[1] "R version 2.15.3 (2013-03-01)"
[1] "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "dx" ""  
[1] "dx" " " 
[1] "dx" " " 
[1] "opt:  APOBEC"
[1] "vtyp==survival in table1 generation"
[1] "vtyp==survival in table1 generation"
[1] "vtyp==continuous in table1 table generation"
[1] "vtyp==multiclass in table1 generation"
[1] "vtyp==continuous in table1 table generation"
[1] "vtyp==continuous in table1 table generation"
[1] "vtyp==binary in table1 table generation"
[1] "vtyp==binary in table1 table generation"
[1] "vtyp==binary in table1 table generation"
[1] "vtyp==continuous in table1 table generation"
[1] "vtyp==binary in table1 table generation"
[1] "vtyp==binary in table1 table generation"
[1] "vtyp==multiclass in table1 generation"
[1] "vtyp==binary in table1 table generation"
                                           Clinical feature                            
TIME_FROM_SPECIMEN_DX_TO_DEATH_OR_LAST_FUP "TIME_FROM_SPECIMEN_DX_TO_DEATH_OR_LAST_FUP"
DAYS_TO_DEATH_OR_LAST_FUP                  "DAYS_TO_DEATH_OR_LAST_FUP"                 
YEARS_TO_BIRTH                             "YEARS_TO_BIRTH"                            
PATHOLOGIC_STAGE                           "PATHOLOGIC_STAGE"                          
PATHOLOGY_T_STAGE                          "PATHOLOGY_T_STAGE"                         
PATHOLOGY_N_STAGE                          "PATHOLOGY_N_STAGE"                         
PATHOLOGY_M_STAGE                          "PATHOLOGY_M_STAGE"                         
MELANOMA_ULCERATION                        "MELANOMA_ULCERATION"                       
MELANOMA_PRIMARY_KNOWN                     "MELANOMA_PRIMARY_KNOWN"                    
BRESLOW_THICKNESS                          "BRESLOW_THICKNESS"                         
GENDER                                     "GENDER"                                    
RADIATION_THERAPY                          "RADIATION_THERAPY"                         
RACE                                       "RACE"                                      
ETHNICITY                                  "ETHNICITY"                                 
                                           Statistical test           
TIME_FROM_SPECIMEN_DX_TO_DEATH_OR_LAST_FUP "Cox regression test"      
DAYS_TO_DEATH_OR_LAST_FUP                  "Cox regression test"      
YEARS_TO_BIRTH                             "Spearman correlation test"
PATHOLOGIC_STAGE                           "Kruskal-Wallis test"      
PATHOLOGY_T_STAGE                          "Spearman correlation test"
PATHOLOGY_N_STAGE                          "Spearman correlation test"
PATHOLOGY_M_STAGE                          "Wilcoxon test"            
MELANOMA_ULCERATION                        "Wilcoxon test"            
MELANOMA_PRIMARY_KNOWN                     "Wilcoxon test"            
BRESLOW_THICKNESS                          "Spearman correlation test"
GENