-HT-7689       TCGA-HT-7692       TCGA-HT-7693 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-HT-7694       TCGA-HT-7854       TCGA-HT-7855       TCGA-HT-7856 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-HT-7858       TCGA-HT-7875       TCGA-HT-7884       TCGA-HT-8013 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-HT-8105       TCGA-HT-8113       TCGA-HT-8564       TCGA-HT-A4DV 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-HT-A5R7       TCGA-HT-A5RA       TCGA-HT-A5RC       TCGA-HT-A615 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-HT-A617       TCGA-HT-A618       TCGA-HT-A61A       TCGA-HT-A61B 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-HT-A61C       TCGA-HT-A74L       TCGA-IK-7675       TCGA-KT-A74X 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-KT-A7W1       TCGA-P5-A5EU       TCGA-P5-A5EV       TCGA-P5-A5EW 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-P5-A5EX       TCGA-P5-A5F0       TCGA-P5-A5F2       TCGA-P5-A5F4 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-P5-A5F6       TCGA-P5-A731       TCGA-QH-A65R       TCGA-QH-A65S 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-QH-A65V       TCGA-QH-A65X       TCGA-QH-A65Z       TCGA-QH-A6CS 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-QH-A6CU       TCGA-QH-A6CV       TCGA-QH-A6CW       TCGA-QH-A6CX 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-QH-A6CY       TCGA-QH-A6CZ       TCGA-QH-A6X3       TCGA-QH-A6X4 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-QH-A6X5       TCGA-QH-A6X8       TCGA-QH-A6X9       TCGA-QH-A6XA 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-QH-A6XC       TCGA-QH-A86X       TCGA-QH-A870       TCGA-RY-A83Y 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-RY-A840       TCGA-RY-A845       TCGA-RY-A847       TCGA-S9-A6TS 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A6TU       TCGA-S9-A6TV       TCGA-S9-A6TW       TCGA-S9-A6TX 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A6TY       TCGA-S9-A6TZ       TCGA-S9-A6U0       TCGA-S9-A6U1 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A6U2       TCGA-S9-A6U5       TCGA-S9-A6U6       TCGA-S9-A6U8 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A6UA       TCGA-S9-A6UB       TCGA-S9-A6WD       TCGA-S9-A6WE 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A6WG       TCGA-S9-A6WH       TCGA-S9-A6WI       TCGA-S9-A6WL 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A6WM       TCGA-S9-A6WN       TCGA-S9-A6WO       TCGA-S9-A6WP 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A6WQ       TCGA-S9-A7IQ       TCGA-S9-A7IS       TCGA-S9-A7IX 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A7IY       TCGA-S9-A7IZ       TCGA-S9-A7J0       TCGA-S9-A7J1 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A7J2       TCGA-S9-A7J3       TCGA-S9-A7QW       TCGA-S9-A7QX 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A7QY       TCGA-S9-A7QZ       TCGA-S9-A7R1       TCGA-S9-A7R2 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A7R3       TCGA-S9-A7R4       TCGA-S9-A7R7       TCGA-S9-A7R8 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-S9-A89V       TCGA-S9-A89Z       TCGA-TM-A7C3       TCGA-TM-A7C4 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-TM-A7C5       TCGA-TM-A7CA       TCGA-TM-A7CF       TCGA-TM-A84B 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-TM-A84C       TCGA-TM-A84F       TCGA-TM-A84G       TCGA-TM-A84H 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-TM-A84I       TCGA-TM-A84J       TCGA-TM-A84L       TCGA-TM-A84M 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-TM-A84O       TCGA-TM-A84Q       TCGA-TM-A84R       TCGA-TM-A84S 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-TM-A84T       TCGA-TQ-A7RG       TCGA-TQ-A7RK       TCGA-TQ-A7RM 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-TQ-A7RN       TCGA-TQ-A7RO       TCGA-TQ-A7RP       TCGA-TQ-A7RQ 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-TQ-A7RS       TCGA-TQ-A7RU       TCGA-TQ-A7RV       TCGA-TQ-A7RW 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-TQ-A8XE       TCGA-VM-A8C8       TCGA-VM-A8CA       TCGA-VM-A8CD 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-VM-A8CE       TCGA-VM-A8CF       TCGA-VM-A8CH       TCGA-WY-A858 
"SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" "SLFN11 WILD-TYPE" 
      TCGA-WY-A859 
"SLFN11 WILD-TYPE" 
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  SLFN11 MUTATED             1                2                 1
  SLFN11 WILD-TYPE         191              128               189
D74V6, multiclass
                   clus
vv                  SLFN11 MUTATED SLFN11 WILD-TYPE
  ASTROCYTOMA                    1              191
  OLIGOASTROCYTOMA               2              128
  OLIGODENDROGLIOMA              1              189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SLFN11 MUTATED                                  0     0
  SLFN11 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  SLFN11 MUTATED                           0     4
  SLFN11 WILD-TYPE                        21   468
D74V7, multiclass
                                  clus
vv                                 SLFN11 MUTATED SLFN11 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                         4              468
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D74V8, binary
                  cls
clus                 0   1
  SLFN11 MUTATED     1   3
  SLFN11 WILD-TYPE  31 443
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SLFN11 MUTATED      1    3
  SLFN11 WILD-TYPE   31  443
                        clus
vv                       SLFN11 MUTATED SLFN11 WILD-TYPE
  HISPANIC OR LATINO                  1               31
  NOT HISPANIC OR LATINO              3              443
[1] 2 2
[1] FALSE

Clustering(75) Variable = C4BPA MUTATION ANALYSIS
D75V1, survival
                 sevent
clus2               0   1
  C4BPA MUTATED     4   2
  C4BPA WILD-TYPE 386 117
  C4BPA MUTATED C4BPA WILD-TYPE 
              6             503 
  C4BPA MUTATED C4BPA WILD-TYPE 
              2             117 
$`C4BPA MUTATED`
TCGA-DU-6392 TCGA-DU-8162 TCGA-E1-A7YQ TCGA-S9-A7QX TCGA-TM-A84Q TCGA-TQ-A7RU 
      211.17        14.60        51.88        18.54        25.38        33.93 

$`C4BPA WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       23.74        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 
       22.29        11.41        26.76        17.16        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       23.90        75.02        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       15.06        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       24.79        33.24        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RV 
       33.73        31.20        30.05        26.14        25.87        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        43.04        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  C4BPA MUTATED C4BPA WILD-TYPE 
          14.60            0.03 
  C4BPA MUTATED C4BPA WILD-TYPE 
         211.17          182.33 
  C4BPA MUTATED C4BPA WILD-TYPE 
         29.655          20.680 
[1] "14.6 - 211.2 (29.7)" "0.0 - 182.3 (20.7)" 
[1] "hr=" "1.6"
D75V2, continuous
D75V3, binary
                 cls
clus                0   1
  C4BPA MUTATED     4   2
  C4BPA WILD-TYPE 225 281
[1] "tbl2"
                 cls
clus              [,1] [,2]
  C4BPA MUTATED      4    2
  C4BPA WILD-TYPE  225  281
        clus
vv       C4BPA MUTATED C4BPA WILD-TYPE
  FEMALE             4             225
  MALE               2             281
[1] 2 2
[1] FALSE
D75V4, binary
                 cls
clus                0   1
  C4BPA MUTATED     1   5
  C4BPA WILD-TYPE 185 286
[1] "tbl2"
                 cls
clus              [,1] [,2]
  C4BPA MUTATED      1    5
  C4BPA WILD-TYPE  185  286
     clus
vv    C4BPA MUTATED C4BPA WILD-TYPE
  NO              1             185
  YES             5             286
[1] 2 2
[1] FALSE
D75V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  C4BPA MUTATED             3                1                 2
  C4BPA WILD-TYPE         189              129               188
D75V6, multiclass
                   clus
vv                  C4BPA MUTATED C4BPA WILD-TYPE
  ASTROCYTOMA                   3             189
  OLIGOASTROCYTOMA              1             129
  OLIGODENDROGLIOMA             2             188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  C4BPA MUTATED                                  0     0
  C4BPA WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  C4BPA MUTATED                           1     5
  C4BPA WILD-TYPE                        20   467
D75V7, multiclass
                                  clus
vv                                 C4BPA MUTATED C4BPA WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    1              20
  WHITE                                        5             467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D75V8, binary
                 cls
clus                0   1
  C4BPA MUTATED     1   5
  C4BPA WILD-TYPE  31 441
[1] "tbl2"
                 cls
clus              [,1] [,2]
  C4BPA MUTATED      1    5
  C4BPA WILD-TYPE   31  441
                        clus
vv                       C4BPA MUTATED C4BPA WILD-TYPE
  HISPANIC OR LATINO                 1              31
  NOT HISPANIC OR LATINO             5             441
[1] 2 2
[1] FALSE

Clustering(76) Variable = TMEM184A MUTATION ANALYSIS
D76V1, survival
                    sevent
clus2                  0   1
  TMEM184A MUTATED     2   1
  TMEM184A WILD-TYPE 388 118
  TMEM184A MUTATED TMEM184A WILD-TYPE 
                 3                506 
  TMEM184A MUTATED TMEM184A WILD-TYPE 
                 1                118 
$`TMEM184A MUTATED`
TCGA-DU-7012 TCGA-HT-7875 TCGA-QH-A6CZ 
        6.54         0.33         9.17 

$`TMEM184A WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
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-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
       14.99       105.21         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7877 TCGA-HT-7879 
       50.63         0.49        23.61        37.15         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6X3 TCGA-QH-A6X4 
       14.53        13.61        12.23         2.20        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50         5.03        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X 
       12.99        88.83        94.03        32.65        59.38        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  TMEM184A MUTATED TMEM184A WILD-TYPE 
              0.33               0.03 
  TMEM184A MUTATED TMEM184A WILD-TYPE 
              9.17             211.17 
  TMEM184A MUTATED TMEM184A WILD-TYPE 
              6.54              20.81 
[1] "0.3 - 9.2 (6.5)"    "0.0 - 211.2 (20.8)"
[1] "hr=" "15" 
D76V2, continuous
D76V3, binary
                    cls
clus                   0   1
  TMEM184A MUTATED     1   2
  TMEM184A WILD-TYPE 228 281
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  TMEM184A MUTATED      1    2
  TMEM184A WILD-TYPE  228  281
        clus
vv       TMEM184A MUTATED TMEM184A WILD-TYPE
  FEMALE                1                228
  MALE                  2                281
[1] 2 2
[1] FALSE
D76V4, binary
                    cls
clus                   0   1
  TMEM184A MUTATED     1   2
  TMEM184A WILD-TYPE 185 289
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  TMEM184A MUTATED      1    2
  TMEM184A WILD-TYPE  185  289
     clus
vv    TMEM184A MUTATED TMEM184A WILD-TYPE
  NO                 1                185
  YES                2                289
[1] 2 2
[1] FALSE
D76V5, continuous
[1] "Remove cluster labels:" "TMEM184A MUTATED"      
clus
  TMEM184A MUTATED TMEM184A WILD-TYPE 
                 2                304 
        TCGA-CS-4938         TCGA-CS-4941         TCGA-CS-4942 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-CS-4943         TCGA-CS-4944         TCGA-CS-5390 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-CS-5393         TCGA-CS-5395         TCGA-CS-5396 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-CS-5397         TCGA-CS-6186         TCGA-CS-6188 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-CS-6290         TCGA-CS-6665         TCGA-CS-6666 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-CS-6667         TCGA-CS-6668         TCGA-CS-6669 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DB-5274         TCGA-DB-A4XE         TCGA-DB-A64L 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DB-A64Q         TCGA-DB-A64R         TCGA-DB-A64S 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DB-A64U         TCGA-DB-A64V         TCGA-DB-A64W 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DB-A64X         TCGA-DB-A75L         TCGA-DB-A75O 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DH-5140         TCGA-DH-5142         TCGA-DH-5143 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DH-5144         TCGA-DH-A66B         TCGA-DH-A66D 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DH-A66F         TCGA-DH-A66G         TCGA-DH-A7UR 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DH-A7UU         TCGA-DH-A7UV         TCGA-DU-5851 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-5852         TCGA-DU-5853         TCGA-DU-5854 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-5855         TCGA-DU-5870         TCGA-DU-5871 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-5874         TCGA-DU-6396         TCGA-DU-6401 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-6403         TCGA-DU-6404         TCGA-DU-6405 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-6407         TCGA-DU-6408         TCGA-DU-6410 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-7009         TCGA-DU-7011         TCGA-DU-7013 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-7015         TCGA-DU-7018         TCGA-DU-7019 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-7294         TCGA-DU-7298         TCGA-DU-7299 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-7300         TCGA-DU-7301         TCGA-DU-7302 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-7304         TCGA-DU-7306         TCGA-DU-7309 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-8158         TCGA-DU-8161         TCGA-DU-8162 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-8163         TCGA-DU-8165         TCGA-DU-8167 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-8168         TCGA-DU-A5TP         TCGA-DU-A5TR 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-A5TS         TCGA-DU-A5TU         TCGA-DU-A5TW 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-A6S2         TCGA-DU-A6S6         TCGA-DU-A6S7 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-A6S8         TCGA-DU-A76R         TCGA-DU-A7T6 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-A7T8         TCGA-DU-A7TA         TCGA-DU-A7TB 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DU-A7TC         TCGA-DU-A7TD         TCGA-DU-A7TG 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E1-5302         TCGA-E1-5303         TCGA-E1-5304 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E1-5305         TCGA-E1-5307         TCGA-E1-5311 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E1-5318         TCGA-E1-5319         TCGA-E1-5322 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E1-A7YE         TCGA-E1-A7YH         TCGA-E1-A7YI 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E1-A7YJ         TCGA-E1-A7YK         TCGA-E1-A7YL 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E1-A7YM         TCGA-E1-A7YN         TCGA-E1-A7YO 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E1-A7YQ         TCGA-E1-A7YS         TCGA-E1-A7YV 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E1-A7YW         TCGA-E1-A7YY         TCGA-E1-A7Z2 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E1-A7Z4         TCGA-E1-A7Z6         TCGA-FG-5963 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FG-5965         TCGA-FG-6688         TCGA-FG-6689 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FG-6690         TCGA-FG-6691         TCGA-FG-7636 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FG-7638         TCGA-FG-8181         TCGA-FG-8185 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FG-8186         TCGA-FG-8187         TCGA-FG-8188 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FG-8189         TCGA-FG-A4MT         TCGA-FG-A4MW 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FG-A4MX         TCGA-FG-A60J         TCGA-FG-A60L 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FG-A6J1         TCGA-FG-A6J3         TCGA-FG-A711 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FG-A713         TCGA-FG-A87Q         TCGA-HT-7468 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-7470         TCGA-HT-7475         TCGA-HT-7477 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-7481         TCGA-HT-7482         TCGA-HT-7485 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-7607         TCGA-HT-7609         TCGA-HT-7611 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-7686         TCGA-HT-7689         TCGA-HT-7692 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-7693         TCGA-HT-7694         TCGA-HT-7854 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-7855         TCGA-HT-7856         TCGA-HT-7858 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-7884         TCGA-HT-8013         TCGA-HT-8105 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-8113         TCGA-HT-8564         TCGA-HT-A4DV 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-A5R7         TCGA-HT-A5RA         TCGA-HT-A5RC 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-A615         TCGA-HT-A617         TCGA-HT-A618 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-A61A         TCGA-HT-A61B         TCGA-HT-A61C 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-HT-A74L         TCGA-IK-7675         TCGA-KT-A74X 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-KT-A7W1         TCGA-P5-A5EU         TCGA-P5-A5EV 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-P5-A5EW         TCGA-P5-A5EX         TCGA-P5-A5F0 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-P5-A5F2         TCGA-P5-A5F4         TCGA-P5-A5F6 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-P5-A731         TCGA-QH-A65R         TCGA-QH-A65S 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-QH-A65V         TCGA-QH-A65X         TCGA-QH-A65Z 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-QH-A6CS         TCGA-QH-A6CU         TCGA-QH-A6CV 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-QH-A6CW         TCGA-QH-A6CX         TCGA-QH-A6CY 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-QH-A6X3         TCGA-QH-A6X4         TCGA-QH-A6X5 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-QH-A6X8         TCGA-QH-A6X9         TCGA-QH-A6XA 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-QH-A6XC         TCGA-QH-A86X         TCGA-QH-A870 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-RY-A83Y         TCGA-RY-A840         TCGA-RY-A845 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-RY-A847         TCGA-S9-A6TS         TCGA-S9-A6TU 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A6TV         TCGA-S9-A6TW         TCGA-S9-A6TX 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A6TY         TCGA-S9-A6TZ         TCGA-S9-A6U0 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A6U1         TCGA-S9-A6U2         TCGA-S9-A6U5 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A6U6         TCGA-S9-A6U8         TCGA-S9-A6UA 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A6UB         TCGA-S9-A6WD         TCGA-S9-A6WE 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A6WG         TCGA-S9-A6WH         TCGA-S9-A6WI 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A6WL         TCGA-S9-A6WM         TCGA-S9-A6WN 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A6WO         TCGA-S9-A6WP         TCGA-S9-A6WQ 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A7IQ         TCGA-S9-A7IS         TCGA-S9-A7IX 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A7IY         TCGA-S9-A7IZ         TCGA-S9-A7J0 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A7J1         TCGA-S9-A7J2         TCGA-S9-A7J3 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A7QW         TCGA-S9-A7QX         TCGA-S9-A7QY 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A7QZ         TCGA-S9-A7R1         TCGA-S9-A7R2 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A7R3         TCGA-S9-A7R4         TCGA-S9-A7R7 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-S9-A7R8         TCGA-S9-A89V         TCGA-S9-A89Z 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TM-A7C3         TCGA-TM-A7C4         TCGA-TM-A7C5 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TM-A7CA         TCGA-TM-A7CF         TCGA-TM-A84B 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TM-A84C         TCGA-TM-A84F         TCGA-TM-A84G 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TM-A84H         TCGA-TM-A84I         TCGA-TM-A84J 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TM-A84L         TCGA-TM-A84M         TCGA-TM-A84O 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TM-A84Q         TCGA-TM-A84R         TCGA-TM-A84S 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TM-A84T         TCGA-TQ-A7RG         TCGA-TQ-A7RK 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TQ-A7RM         TCGA-TQ-A7RN         TCGA-TQ-A7RO 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TQ-A7RP         TCGA-TQ-A7RQ         TCGA-TQ-A7RR 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TQ-A7RS         TCGA-TQ-A7RU         TCGA-TQ-A7RV 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-TQ-A7RW         TCGA-TQ-A8XE         TCGA-VM-A8C8 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-VM-A8CA         TCGA-VM-A8CD         TCGA-VM-A8CE 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-VM-A8CF         TCGA-VM-A8CH         TCGA-WY-A858 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-WY-A859 
"TMEM184A WILD-TYPE" 
                    vv
clus                 ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  TMEM184A MUTATED             1                1                 1
  TMEM184A WILD-TYPE         191              129               189
D76V6, multiclass
                   clus
vv                  TMEM184A MUTATED TMEM184A WILD-TYPE
  ASTROCYTOMA                      1                191
  OLIGOASTROCYTOMA                 1                129
  OLIGODENDROGLIOMA                1                189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TMEM184A MUTATED                                  0     0
  TMEM184A WILD-TYPE                                1     8
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  TMEM184A MUTATED                           1     2
  TMEM184A WILD-TYPE                        20   470
D76V7, multiclass
                                  clus
vv                                 TMEM184A MUTATED TMEM184A WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                  8
  BLACK OR AFRICAN AMERICAN                       1                 20
  WHITE                                           2                470
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D76V8, binary
                    cls
clus                   0   1
  TMEM184A MUTATED     0   3
  TMEM184A WILD-TYPE  32 443
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  TMEM184A MUTATED      0    3
  TMEM184A WILD-TYPE   32  443
                        clus
vv                       TMEM184A MUTATED TMEM184A WILD-TYPE
  HISPANIC OR LATINO                    0                 32
  NOT HISPANIC OR LATINO                3                443
[1] 2 2
[1] FALSE

Clustering(77) Variable = KTELC1 MUTATION ANALYSIS
D77V1, survival
                  sevent
clus2                0   1
  KTELC1 MUTATED     5   0
  KTELC1 WILD-TYPE 385 119
  KTELC1 MUTATED KTELC1 WILD-TYPE 
               5              504 
  KTELC1 MUTATED KTELC1 WILD-TYPE 
               0              119 
$`KTELC1 MUTATED`
TCGA-FG-A6IZ TCGA-HW-8321 TCGA-S9-A6TV TCGA-WY-A85C TCGA-WY-A85E 
       15.02        42.54        18.77        46.88        20.81 

$`KTELC1 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
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-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 
       14.99       105.21         6.54         8.84        90.77        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       26.30        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       62.01        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        5.10        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O 
       95.11        20.98        22.29        11.41        26.76        17.16 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
        7.50        44.42         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       16.18        21.30        23.90        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 
       41.33        18.44        15.35        17.88        40.08        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       20.09        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L 
       18.38        18.71        23.70        14.76        17.82        21.53 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 
       56.58        13.45        41.49        45.60        68.32        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       39.75        40.01         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23         2.20         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       30.67        62.17        87.12        41.10        28.14        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85D 
       13.32        43.96        39.88        43.40        45.80        37.71 

  KTELC1 MUTATED KTELC1 WILD-TYPE 
           15.02             0.03 
  KTELC1 MUTATED KTELC1 WILD-TYPE 
           46.88           211.17 
  KTELC1 MUTATED KTELC1 WILD-TYPE 
          20.810           20.695 
[1] "15.0 - 46.9 (20.8)" "0.0 - 211.2 (20.7)"
[1] "hr="     "3300000"
D77V2, continuous
D77V3, binary
                  cls
clus                 0   1
  KTELC1 MUTATED     1   4
  KTELC1 WILD-TYPE 228 279
[1] "tbl2"
                  cls
clus               [,1] [,2]
  KTELC1 MUTATED      1    4
  KTELC1 WILD-TYPE  228  279
        clus
vv       KTELC1 MUTATED KTELC1 WILD-TYPE
  FEMALE              1              228
  MALE                4              279
[1] 2 2
[1] FALSE
D77V4, binary
                  cls
clus                 0   1
  KTELC1 MUTATED     1   4
  KTELC1 WILD-TYPE 185 287
[1] "tbl2"
                  cls
clus               [,1] [,2]
  KTELC1 MUTATED      1    4
  KTELC1 WILD-TYPE  185  287
     clus
vv    KTELC1 MUTATED KTELC1 WILD-TYPE
  NO               1              185
  YES              4              287
[1] 2 2
[1] FALSE
D77V5, continuous
[1] "Remove cluster labels:" "KTELC1 MUTATED"        
clus
  KTELC1 MUTATED KTELC1 WILD-TYPE 
               1              305 
      TCGA-CS-4938       TCGA-CS-4941       TCGA-CS-4942       TCGA-CS-4943 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-CS-4944       TCGA-CS-5390       TCGA-CS-5393       TCGA-CS-5395 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-CS-5396       TCGA-CS-5397       TCGA-CS-6186       TCGA-CS-6188 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-CS-6290       TCGA-CS-6665       TCGA-CS-6666       TCGA-CS-6667 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-CS-6668       TCGA-CS-6669       TCGA-DB-5274       TCGA-DB-A4XE 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DB-A64L       TCGA-DB-A64Q       TCGA-DB-A64R       TCGA-DB-A64S 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DB-A64U       TCGA-DB-A64V       TCGA-DB-A64W       TCGA-DB-A64X 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DB-A75L       TCGA-DB-A75O       TCGA-DH-5140       TCGA-DH-5142 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DH-5143       TCGA-DH-5144       TCGA-DH-A66B       TCGA-DH-A66D 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DH-A66F       TCGA-DH-A66G       TCGA-DH-A7UR       TCGA-DH-A7UU 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DH-A7UV       TCGA-DU-5851       TCGA-DU-5852       TCGA-DU-5853 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-5854       TCGA-DU-5855       TCGA-DU-5870       TCGA-DU-5871 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-5874       TCGA-DU-6396       TCGA-DU-6401       TCGA-DU-6403 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-6404       TCGA-DU-6405       TCGA-DU-6407       TCGA-DU-6408 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-6410       TCGA-DU-7009       TCGA-DU-7011       TCGA-DU-7013 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-7015       TCGA-DU-7018       TCGA-DU-7019       TCGA-DU-7294 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-7298       TCGA-DU-7299       TCGA-DU-7300       TCGA-DU-7301 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-7302       TCGA-DU-7304       TCGA-DU-7306       TCGA-DU-7309 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-8158       TCGA-DU-8161       TCGA-DU-8162       TCGA-DU-8163 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-8165       TCGA-DU-8167       TCGA-DU-8168       TCGA-DU-A5TP 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-A5TR       TCGA-DU-A5TS       TCGA-DU-A5TU       TCGA-DU-A5TW 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-A6S2       TCGA-DU-A6S6       TCGA-DU-A6S7       TCGA-DU-A6S8 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-A76R       TCGA-DU-A7T6       TCGA-DU-A7T8       TCGA-DU-A7TA 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-DU-A7TB       TCGA-DU-A7TC       TCGA-DU-A7TD       TCGA-DU-A7TG 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-E1-5302       TCGA-E1-5303       TCGA-E1-5304       TCGA-E1-5305 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-E1-5307       TCGA-E1-5311       TCGA-E1-5318       TCGA-E1-5319 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-E1-5322       TCGA-E1-A7YE       TCGA-E1-A7YH       TCGA-E1-A7YI 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-E1-A7YJ       TCGA-E1-A7YK       TCGA-E1-A7YL       TCGA-E1-A7YM 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-E1-A7YN       TCGA-E1-A7YO       TCGA-E1-A7YQ       TCGA-E1-A7YS 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-E1-A7YV       TCGA-E1-A7YW       TCGA-E1-A7YY       TCGA-E1-A7Z2 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-E1-A7Z4       TCGA-E1-A7Z6       TCGA-FG-5963       TCGA-FG-5965 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-FG-6688       TCGA-FG-6689       TCGA-FG-6690       TCGA-FG-6691 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-FG-7636       TCGA-FG-7638       TCGA-FG-8181       TCGA-FG-8185 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-FG-8186       TCGA-FG-8187       TCGA-FG-8188       TCGA-FG-8189 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-FG-A4MT       TCGA-FG-A4MW       TCGA-FG-A4MX       TCGA-FG-A60J 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-FG-A60L       TCGA-FG-A6J1       TCGA-FG-A6J3       TCGA-FG-A711 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-FG-A713       TCGA-FG-A87Q       TCGA-HT-7468       TCGA-HT-7470 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-HT-7475       TCGA-HT-7477       TCGA-HT-7481       TCGA-HT-7482 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-HT-7485       TCGA-HT-7607       TCGA-HT-7609       TCGA-HT-7611 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-HT-7686       TCGA-HT-7689       TCGA-HT-7692       TCGA-HT-7693 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-HT-7694       TCGA-HT-7854       TCGA-HT-7855       TCGA-HT-7856 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-HT-7858       TCGA-HT-7875       TCGA-HT-7884       TCGA-HT-8013 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-HT-8105       TCGA-HT-8113       TCGA-HT-8564       TCGA-HT-A4DV 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-HT-A5R7       TCGA-HT-A5RA       TCGA-HT-A5RC       TCGA-HT-A615 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-HT-A617       TCGA-HT-A618       TCGA-HT-A61A       TCGA-HT-A61B 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-HT-A61C       TCGA-HT-A74L       TCGA-IK-7675       TCGA-KT-A74X 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-KT-A7W1       TCGA-P5-A5EU       TCGA-P5-A5EV       TCGA-P5-A5EW 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-P5-A5EX       TCGA-P5-A5F0       TCGA-P5-A5F2       TCGA-P5-A5F4 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-P5-A5F6       TCGA-P5-A731       TCGA-QH-A65R       TCGA-QH-A65S 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-QH-A65V       TCGA-QH-A65X       TCGA-QH-A65Z       TCGA-QH-A6CS 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-QH-A6CU       TCGA-QH-A6CV       TCGA-QH-A6CW       TCGA-QH-A6CX 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-QH-A6CY       TCGA-QH-A6CZ       TCGA-QH-A6X3       TCGA-QH-A6X4 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-QH-A6X5       TCGA-QH-A6X8       TCGA-QH-A6X9       TCGA-QH-A6XA 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-QH-A6XC       TCGA-QH-A86X       TCGA-QH-A870       TCGA-RY-A83Y 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-RY-A840       TCGA-RY-A845       TCGA-RY-A847       TCGA-S9-A6TS 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A6TU       TCGA-S9-A6TW       TCGA-S9-A6TX       TCGA-S9-A6TY 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A6TZ       TCGA-S9-A6U0       TCGA-S9-A6U1       TCGA-S9-A6U2 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A6U5       TCGA-S9-A6U6       TCGA-S9-A6U8       TCGA-S9-A6UA 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A6UB       TCGA-S9-A6WD       TCGA-S9-A6WE       TCGA-S9-A6WG 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A6WH       TCGA-S9-A6WI       TCGA-S9-A6WL       TCGA-S9-A6WM 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A6WN       TCGA-S9-A6WO       TCGA-S9-A6WP       TCGA-S9-A6WQ 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A7IQ       TCGA-S9-A7IS       TCGA-S9-A7IX       TCGA-S9-A7IY 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A7IZ       TCGA-S9-A7J0       TCGA-S9-A7J1       TCGA-S9-A7J2 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A7J3       TCGA-S9-A7QW       TCGA-S9-A7QX       TCGA-S9-A7QY 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A7QZ       TCGA-S9-A7R1       TCGA-S9-A7R2       TCGA-S9-A7R3 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A7R4       TCGA-S9-A7R7       TCGA-S9-A7R8       TCGA-S9-A89V 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-S9-A89Z       TCGA-TM-A7C3       TCGA-TM-A7C4       TCGA-TM-A7C5 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-TM-A7CA       TCGA-TM-A7CF       TCGA-TM-A84B       TCGA-TM-A84C 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-TM-A84F       TCGA-TM-A84G       TCGA-TM-A84H       TCGA-TM-A84I 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-TM-A84J       TCGA-TM-A84L       TCGA-TM-A84M       TCGA-TM-A84O 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-TM-A84Q       TCGA-TM-A84R       TCGA-TM-A84S       TCGA-TM-A84T 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-TQ-A7RG       TCGA-TQ-A7RK       TCGA-TQ-A7RM       TCGA-TQ-A7RN 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-TQ-A7RO       TCGA-TQ-A7RP       TCGA-TQ-A7RQ       TCGA-TQ-A7RR 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-TQ-A7RS       TCGA-TQ-A7RU       TCGA-TQ-A7RV       TCGA-TQ-A7RW 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-TQ-A8XE       TCGA-VM-A8C8       TCGA-VM-A8CA       TCGA-VM-A8CD 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-VM-A8CE       TCGA-VM-A8CF       TCGA-VM-A8CH       TCGA-WY-A858 
"KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" "KTELC1 WILD-TYPE" 
      TCGA-WY-A859 
"KTELC1 WILD-TYPE" 
                  vv
clus               ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  KTELC1 MUTATED             2                2                 1
  KTELC1 WILD-TYPE         190              128               189
D77V6, multiclass
                   clus
vv                  KTELC1 MUTATED KTELC1 WILD-TYPE
  ASTROCYTOMA                    2              190
  OLIGOASTROCYTOMA               2              128
  OLIGODENDROGLIOMA              1              189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  KTELC1 MUTATED                                  0     0
  KTELC1 WILD-TYPE                                1     8
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  KTELC1 MUTATED                           0     5
  KTELC1 WILD-TYPE                        21   467
D77V7, multiclass
                                  clus
vv                                 KTELC1 MUTATED KTELC1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0                8
  BLACK OR AFRICAN AMERICAN                     0               21
  WHITE                                         5              467
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D77V8, binary
                  cls
clus                 0   1
  KTELC1 MUTATED     0   3
  KTELC1 WILD-TYPE  32 443
[1] "tbl2"
                  cls
clus               [,1] [,2]
  KTELC1 MUTATED      0    3
  KTELC1 WILD-TYPE   32  443
                        clus
vv                       KTELC1 MUTATED KTELC1 WILD-TYPE
  HISPANIC OR LATINO                  0               32
  NOT HISPANIC OR LATINO              3              443
[1] 2 2
[1] FALSE

Clustering(78) Variable = ASXL2 MUTATION ANALYSIS
D78V1, survival
                 sevent
clus2               0   1
  ASXL2 MUTATED     3   0
  ASXL2 WILD-TYPE 387 119
  ASXL2 MUTATED ASXL2 WILD-TYPE 
              3             506 
  ASXL2 MUTATED ASXL2 WILD-TYPE 
              0             119 
$`ASXL2 MUTATED`
TCGA-DU-6392 TCGA-FG-7638 TCGA-S9-A7J1 
      211.17        22.55         8.19 

$`ASXL2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       19.96        31.82        63.88        46.06         8.02        30.21 
TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       42.05        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        40.08        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 
       22.26        28.54        10.78        36.66        48.69        20.45 
TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       18.64         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 
       13.78         0.23        29.59        34.19        13.74        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C 
       16.14        16.83        21.40         6.38        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       13.45        41.49        45.60        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54         6.18        10.55        12.76        20.81 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       20.71        19.00        42.77        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         4.11         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.63         0.76         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23         2.20         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50         5.03 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M 
       11.08        12.99        88.83        94.03        32.65        59.38 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        28.14 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J2 TCGA-S9-A7J3 
       26.93        23.51        19.99        20.02         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        43.04 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  ASXL2 MUTATED ASXL2 WILD-TYPE 
           8.19            0.03 
  ASXL2 MUTATED ASXL2 WILD-TYPE 
         211.17          182.33 
  ASXL2 MUTATED ASXL2 WILD-TYPE 
         22.550          20.695 
[1] "8.2 - 211.2 (22.6)" "0.0 - 182.3 (20.7)"
[1] "hr="   "1e+07"
D78V2, continuous
D78V3, binary
                 cls
clus                0   1
  ASXL2 MUTATED     2   1
  ASXL2 WILD-TYPE 227 282
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ASXL2 MUTATED      2    1
  ASXL2 WILD-TYPE  227  282
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  FEMALE             2             227
  MALE               1             282
[1] 2 2
[1] FALSE
D78V4, binary
                 cls
clus                0   1
  ASXL2 MUTATED     1   2
  ASXL2 WILD-TYPE 185 289
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ASXL2 MUTATED      1    2
  ASXL2 WILD-TYPE  185  289
     clus
vv    ASXL2 MUTATED ASXL2 WILD-TYPE
  NO              1             185
  YES             2             289
[1] 2 2
[1] FALSE
D78V5, continuous
[1] "Remove cluster labels:" "ASXL2 MUTATED"         
clus
  ASXL2 MUTATED ASXL2 WILD-TYPE 
              2             304 
     TCGA-CS-4938      TCGA-CS-4941      TCGA-CS-4942      TCGA-CS-4943 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-CS-4944      TCGA-CS-5390      TCGA-CS-5393      TCGA-CS-5395 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-CS-5396      TCGA-CS-5397      TCGA-CS-6186      TCGA-CS-6188 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-CS-6290      TCGA-CS-6665      TCGA-CS-6666      TCGA-CS-6667 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-CS-6668      TCGA-CS-6669      TCGA-DB-5274      TCGA-DB-A4XE 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DB-A64L      TCGA-DB-A64Q      TCGA-DB-A64R      TCGA-DB-A64S 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DB-A64U      TCGA-DB-A64V      TCGA-DB-A64W      TCGA-DB-A64X 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DB-A75L      TCGA-DB-A75O      TCGA-DH-5140      TCGA-DH-5142 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DH-5143      TCGA-DH-5144      TCGA-DH-A66B      TCGA-DH-A66D 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DH-A66F      TCGA-DH-A66G      TCGA-DH-A7UR      TCGA-DH-A7UU 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DH-A7UV      TCGA-DU-5851      TCGA-DU-5852      TCGA-DU-5853 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-5854      TCGA-DU-5855      TCGA-DU-5870      TCGA-DU-5871 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-5874      TCGA-DU-6396      TCGA-DU-6401      TCGA-DU-6403 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-6404      TCGA-DU-6405      TCGA-DU-6407      TCGA-DU-6408 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-6410      TCGA-DU-7009      TCGA-DU-7011      TCGA-DU-7013 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-7015      TCGA-DU-7018      TCGA-DU-7019      TCGA-DU-7294 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-7298      TCGA-DU-7299      TCGA-DU-7300      TCGA-DU-7301 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-7302      TCGA-DU-7304      TCGA-DU-7306      TCGA-DU-7309 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-8158      TCGA-DU-8161      TCGA-DU-8162      TCGA-DU-8163 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-8165      TCGA-DU-8167      TCGA-DU-8168      TCGA-DU-A5TP 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-A5TR      TCGA-DU-A5TS      TCGA-DU-A5TU      TCGA-DU-A5TW 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-A6S2      TCGA-DU-A6S6      TCGA-DU-A6S7      TCGA-DU-A6S8 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-A76R      TCGA-DU-A7T6      TCGA-DU-A7T8      TCGA-DU-A7TA 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-DU-A7TB      TCGA-DU-A7TC      TCGA-DU-A7TD      TCGA-DU-A7TG 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-E1-5302      TCGA-E1-5303      TCGA-E1-5304      TCGA-E1-5305 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-E1-5307      TCGA-E1-5311      TCGA-E1-5318      TCGA-E1-5319 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-E1-5322      TCGA-E1-A7YE      TCGA-E1-A7YH      TCGA-E1-A7YI 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-E1-A7YJ      TCGA-E1-A7YK      TCGA-E1-A7YL      TCGA-E1-A7YM 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-E1-A7YN      TCGA-E1-A7YO      TCGA-E1-A7YQ      TCGA-E1-A7YS 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-E1-A7YV      TCGA-E1-A7YW      TCGA-E1-A7YY      TCGA-E1-A7Z2 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-E1-A7Z4      TCGA-E1-A7Z6      TCGA-FG-5963      TCGA-FG-5965 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-FG-6688      TCGA-FG-6689      TCGA-FG-6690      TCGA-FG-6691 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-FG-7636      TCGA-FG-8181      TCGA-FG-8185      TCGA-FG-8186 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-FG-8187      TCGA-FG-8188      TCGA-FG-8189      TCGA-FG-A4MT 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-FG-A4MW      TCGA-FG-A4MX      TCGA-FG-A60J      TCGA-FG-A60L 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-FG-A6J1      TCGA-FG-A6J3      TCGA-FG-A711      TCGA-FG-A713 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-FG-A87Q      TCGA-HT-7468      TCGA-HT-7470      TCGA-HT-7475 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-HT-7477      TCGA-HT-7481      TCGA-HT-7482      TCGA-HT-7485 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-HT-7607      TCGA-HT-7609      TCGA-HT-7611      TCGA-HT-7686 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-HT-7689      TCGA-HT-7692      TCGA-HT-7693      TCGA-HT-7694 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-HT-7854      TCGA-HT-7855      TCGA-HT-7856      TCGA-HT-7858 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-HT-7875      TCGA-HT-7884      TCGA-HT-8013      TCGA-HT-8105 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-HT-8113      TCGA-HT-8564      TCGA-HT-A4DV      TCGA-HT-A5R7 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-HT-A5RA      TCGA-HT-A5RC      TCGA-HT-A615      TCGA-HT-A617 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-HT-A618      TCGA-HT-A61A      TCGA-HT-A61B      TCGA-HT-A61C 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-HT-A74L      TCGA-IK-7675      TCGA-KT-A74X      TCGA-KT-A7W1 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-P5-A5EU      TCGA-P5-A5EV      TCGA-P5-A5EW      TCGA-P5-A5EX 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-P5-A5F0      TCGA-P5-A5F2      TCGA-P5-A5F4      TCGA-P5-A5F6 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-P5-A731      TCGA-QH-A65R      TCGA-QH-A65S      TCGA-QH-A65V 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-QH-A65X      TCGA-QH-A65Z      TCGA-QH-A6CS      TCGA-QH-A6CU 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-QH-A6CV      TCGA-QH-A6CW      TCGA-QH-A6CX      TCGA-QH-A6CY 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-QH-A6CZ      TCGA-QH-A6X3      TCGA-QH-A6X4      TCGA-QH-A6X5 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-QH-A6X8      TCGA-QH-A6X9      TCGA-QH-A6XA      TCGA-QH-A6XC 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-QH-A86X      TCGA-QH-A870      TCGA-RY-A83Y      TCGA-RY-A840 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-RY-A845      TCGA-RY-A847      TCGA-S9-A6TS      TCGA-S9-A6TU 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A6TV      TCGA-S9-A6TW      TCGA-S9-A6TX      TCGA-S9-A6TY 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A6TZ      TCGA-S9-A6U0      TCGA-S9-A6U1      TCGA-S9-A6U2 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A6U5      TCGA-S9-A6U6      TCGA-S9-A6U8      TCGA-S9-A6UA 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A6UB      TCGA-S9-A6WD      TCGA-S9-A6WE      TCGA-S9-A6WG 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A6WH      TCGA-S9-A6WI      TCGA-S9-A6WL      TCGA-S9-A6WM 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A6WN      TCGA-S9-A6WO      TCGA-S9-A6WP      TCGA-S9-A6WQ 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A7IQ      TCGA-S9-A7IS      TCGA-S9-A7IX      TCGA-S9-A7IY 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A7IZ      TCGA-S9-A7J0      TCGA-S9-A7J2      TCGA-S9-A7J3 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A7QW      TCGA-S9-A7QX      TCGA-S9-A7QY      TCGA-S9-A7QZ 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A7R1      TCGA-S9-A7R2      TCGA-S9-A7R3      TCGA-S9-A7R4 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-S9-A7R7      TCGA-S9-A7R8      TCGA-S9-A89V      TCGA-S9-A89Z 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-TM-A7C3      TCGA-TM-A7C4      TCGA-TM-A7C5      TCGA-TM-A7CA 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-TM-A7CF      TCGA-TM-A84B      TCGA-TM-A84C      TCGA-TM-A84F 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-TM-A84G      TCGA-TM-A84H      TCGA-TM-A84I      TCGA-TM-A84J 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-TM-A84L      TCGA-TM-A84M      TCGA-TM-A84O      TCGA-TM-A84Q 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-TM-A84R      TCGA-TM-A84S      TCGA-TM-A84T      TCGA-TQ-A7RG 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-TQ-A7RK      TCGA-TQ-A7RM      TCGA-TQ-A7RN      TCGA-TQ-A7RO 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-TQ-A7RP      TCGA-TQ-A7RQ      TCGA-TQ-A7RR      TCGA-TQ-A7RS 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-TQ-A7RU      TCGA-TQ-A7RV      TCGA-TQ-A7RW      TCGA-TQ-A8XE 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-VM-A8C8      TCGA-VM-A8CA      TCGA-VM-A8CD      TCGA-VM-A8CE 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-VM-A8CF      TCGA-VM-A8CH      TCGA-WY-A858      TCGA-WY-A859 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ASXL2 MUTATED             1                0                 2
  ASXL2 WILD-TYPE         191              130               188
D78V6, multiclass
                   clus
vv                  ASXL2 MUTATED ASXL2 WILD-TYPE
  ASTROCYTOMA                   1             191
  OLIGOASTROCYTOMA              0             130
  OLIGODENDROGLIOMA             2             188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ASXL2 MUTATED                                  0     0
  ASXL2 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  ASXL2 MUTATED                           0     3
  ASXL2 WILD-TYPE                        21   469
D78V7, multiclass
                                  clus
vv                                 ASXL2 MUTATED ASXL2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        3             469
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D78V8, binary
                 cls
clus                0   1
  ASXL2 MUTATED     0   3
  ASXL2 WILD-TYPE  32 443
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ASXL2 MUTATED      0    3
  ASXL2 WILD-TYPE   32  443
                        clus
vv                       ASXL2 MUTATED ASXL2 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO             3             443
[1] 2 2
[1] FALSE

Clustering(79) Variable = CCDC135 MUTATION ANALYSIS
D79V1, survival
                   sevent
clus2                 0   1
  CCDC135 MUTATED     6   1
  CCDC135 WILD-TYPE 384 118
  CCDC135 MUTATED CCDC135 WILD-TYPE 
                7               502 
  CCDC135 MUTATED CCDC135 WILD-TYPE 
                1               118 
$`CCDC135 MUTATED`
TCGA-DB-A4XF TCGA-DB-A4XH TCGA-DU-6392 TCGA-HT-7616 TCGA-HT-8563 TCGA-S9-A6U6 
       33.57        31.63       211.17         0.23        28.27        35.15 
TCGA-TQ-A7RI 
        2.04 

$`CCDC135 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       72.95        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 
       11.24        17.88        30.74        16.18        19.96        31.82 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D 
       63.88        46.06         8.02        30.21        42.05        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 
       13.68        14.24        16.01        20.09        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       14.76        17.82        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N 
       28.54        10.78        36.66        48.69        20.45        18.64 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
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-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        13.74        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
        2.20         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50         5.03        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       94.03        32.65        59.38        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        28.14        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       25.81        29.85        32.61        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
       15.98        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        43.04        43.20        13.51         0.10         7.89 
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-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       45.80        46.88        37.71        20.81 

  CCDC135 MUTATED CCDC135 WILD-TYPE 
             0.23              0.03 
  CCDC135 MUTATED CCDC135 WILD-TYPE 
           211.17            182.33 
  CCDC135 MUTATED CCDC135 WILD-TYPE 
            31.63             20.68 
[1] "0.2 - 211.2 (31.6)" "0.0 - 182.3 (20.7)"
[1] "hr=" "3.1"
D79V2, continuous
D79V3, binary
                   cls
clus                  0   1
  CCDC135 MUTATED     5   2
  CCDC135 WILD-TYPE 224 281
[1] "tbl2"
                   cls
clus                [,1] [,2]
  CCDC135 MUTATED      5    2
  CCDC135 WILD-TYPE  224  281
        clus
vv       CCDC135 MUTATED CCDC135 WILD-TYPE
  FEMALE               5               224
  MALE                 2               281
[1] 2 2
[1] FALSE
D79V4, binary
                   cls
clus                  0   1
  CCDC135 MUTATED     3   4
  CCDC135 WILD-TYPE 183 287
[1] "tbl2"
                   cls
clus                [,1] [,2]
  CCDC135 MUTATED      3    4
  CCDC135 WILD-TYPE  183  287
     clus
vv    CCDC135 MUTATED CCDC135 WILD-TYPE
  NO                3               183
  YES               4               287
[1] 2 2
[1] FALSE
D79V5, continuous
[1] "Remove cluster labels:" "CCDC135 MUTATED"       
clus
  CCDC135 MUTATED CCDC135 WILD-TYPE 
                1               305 
       TCGA-CS-4938        TCGA-CS-4941        TCGA-CS-4942        TCGA-CS-4943 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-CS-4944        TCGA-CS-5390        TCGA-CS-5393        TCGA-CS-5395 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-CS-5396        TCGA-CS-5397        TCGA-CS-6186        TCGA-CS-6188 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-CS-6290        TCGA-CS-6665        TCGA-CS-6666        TCGA-CS-6667 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-CS-6668        TCGA-CS-6669        TCGA-DB-5274        TCGA-DB-A4XE 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DB-A64L        TCGA-DB-A64Q        TCGA-DB-A64R        TCGA-DB-A64S 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DB-A64U        TCGA-DB-A64V        TCGA-DB-A64W        TCGA-DB-A64X 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DB-A75L        TCGA-DB-A75O        TCGA-DH-5140        TCGA-DH-5142 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DH-5143        TCGA-DH-5144        TCGA-DH-A66B        TCGA-DH-A66D 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DH-A66F        TCGA-DH-A66G        TCGA-DH-A7UR        TCGA-DH-A7UU 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DH-A7UV        TCGA-DU-5851        TCGA-DU-5852        TCGA-DU-5853 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-5854        TCGA-DU-5855        TCGA-DU-5870        TCGA-DU-5871 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-5874        TCGA-DU-6396        TCGA-DU-6401        TCGA-DU-6403 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-6404        TCGA-DU-6405        TCGA-DU-6407        TCGA-DU-6408 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-6410        TCGA-DU-7009        TCGA-DU-7011        TCGA-DU-7013 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-7015        TCGA-DU-7018        TCGA-DU-7019        TCGA-DU-7294 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-7298        TCGA-DU-7299        TCGA-DU-7300        TCGA-DU-7301 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-7302        TCGA-DU-7304        TCGA-DU-7306        TCGA-DU-7309 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-8158        TCGA-DU-8161        TCGA-DU-8162        TCGA-DU-8163 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-8165        TCGA-DU-8167        TCGA-DU-8168        TCGA-DU-A5TP 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-A5TR        TCGA-DU-A5TS        TCGA-DU-A5TU        TCGA-DU-A5TW 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-A6S2        TCGA-DU-A6S6        TCGA-DU-A6S7        TCGA-DU-A6S8 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-A76R        TCGA-DU-A7T6        TCGA-DU-A7T8        TCGA-DU-A7TA 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-DU-A7TB        TCGA-DU-A7TC        TCGA-DU-A7TD        TCGA-DU-A7TG 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-E1-5302        TCGA-E1-5303        TCGA-E1-5304        TCGA-E1-5305 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-E1-5307        TCGA-E1-5311        TCGA-E1-5318        TCGA-E1-5319 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-E1-5322        TCGA-E1-A7YE        TCGA-E1-A7YH        TCGA-E1-A7YI 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-E1-A7YJ        TCGA-E1-A7YK        TCGA-E1-A7YL        TCGA-E1-A7YM 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-E1-A7YN        TCGA-E1-A7YO        TCGA-E1-A7YQ        TCGA-E1-A7YS 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-E1-A7YV        TCGA-E1-A7YW        TCGA-E1-A7YY        TCGA-E1-A7Z2 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-E1-A7Z4        TCGA-E1-A7Z6        TCGA-FG-5963        TCGA-FG-5965 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-FG-6688        TCGA-FG-6689        TCGA-FG-6690        TCGA-FG-6691 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-FG-7636        TCGA-FG-7638        TCGA-FG-8181        TCGA-FG-8185 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-FG-8186        TCGA-FG-8187        TCGA-FG-8188        TCGA-FG-8189 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-FG-A4MT        TCGA-FG-A4MW        TCGA-FG-A4MX        TCGA-FG-A60J 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-FG-A60L        TCGA-FG-A6J1        TCGA-FG-A6J3        TCGA-FG-A711 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-FG-A713        TCGA-FG-A87Q        TCGA-HT-7468        TCGA-HT-7470 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-HT-7475        TCGA-HT-7477        TCGA-HT-7481        TCGA-HT-7482 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-HT-7485        TCGA-HT-7607        TCGA-HT-7609        TCGA-HT-7611 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-HT-7686        TCGA-HT-7689        TCGA-HT-7692        TCGA-HT-7693 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-HT-7694        TCGA-HT-7854        TCGA-HT-7855        TCGA-HT-7856 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-HT-7858        TCGA-HT-7875        TCGA-HT-7884        TCGA-HT-8013 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-HT-8105        TCGA-HT-8113        TCGA-HT-8564        TCGA-HT-A4DV 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-HT-A5R7        TCGA-HT-A5RA        TCGA-HT-A5RC        TCGA-HT-A615 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-HT-A617        TCGA-HT-A618        TCGA-HT-A61A        TCGA-HT-A61B 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-HT-A61C        TCGA-HT-A74L        TCGA-IK-7675        TCGA-KT-A74X 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-KT-A7W1        TCGA-P5-A5EU        TCGA-P5-A5EV        TCGA-P5-A5EW 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-P5-A5EX        TCGA-P5-A5F0        TCGA-P5-A5F2        TCGA-P5-A5F4 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-P5-A5F6        TCGA-P5-A731        TCGA-QH-A65R        TCGA-QH-A65S 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-QH-A65V        TCGA-QH-A65X        TCGA-QH-A65Z        TCGA-QH-A6CS 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-QH-A6CU        TCGA-QH-A6CV        TCGA-QH-A6CW        TCGA-QH-A6CX 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-QH-A6CY        TCGA-QH-A6CZ        TCGA-QH-A6X3        TCGA-QH-A6X4 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-QH-A6X5        TCGA-QH-A6X8        TCGA-QH-A6X9        TCGA-QH-A6XA 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-QH-A6XC        TCGA-QH-A86X        TCGA-QH-A870        TCGA-RY-A83Y 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-RY-A840        TCGA-RY-A845        TCGA-RY-A847        TCGA-S9-A6TS 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A6TU        TCGA-S9-A6TV        TCGA-S9-A6TW        TCGA-S9-A6TX 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A6TY        TCGA-S9-A6TZ        TCGA-S9-A6U0        TCGA-S9-A6U1 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A6U2        TCGA-S9-A6U5        TCGA-S9-A6U8        TCGA-S9-A6UA 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A6UB        TCGA-S9-A6WD        TCGA-S9-A6WE        TCGA-S9-A6WG 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A6WH        TCGA-S9-A6WI        TCGA-S9-A6WL        TCGA-S9-A6WM 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A6WN        TCGA-S9-A6WO        TCGA-S9-A6WP        TCGA-S9-A6WQ 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A7IQ        TCGA-S9-A7IS        TCGA-S9-A7IX        TCGA-S9-A7IY 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A7IZ        TCGA-S9-A7J0        TCGA-S9-A7J1        TCGA-S9-A7J2 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A7J3        TCGA-S9-A7QW        TCGA-S9-A7QX        TCGA-S9-A7QY 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A7QZ        TCGA-S9-A7R1        TCGA-S9-A7R2        TCGA-S9-A7R3 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A7R4        TCGA-S9-A7R7        TCGA-S9-A7R8        TCGA-S9-A89V 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-S9-A89Z        TCGA-TM-A7C3        TCGA-TM-A7C4        TCGA-TM-A7C5 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-TM-A7CA        TCGA-TM-A7CF        TCGA-TM-A84B        TCGA-TM-A84C 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-TM-A84F        TCGA-TM-A84G        TCGA-TM-A84H        TCGA-TM-A84I 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-TM-A84J        TCGA-TM-A84L        TCGA-TM-A84M        TCGA-TM-A84O 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-TM-A84Q        TCGA-TM-A84R        TCGA-TM-A84S        TCGA-TM-A84T 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-TQ-A7RG        TCGA-TQ-A7RK        TCGA-TQ-A7RM        TCGA-TQ-A7RN 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-TQ-A7RO        TCGA-TQ-A7RP        TCGA-TQ-A7RQ        TCGA-TQ-A7RR 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-TQ-A7RS        TCGA-TQ-A7RU        TCGA-TQ-A7RV        TCGA-TQ-A7RW 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-TQ-A8XE        TCGA-VM-A8C8        TCGA-VM-A8CA        TCGA-VM-A8CD 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-VM-A8CE        TCGA-VM-A8CF        TCGA-VM-A8CH        TCGA-WY-A858 
"CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" "CCDC135 WILD-TYPE" 
       TCGA-WY-A859 
"CCDC135 WILD-TYPE" 
                   vv
clus                ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  CCDC135 MUTATED             4                1                 2
  CCDC135 WILD-TYPE         188              129               188
D79V6, multiclass
                   clus
vv                  CCDC135 MUTATED CCDC135 WILD-TYPE
  ASTROCYTOMA                     4               188
  OLIGOASTROCYTOMA                1               129
  OLIGODENDROGLIOMA               2               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  CCDC135 MUTATED                                  0     0
  CCDC135 WILD-TYPE                                1     8
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  CCDC135 MUTATED                           0     7
  CCDC135 WILD-TYPE                        21   465
D79V7, multiclass
                                  clus
vv                                 CCDC135 MUTATED CCDC135 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 8
  BLACK OR AFRICAN AMERICAN                      0                21
  WHITE                                          7               465
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D79V8, binary
                   cls
clus                  0   1
  CCDC135 MUTATED     1   6
  CCDC135 WILD-TYPE  31 440
[1] "tbl2"
                   cls
clus                [,1] [,2]
  CCDC135 MUTATED      1    6
  CCDC135 WILD-TYPE   31  440
                        clus
vv                       CCDC135 MUTATED CCDC135 WILD-TYPE
  HISPANIC OR LATINO                   1                31
  NOT HISPANIC OR LATINO               6               440
[1] 2 2
[1] FALSE

Clustering(80) Variable = SLC25A5 MUTATION ANALYSIS
D80V1, survival
                   sevent
clus2                 0   1
  SLC25A5 MUTATED     1   3
  SLC25A5 WILD-TYPE 389 116
  SLC25A5 MUTATED SLC25A5 WILD-TYPE 
                4               505 
  SLC25A5 MUTATED SLC25A5 WILD-TYPE 
                3               116 
$`SLC25A5 MUTATED`
TCGA-CS-5395 TCGA-E1-A7Z6 TCGA-FG-A711 TCGA-FG-A713 
       21.01        32.35        48.69        20.45 

$`SLC25A5 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
       40.18         0.10         9.96         6.38        17.69        23.84 
TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.95        12.43        46.95         7.56        49.94        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       15.35        17.88        40.08        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 
       28.34        13.68        14.24        16.01        20.09        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        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-A70Z TCGA-FG-A710 TCGA-FG-A87N TCGA-FG-A87Q 
       22.26        28.54        10.78        36.66        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
       29.59        34.19        13.74        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       21.40         6.38        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        13.45        41.49 
TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.60        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
        6.18        10.55        12.76        20.81        20.71        19.00 
TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       42.77        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         4.11         5.88         7.63         0.76 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23         2.20         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  SLC25A5 MUTATED SLC25A5 WILD-TYPE 
            20.45              0.03 
  SLC25A5 MUTATED SLC25A5 WILD-TYPE 
            48.69            211.17 
  SLC25A5 MUTATED SLC25A5 WILD-TYPE 
            26.68             20.68 
[1] "20.4 - 48.7 (26.7)" "0.0 - 211.2 (20.7)"
[1] "hr=" "3.5"
D80V2, continuous
D80V3, binary
                   cls
clus                  0   1
  SLC25A5 MUTATED     3   1
  SLC25A5 WILD-TYPE 226 282
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC25A5 MUTATED      3    1
  SLC25A5 WILD-TYPE  226  282
        clus
vv       SLC25A5 MUTATED SLC25A5 WILD-TYPE
  FEMALE               3               226
  MALE                 1               282
[1] 2 2
[1] FALSE
D80V4, binary
                   cls
clus                  0   1
  SLC25A5 MUTATED     1   3
  SLC25A5 WILD-TYPE 185 288
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC25A5 MUTATED      1    3
  SLC25A5 WILD-TYPE  185  288
     clus
vv    SLC25A5 MUTATED SLC25A5 WILD-TYPE
  NO                1               185
  YES               3               288
[1] 2 2
[1] FALSE
D80V5, continuous
                   vv
clus                ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  SLC25A5 MUTATED             1                1                 2
  SLC25A5 WILD-TYPE         191              129               188
D80V6, multiclass
                   clus
vv                  SLC25A5 MUTATED SLC25A5 WILD-TYPE
  ASTROCYTOMA                     1               191
  OLIGOASTROCYTOMA                1               129
  OLIGODENDROGLIOMA               2               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SLC25A5 MUTATED                                  0     0
  SLC25A5 WILD-TYPE                                1     8
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  SLC25A5 MUTATED                           1     3
  SLC25A5 WILD-TYPE                        20   469
D80V7, multiclass
                                  clus
vv                                 SLC25A5 MUTATED SLC25A5 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                 8
  BLACK OR AFRICAN AMERICAN                      1                20
  WHITE                                          3               469
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D80V8, binary
                   cls
clus                  0   1
  SLC25A5 MUTATED     0   3
  SLC25A5 WILD-TYPE  32 443
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC25A5 MUTATED      0    3
  SLC25A5 WILD-TYPE   32  443
                        clus
vv                       SLC25A5 MUTATED SLC25A5 WILD-TYPE
  HISPANIC OR LATINO                   0                32
  NOT HISPANIC OR LATINO               3               443
[1] 2 2
[1] FALSE

Clustering(81) Variable = ABCA7 MUTATION ANALYSIS
D81V1, survival
                 sevent
clus2               0   1
  ABCA7 MUTATED     6   3
  ABCA7 WILD-TYPE 384 116
  ABCA7 MUTATED ABCA7 WILD-TYPE 
              9             500 
  ABCA7 MUTATED ABCA7 WILD-TYPE 
              3             116 
$`ABCA7 MUTATED`
TCGA-DH-A669 TCGA-DU-6392 TCGA-DU-7010 TCGA-DU-A7TC TCGA-FG-A4MW TCGA-HT-7854 
       30.21       211.17        14.99        37.38        18.38        39.48 
TCGA-P5-A5EW TCGA-TM-A84J TCGA-W9-A837 
        6.71        24.16        51.06 

$`ABCA7 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66B 
       19.96        31.82        63.88        46.06         8.02        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 
       11.47        62.96       156.23       154.36       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 
       84.33        51.52         7.50        44.42         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO 
       19.46        12.43        16.18        21.30        23.90        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       40.08        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K 
       38.27        10.72        18.71        23.70        14.76        17.82 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 
       36.66        48.69        20.45        18.64         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7855 TCGA-HT-7856 
        2.96        17.52         6.90        14.53        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       13.74        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A 
       16.93         1.81        16.14        16.83        21.40         6.38 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 
        0.10        56.58        13.45        41.49        45.60        68.32 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54         6.18        10.55 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X 
       12.76        20.81        20.71        19.00        42.77        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
       14.40         0.23         7.99         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
        5.03        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       28.14        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       28.08        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       43.04        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E 
       37.71        20.81 

  ABCA7 MUTATED ABCA7 WILD-TYPE 
           6.71            0.03 
  ABCA7 MUTATED ABCA7 WILD-TYPE 
         211.17          182.33 
  ABCA7 MUTATED ABCA7 WILD-TYPE 
          30.21           20.68 
[1] "6.7 - 211.2 (30.2)" "0.0 - 182.3 (20.7)"
[1] "hr=" "1.2"
D81V2, continuous
D81V3, binary
                 cls
clus                0   1
  ABCA7 MUTATED     3   6
  ABCA7 WILD-TYPE 226 277
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ABCA7 MUTATED      3    6
  ABCA7 WILD-TYPE  226  277
        clus
vv       ABCA7 MUTATED ABCA7 WILD-TYPE
  FEMALE             3             226
  MALE               6             277
[1] 2 2
[1] FALSE
D81V4, binary
                 cls
clus                0   1
  ABCA7 MUTATED     3   5
  ABCA7 WILD-TYPE 183 286
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ABCA7 MUTATED      3    5
  ABCA7 WILD-TYPE  183  286
     clus
vv    ABCA7 MUTATED ABCA7 WILD-TYPE
  NO              3             183
  YES             5             286
[1] 2 2
[1] FALSE
D81V5, continuous
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  ABCA7 MUTATED             5                1                 3
  ABCA7 WILD-TYPE         187              129               187
D81V6, multiclass
                   clus
vv                  ABCA7 MUTATED ABCA7 WILD-TYPE
  ASTROCYTOMA                   5             187
  OLIGOASTROCYTOMA              1             129
  OLIGODENDROGLIOMA             3             187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ABCA7 MUTATED                                  0     0
  ABCA7 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  ABCA7 MUTATED                           0     9
  ABCA7 WILD-TYPE                        21   463
D81V7, multiclass
                                  clus
vv                                 ABCA7 MUTATED ABCA7 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        9             463
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D81V8, binary
                 cls
clus                0   1
  ABCA7 MUTATED     0   9
  ABCA7 WILD-TYPE  32 437
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ABCA7 MUTATED      0    9
  ABCA7 WILD-TYPE   32  437
                        clus
vv                       ABCA7 MUTATED ABCA7 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO             9             437
[1] 2 2
[1] FALSE

Clustering(82) Variable = NKD2 MUTATION ANALYSIS
D82V1, survival
                sevent
clus2              0   1
  NKD2 MUTATED     3   1
  NKD2 WILD-TYPE 387 118
  NKD2 MUTATED NKD2 WILD-TYPE 
             4            505 
  NKD2 MUTATED NKD2 WILD-TYPE 
             1            118 
$`NKD2 MUTATED`
TCGA-CS-6668 TCGA-S9-A6TZ TCGA-VW-A8FI TCGA-WY-A85A 
       49.94        36.82         8.05        43.40 

$`NKD2 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6669 
       23.84        17.95        12.43        46.95         7.56        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       18.84        30.21        46.72        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B 
       31.82        63.88        46.06         8.02        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 
        5.56        13.78         0.23        29.59        34.19        13.74 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B 
        1.81        16.14        16.83        21.40         6.38        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 
       56.58        13.45        41.49        45.60        68.32        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54         6.18        10.55        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 
       20.81        20.71        19.00        42.77        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         4.11 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.63         0.76         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23         2.20         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
        5.03        11.08        12.99        88.83        94.03        32.65 
TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       59.38        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       28.14        35.38        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       43.04        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-W9-A837 
       20.02        23.47        37.05        16.01        23.21        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       13.32        43.96        39.88        45.80        46.88        37.71 
TCGA-WY-A85E 
       20.81 

  NKD2 MUTATED NKD2 WILD-TYPE 
          8.05           0.03 
  NKD2 MUTATED NKD2 WILD-TYPE 
         49.94         211.17 
  NKD2 MUTATED NKD2 WILD-TYPE 
         40.11          20.68 
[1] "8.1 - 49.9 (40.1)"  "0.0 - 211.2 (20.7)"
[1] "hr=" "1"  
D82V2, continuous
D82V3, binary
                cls
clus               0   1
  NKD2 MUTATED     2   2
  NKD2 WILD-TYPE 227 281
[1] "tbl2"
                cls
clus             [,1] [,2]
  NKD2 MUTATED      2    2
  NKD2 WILD-TYPE  227  281
        clus
vv       NKD2 MUTATED NKD2 WILD-TYPE
  FEMALE            2            227
  MALE              2            281
[1] 2 2
[1] FALSE
D82V4, binary
                cls
clus               0   1
  NKD2 MUTATED     3   1
  NKD2 WILD-TYPE 183 290
[1] "tbl2"
                cls
clus             [,1] [,2]
  NKD2 MUTATED      3    1
  NKD2 WILD-TYPE  183  290
     clus
vv    NKD2 MUTATED NKD2 WILD-TYPE
  NO             3            183
  YES            1            290
[1] 2 2
[1] FALSE
D82V5, continuous
[1] "Remove cluster labels:" "NKD2 MUTATED"          
clus
  NKD2 MUTATED NKD2 WILD-TYPE 
             2            304 
    TCGA-CS-4938     TCGA-CS-4941     TCGA-CS-4942     TCGA-CS-4943 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-CS-4944     TCGA-CS-5390     TCGA-CS-5393     TCGA-CS-5395 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-CS-5396     TCGA-CS-5397     TCGA-CS-6186     TCGA-CS-6188 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-CS-6290     TCGA-CS-6665     TCGA-CS-6666     TCGA-CS-6667 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-CS-6669     TCGA-DB-5274     TCGA-DB-A4XE     TCGA-DB-A64L 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DB-A64Q     TCGA-DB-A64R     TCGA-DB-A64S     TCGA-DB-A64U 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DB-A64V     TCGA-DB-A64W     TCGA-DB-A64X     TCGA-DB-A75L 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DB-A75O     TCGA-DH-5140     TCGA-DH-5142     TCGA-DH-5143 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DH-5144     TCGA-DH-A66B     TCGA-DH-A66D     TCGA-DH-A66F 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DH-A66G     TCGA-DH-A7UR     TCGA-DH-A7UU     TCGA-DH-A7UV 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-5851     TCGA-DU-5852     TCGA-DU-5853     TCGA-DU-5854 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-5855     TCGA-DU-5870     TCGA-DU-5871     TCGA-DU-5874 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-6396     TCGA-DU-6401     TCGA-DU-6403     TCGA-DU-6404 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-6405     TCGA-DU-6407     TCGA-DU-6408     TCGA-DU-6410 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-7009     TCGA-DU-7011     TCGA-DU-7013     TCGA-DU-7015 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-7018     TCGA-DU-7019     TCGA-DU-7294     TCGA-DU-7298 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-7299     TCGA-DU-7300     TCGA-DU-7301     TCGA-DU-7302 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-7304     TCGA-DU-7306     TCGA-DU-7309     TCGA-DU-8158 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-8161     TCGA-DU-8162     TCGA-DU-8163     TCGA-DU-8165 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-8167     TCGA-DU-8168     TCGA-DU-A5TP     TCGA-DU-A5TR 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-A5TS     TCGA-DU-A5TU     TCGA-DU-A5TW     TCGA-DU-A6S2 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-A6S6     TCGA-DU-A6S7     TCGA-DU-A6S8     TCGA-DU-A76R 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-A7T6     TCGA-DU-A7T8     TCGA-DU-A7TA     TCGA-DU-A7TB 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-DU-A7TC     TCGA-DU-A7TD     TCGA-DU-A7TG     TCGA-E1-5302 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-E1-5303     TCGA-E1-5304     TCGA-E1-5305     TCGA-E1-5307 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-E1-5311     TCGA-E1-5318     TCGA-E1-5319     TCGA-E1-5322 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-E1-A7YE     TCGA-E1-A7YH     TCGA-E1-A7YI     TCGA-E1-A7YJ 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-E1-A7YK     TCGA-E1-A7YL     TCGA-E1-A7YM     TCGA-E1-A7YN 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-E1-A7YO     TCGA-E1-A7YQ     TCGA-E1-A7YS     TCGA-E1-A7YV 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-E1-A7YW     TCGA-E1-A7YY     TCGA-E1-A7Z2     TCGA-E1-A7Z4 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-E1-A7Z6     TCGA-FG-5963     TCGA-FG-5965     TCGA-FG-6688 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-FG-6689     TCGA-FG-6690     TCGA-FG-6691     TCGA-FG-7636 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-FG-7638     TCGA-FG-8181     TCGA-FG-8185     TCGA-FG-8186 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-FG-8187     TCGA-FG-8188     TCGA-FG-8189     TCGA-FG-A4MT 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-FG-A4MW     TCGA-FG-A4MX     TCGA-FG-A60J     TCGA-FG-A60L 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-FG-A6J1     TCGA-FG-A6J3     TCGA-FG-A711     TCGA-FG-A713 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-FG-A87Q     TCGA-HT-7468     TCGA-HT-7470     TCGA-HT-7475 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-HT-7477     TCGA-HT-7481     TCGA-HT-7482     TCGA-HT-7485 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-HT-7607     TCGA-HT-7609     TCGA-HT-7611     TCGA-HT-7686 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-HT-7689     TCGA-HT-7692     TCGA-HT-7693     TCGA-HT-7694 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-HT-7854     TCGA-HT-7855     TCGA-HT-7856     TCGA-HT-7858 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-HT-7875     TCGA-HT-7884     TCGA-HT-8013     TCGA-HT-8105 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-HT-8113     TCGA-HT-8564     TCGA-HT-A4DV     TCGA-HT-A5R7 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-HT-A5RA     TCGA-HT-A5RC     TCGA-HT-A615     TCGA-HT-A617 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-HT-A618     TCGA-HT-A61A     TCGA-HT-A61B     TCGA-HT-A61C 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-HT-A74L     TCGA-IK-7675     TCGA-KT-A74X     TCGA-KT-A7W1 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-P5-A5EU     TCGA-P5-A5EV     TCGA-P5-A5EW     TCGA-P5-A5EX 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-P5-A5F0     TCGA-P5-A5F2     TCGA-P5-A5F4     TCGA-P5-A5F6 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-P5-A731     TCGA-QH-A65R     TCGA-QH-A65S     TCGA-QH-A65V 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-QH-A65X     TCGA-QH-A65Z     TCGA-QH-A6CS     TCGA-QH-A6CU 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-QH-A6CV     TCGA-QH-A6CW     TCGA-QH-A6CX     TCGA-QH-A6CY 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-QH-A6CZ     TCGA-QH-A6X3     TCGA-QH-A6X4     TCGA-QH-A6X5 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-QH-A6X8     TCGA-QH-A6X9     TCGA-QH-A6XA     TCGA-QH-A6XC 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-QH-A86X     TCGA-QH-A870     TCGA-RY-A83Y     TCGA-RY-A840 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-RY-A845     TCGA-RY-A847     TCGA-S9-A6TS     TCGA-S9-A6TU 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A6TV     TCGA-S9-A6TW     TCGA-S9-A6TX     TCGA-S9-A6TY 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A6U0     TCGA-S9-A6U1     TCGA-S9-A6U2     TCGA-S9-A6U5 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A6U6     TCGA-S9-A6U8     TCGA-S9-A6UA     TCGA-S9-A6UB 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A6WD     TCGA-S9-A6WE     TCGA-S9-A6WG     TCGA-S9-A6WH 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A6WI     TCGA-S9-A6WL     TCGA-S9-A6WM     TCGA-S9-A6WN 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A6WO     TCGA-S9-A6WP     TCGA-S9-A6WQ     TCGA-S9-A7IQ 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A7IS     TCGA-S9-A7IX     TCGA-S9-A7IY     TCGA-S9-A7IZ 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A7J0     TCGA-S9-A7J1     TCGA-S9-A7J2     TCGA-S9-A7J3 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A7QW     TCGA-S9-A7QX     TCGA-S9-A7QY     TCGA-S9-A7QZ 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A7R1     TCGA-S9-A7R2     TCGA-S9-A7R3     TCGA-S9-A7R4 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-S9-A7R7     TCGA-S9-A7R8     TCGA-S9-A89V     TCGA-S9-A89Z 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-TM-A7C3     TCGA-TM-A7C4     TCGA-TM-A7C5     TCGA-TM-A7CA 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-TM-A7CF     TCGA-TM-A84B     TCGA-TM-A84C     TCGA-TM-A84F 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-TM-A84G     TCGA-TM-A84H     TCGA-TM-A84I     TCGA-TM-A84J 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-TM-A84L     TCGA-TM-A84M     TCGA-TM-A84O     TCGA-TM-A84Q 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-TM-A84R     TCGA-TM-A84S     TCGA-TM-A84T     TCGA-TQ-A7RG 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-TQ-A7RK     TCGA-TQ-A7RM     TCGA-TQ-A7RN     TCGA-TQ-A7RO 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-TQ-A7RP     TCGA-TQ-A7RQ     TCGA-TQ-A7RR     TCGA-TQ-A7RS 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-TQ-A7RU     TCGA-TQ-A7RV     TCGA-TQ-A7RW     TCGA-TQ-A8XE 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-VM-A8C8     TCGA-VM-A8CA     TCGA-VM-A8CD     TCGA-VM-A8CE 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
    TCGA-VM-A8CF     TCGA-VM-A8CH     TCGA-WY-A858     TCGA-WY-A859 
"NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" "NKD2 WILD-TYPE" 
                vv
clus             ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  NKD2 MUTATED             3                0                 1
  NKD2 WILD-TYPE         189              130               189
D82V6, multiclass
                   clus
vv                  NKD2 MUTATED NKD2 WILD-TYPE
  ASTROCYTOMA                  3            189
  OLIGOASTROCYTOMA             0            130
  OLIGODENDROGLIOMA            1            189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NKD2 MUTATED                                  0     0
  NKD2 WILD-TYPE                                1     8
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  NKD2 MUTATED                           0     4
  NKD2 WILD-TYPE                        21   468
D82V7, multiclass
                                  clus
vv                                 NKD2 MUTATED NKD2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0              8
  BLACK OR AFRICAN AMERICAN                   0             21
  WHITE                                       4            468
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D82V8, binary
                cls
clus               0   1
  NKD2 MUTATED     0   3
  NKD2 WILD-TYPE  32 443
[1] "tbl2"
                cls
clus             [,1] [,2]
  NKD2 MUTATED      0    3
  NKD2 WILD-TYPE   32  443
                        clus
vv                       NKD2 MUTATED NKD2 WILD-TYPE
  HISPANIC OR LATINO                0             32
  NOT HISPANIC OR LATINO            3            443
[1] 2 2
[1] FALSE

Clustering(83) Variable = MAX MUTATION ANALYSIS
D83V1, survival
               sevent
clus2             0   1
  MAX MUTATED     3   1
  MAX WILD-TYPE 387 118
  MAX MUTATED MAX WILD-TYPE 
            4           505 
  MAX MUTATED MAX WILD-TYPE 
            1           118 
$`MAX MUTATED`
TCGA-DH-5144 TCGA-HT-7480 TCGA-HT-7607 TCGA-QH-A6X5 
        8.02        75.19         3.16        16.34 

$`MAX WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       23.84        17.95        12.43        46.95         7.56        49.94 
TCGA-CS-6669 TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.12         6.61       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE 
       46.42        18.84        30.21        46.72        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        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-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-A669 TCGA-DH-A66B 
       19.96        31.82        63.88        46.06        30.21        42.05 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
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-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 
       10.36         7.96        94.32        18.94        44.02        62.01 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R 
       20.98        22.29        11.41        26.76        17.16        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YN TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       21.30        23.90        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 
       18.44        15.35        17.88        40.08        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 
       20.09        28.34        13.68        14.24        16.01        20.09 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ 
       18.71        23.70        14.76        17.82        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       20.45        18.64         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7481 
       17.42         6.54        24.26         6.38        40.34        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
      122.47         4.57        17.29        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 
        0.23        29.59        34.19        13.74        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A619 TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
       16.83        21.40         6.38        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        13.45 
TCGA-HW-7489 TCGA-HW-7490 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        45.60        68.32        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54         6.18        10.55        12.76        20.81        20.71 
TCGA-IK-7675 TCGA-IK-8125 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       19.00        42.77        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         4.11         5.88         7.63 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        0.76         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23         2.20         9.17        10.29        14.53 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50         5.03        11.08        12.99 
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-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        28.14        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        43.04        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        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 

  MAX MUTATED MAX WILD-TYPE 
         3.16          0.03 
  MAX MUTATED MAX WILD-TYPE 
        75.19        211.17 
  MAX MUTATED MAX WILD-TYPE 
        12.18         20.81 
[1] "3.2 - 75.2 (12.2)"  "0.0 - 211.2 (20.8)"
[1] "hr=" "1.3"
D83V2, continuous
D83V3, binary
               cls
clus              0   1
  MAX MUTATED     3   1
  MAX WILD-TYPE 226 282
[1] "tbl2"
               cls
clus            [,1] [,2]
  MAX MUTATED      3    1
  MAX WILD-TYPE  226  282
        clus
vv       MAX MUTATED MAX WILD-TYPE
  FEMALE           3           226
  MALE             1           282
[1] 2 2
[1] FALSE
D83V4, binary
               cls
clus              0   1
  MAX MUTATED     2   1
  MAX WILD-TYPE 184 290
[1] "tbl2"
               cls
clus            [,1] [,2]
  MAX MUTATED      2    1
  MAX WILD-TYPE  184  290
     clus
vv    MAX MUTATED MAX WILD-TYPE
  NO            2           184
  YES           1           290
[1] 2 2
[1] FALSE
D83V5, continuous
               vv
clus            ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  MAX MUTATED             1                1                 2
  MAX WILD-TYPE         191              129               188
D83V6, multiclass
                   clus
vv                  MAX MUTATED MAX WILD-TYPE
  ASTROCYTOMA                 1           191
  OLIGOASTROCYTOMA            1           129
  OLIGODENDROGLIOMA           2           188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  MAX MUTATED                                  0     0
  MAX WILD-TYPE                                1     8
               vv
clus            BLACK OR AFRICAN AMERICAN WHITE
  MAX MUTATED                           0     4
  MAX WILD-TYPE                        21   468
D83V7, multiclass
                                  clus
vv                                 MAX MUTATED MAX WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE           0             1
  ASIAN                                      0             8
  BLACK OR AFRICAN AMERICAN                  0            21
  WHITE                                      4           468
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D83V8, binary
               cls
clus              0   1
  MAX MUTATED     0   4
  MAX WILD-TYPE  32 442
[1] "tbl2"
               cls
clus            [,1] [,2]
  MAX MUTATED      0    4
  MAX WILD-TYPE   32  442
                        clus
vv                       MAX MUTATED MAX WILD-TYPE
  HISPANIC OR LATINO               0            32
  NOT HISPANIC OR LATINO           4           442
[1] 2 2
[1] FALSE

Clustering(84) Variable = VSIG4 MUTATION ANALYSIS
D84V1, survival
                 sevent
clus2               0   1
  VSIG4 MUTATED     5   1
  VSIG4 WILD-TYPE 385 118
  VSIG4 MUTATED VSIG4 WILD-TYPE 
              6             503 
  VSIG4 MUTATED VSIG4 WILD-TYPE 
              1             118 
$`VSIG4 MUTATED`
TCGA-CS-6668 TCGA-DB-A4XF TCGA-DB-A75K TCGA-FG-8182 TCGA-HT-8018 TCGA-P5-A72X 
       49.94        33.57        12.10        13.68        37.87        13.25 

$`VSIG4 WILD-TYPE`
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-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.10        21.01         9.96         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6665 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6669 
       23.84        17.95        12.43        46.95         7.56        49.12 
TCGA-CS-6670 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
        6.61       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XC TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XG 
       18.84        30.21        46.72        39.78        37.45        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75L 
       27.45        27.81        29.23        14.40        18.51        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5141 TCGA-DH-5142 
       17.88        30.74        16.18        19.96        31.82        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66B TCGA-DH-A66D TCGA-DH-A66F 
       46.06         8.02        30.21        42.05        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7300 TCGA-DU-7301 TCGA-DU-7302 
       94.32        18.94        44.02        62.01        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76O TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       11.41        26.76        17.16        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ 
       84.33        51.52        37.38         7.50        44.42         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YN 
        3.65        19.46        12.43        16.18        21.30        23.90 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7637 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       17.88        40.08        22.55        20.61        20.09        28.34 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8187 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       14.24        16.01        20.09        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60K TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       17.82        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A713 TCGA-FG-A87N TCGA-FG-A87Q 
       10.78        36.66        48.69        20.45        18.64         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
       63.55         0.10        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8558 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       34.19        13.74        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A619 
        2.70        16.93         1.81        16.14        16.83        21.40 
TCGA-HT-A61A TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
        6.38        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7490 
       11.05         0.10        56.58        13.45        41.49        45.60 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54         6.18 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-IK-8125 
       10.55        12.76        20.81        20.71        19.00        42.77 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         4.11         5.88         7.63         0.76         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
        0.23        10.42        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23         2.20 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50         5.03        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-R8-A73M TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       32.65        59.38        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        28.14        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        43.04        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       43.40        45.80        46.88        37.71        20.81 

  VSIG4 MUTATED VSIG4 WILD-TYPE 
          12.10            0.03 
  VSIG4 MUTATED VSIG4 WILD-TYPE 
          49.94          211.17 
  VSIG4 MUTATED VSIG4 WILD-TYPE 
         23.625          20.710 
[1] "12.1 - 49.9 (23.6)" "0.0 - 211.2 (20.7)"
[1] "hr=" "1.1"
D84V2, continuous
D84V3, binary
                 cls
clus                0   1
  VSIG4 MUTATED     4   2
  VSIG4 WILD-TYPE 225 281
[1] "tbl2"
                 cls
clus              [,1] [,2]
  VSIG4 MUTATED      4    2
  VSIG4 WILD-TYPE  225  281
        clus
vv       VSIG4 MUTATED VSIG4 WILD-TYPE
  FEMALE             4             225
  MALE               2             281
[1] 2 2
[1] FALSE
D84V4, binary
                 cls
clus                0   1
  VSIG4 MUTATED     2   4
  VSIG4 WILD-TYPE 184 287
[1] "tbl2"
                 cls
clus              [,1] [,2]
  VSIG4 MUTATED      2    4
  VSIG4 WILD-TYPE  184  287
     clus
vv    VSIG4 MUTATED VSIG4 WILD-TYPE
  NO              2             184
  YES             4             287
[1] 2 2
[1] FALSE
D84V5, continuous
[1] "Remove cluster labels:" "VSIG4 MUTATED"         
clus
  VSIG4 MUTATED VSIG4 WILD-TYPE 
              1             305 
     TCGA-CS-4938      TCGA-CS-4941      TCGA-CS-4942      TCGA-CS-4943 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-CS-4944      TCGA-CS-5390      TCGA-CS-5393      TCGA-CS-5395 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-CS-5396      TCGA-CS-5397      TCGA-CS-6186      TCGA-CS-6188 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-CS-6290      TCGA-CS-6665      TCGA-CS-6666      TCGA-CS-6667 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-CS-6669      TCGA-DB-5274      TCGA-DB-A4XE      TCGA-DB-A64L 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DB-A64Q      TCGA-DB-A64R      TCGA-DB-A64S      TCGA-DB-A64U 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DB-A64V      TCGA-DB-A64W      TCGA-DB-A64X      TCGA-DB-A75L 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DB-A75O      TCGA-DH-5140      TCGA-DH-5142      TCGA-DH-5143 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DH-5144      TCGA-DH-A66B      TCGA-DH-A66D      TCGA-DH-A66F 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DH-A66G      TCGA-DH-A7UR      TCGA-DH-A7UU      TCGA-DH-A7UV 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-5851      TCGA-DU-5852      TCGA-DU-5853      TCGA-DU-5854 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-5855      TCGA-DU-5870      TCGA-DU-5871      TCGA-DU-5874 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-6396      TCGA-DU-6401      TCGA-DU-6403      TCGA-DU-6404 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-6405      TCGA-DU-6407      TCGA-DU-6408      TCGA-DU-6410 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-7009      TCGA-DU-7011      TCGA-DU-7013      TCGA-DU-7015 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-7018      TCGA-DU-7019      TCGA-DU-7294      TCGA-DU-7298 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-7299      TCGA-DU-7300      TCGA-DU-7301      TCGA-DU-7302 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-7304      TCGA-DU-7306      TCGA-DU-7309      TCGA-DU-8158 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-8161      TCGA-DU-8162      TCGA-DU-8163      TCGA-DU-8165 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-8167      TCGA-DU-8168      TCGA-DU-A5TP      TCGA-DU-A5TR 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-A5TS      TCGA-DU-A5TU      TCGA-DU-A5TW      TCGA-DU-A6S2 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-A6S6      TCGA-DU-A6S7      TCGA-DU-A6S8      TCGA-DU-A76R 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-A7T6      TCGA-DU-A7T8      TCGA-DU-A7TA      TCGA-DU-A7TB 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-DU-A7TC      TCGA-DU-A7TD      TCGA-DU-A7TG      TCGA-E1-5302 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-E1-5303      TCGA-E1-5304      TCGA-E1-5305      TCGA-E1-5307 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-E1-5311      TCGA-E1-5318      TCGA-E1-5319      TCGA-E1-5322 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-E1-A7YE      TCGA-E1-A7YH      TCGA-E1-A7YI      TCGA-E1-A7YJ 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-E1-A7YK      TCGA-E1-A7YL      TCGA-E1-A7YM      TCGA-E1-A7YN 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-E1-A7YO      TCGA-E1-A7YQ      TCGA-E1-A7YS      TCGA-E1-A7YV 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-E1-A7YW      TCGA-E1-A7YY      TCGA-E1-A7Z2      TCGA-E1-A7Z4 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-E1-A7Z6      TCGA-FG-5963      TCGA-FG-5965      TCGA-FG-6688 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-FG-6689      TCGA-FG-6690      TCGA-FG-6691      TCGA-FG-7636 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-FG-7638      TCGA-FG-8181      TCGA-FG-8185      TCGA-FG-8186 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-FG-8187      TCGA-FG-8188      TCGA-FG-8189      TCGA-FG-A4MT 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-FG-A4MW      TCGA-FG-A4MX      TCGA-FG-A60J      TCGA-FG-A60L 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-FG-A6J1      TCGA-FG-A6J3      TCGA-FG-A711      TCGA-FG-A713 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-FG-A87Q      TCGA-HT-7468      TCGA-HT-7470      TCGA-HT-7475 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-HT-7477      TCGA-HT-7481      TCGA-HT-7482      TCGA-HT-7485 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-HT-7607      TCGA-HT-7609      TCGA-HT-7611      TCGA-HT-7686 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-HT-7689      TCGA-HT-7692      TCGA-HT-7693      TCGA-HT-7694 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-HT-7854      TCGA-HT-7855      TCGA-HT-7856      TCGA-HT-7858 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-HT-7875      TCGA-HT-7884      TCGA-HT-8013      TCGA-HT-8105 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-HT-8113      TCGA-HT-8564      TCGA-HT-A4DV      TCGA-HT-A5R7 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-HT-A5RA      TCGA-HT-A5RC      TCGA-HT-A615      TCGA-HT-A617 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-HT-A618      TCGA-HT-A61A      TCGA-HT-A61B      TCGA-HT-A61C 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-HT-A74L      TCGA-IK-7675      TCGA-KT-A74X      TCGA-KT-A7W1 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-P5-A5EU      TCGA-P5-A5EV      TCGA-P5-A5EW      TCGA-P5-A5EX 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-P5-A5F0      TCGA-P5-A5F2      TCGA-P5-A5F4      TCGA-P5-A5F6 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-P5-A731      TCGA-QH-A65R      TCGA-QH-A65S      TCGA-QH-A65V 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-QH-A65X      TCGA-QH-A65Z      TCGA-QH-A6CS      TCGA-QH-A6CU 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-QH-A6CV      TCGA-QH-A6CW      TCGA-QH-A6CX      TCGA-QH-A6CY 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-QH-A6CZ      TCGA-QH-A6X3      TCGA-QH-A6X4      TCGA-QH-A6X5 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-QH-A6X8      TCGA-QH-A6X9      TCGA-QH-A6XA      TCGA-QH-A6XC 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-QH-A86X      TCGA-QH-A870      TCGA-RY-A83Y      TCGA-RY-A840 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-RY-A845      TCGA-RY-A847      TCGA-S9-A6TS      TCGA-S9-A6TU 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A6TV      TCGA-S9-A6TW      TCGA-S9-A6TX      TCGA-S9-A6TY 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A6TZ      TCGA-S9-A6U0      TCGA-S9-A6U1      TCGA-S9-A6U2 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A6U5      TCGA-S9-A6U6      TCGA-S9-A6U8      TCGA-S9-A6UA 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A6UB      TCGA-S9-A6WD      TCGA-S9-A6WE      TCGA-S9-A6WG 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A6WH      TCGA-S9-A6WI      TCGA-S9-A6WL      TCGA-S9-A6WM 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A6WN      TCGA-S9-A6WO      TCGA-S9-A6WP      TCGA-S9-A6WQ 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A7IQ      TCGA-S9-A7IS      TCGA-S9-A7IX      TCGA-S9-A7IY 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A7IZ      TCGA-S9-A7J0      TCGA-S9-A7J1      TCGA-S9-A7J2 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A7J3      TCGA-S9-A7QW      TCGA-S9-A7QX      TCGA-S9-A7QY 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A7QZ      TCGA-S9-A7R1      TCGA-S9-A7R2      TCGA-S9-A7R3 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A7R4      TCGA-S9-A7R7      TCGA-S9-A7R8      TCGA-S9-A89V 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-S9-A89Z      TCGA-TM-A7C3      TCGA-TM-A7C4      TCGA-TM-A7C5 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-TM-A7CA      TCGA-TM-A7CF      TCGA-TM-A84B      TCGA-TM-A84C 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-TM-A84F      TCGA-TM-A84G      TCGA-TM-A84H      TCGA-TM-A84I 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-TM-A84J      TCGA-TM-A84L      TCGA-TM-A84M      TCGA-TM-A84O 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-TM-A84Q      TCGA-TM-A84R      TCGA-TM-A84S      TCGA-TM-A84T 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-TQ-A7RG      TCGA-TQ-A7RK      TCGA-TQ-A7RM      TCGA-TQ-A7RN 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-TQ-A7RO      TCGA-TQ-A7RP      TCGA-TQ-A7RQ      TCGA-TQ-A7RR 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-TQ-A7RS      TCGA-TQ-A7RU      TCGA-TQ-A7RV      TCGA-TQ-A7RW 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-TQ-A8XE      TCGA-VM-A8C8      TCGA-VM-A8CA      TCGA-VM-A8CD 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-VM-A8CE      TCGA-VM-A8CF      TCGA-VM-A8CH      TCGA-WY-A858 
"VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" "VSIG4 WILD-TYPE" 
     TCGA-WY-A859 
"VSIG4 WILD-TYPE" 
                 vv
clus              ASTROCYTOMA OLIGOASTROCYTOMA OLIGODENDROGLIOMA
  VSIG4 MUTATED             2                2                 2
  VSIG4 WILD-TYPE         190              128               188
D84V6, multiclass
                   clus
vv                  VSIG4 MUTATED VSIG4 WILD-TYPE
  ASTROCYTOMA                   2             190
  OLIGOASTROCYTOMA              2             128
  OLIGODENDROGLIOMA             2             188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  VSIG4 MUTATED                                  0     0
  VSIG4 WILD-TYPE                                1     8
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  VSIG4 MUTATED                           0     6
  VSIG4 WILD-TYPE                        21   466
D84V7, multiclass
                                  clus
vv                                 VSIG4 MUTATED VSIG4 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0               8
  BLACK OR AFRICAN AMERICAN                    0              21
  WHITE                                        6             466
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D84V8, binary
                 cls
clus                0   1
  VSIG4 MUTATED     0   6
  VSIG4 WILD-TYPE  32 440
[1] "tbl2"
                 cls
clus              [,1] [,2]
  VSIG4 MUTATED      0    6
  VSIG4 WILD-TYPE   32  440
                        clus
vv                       VSIG4 MUTATED VSIG4 WILD-TYPE
  HISPANIC OR LATINO                 0              32
  NOT HISPANIC OR LATINO             6             440
[1] 2 2
[1] FALSE
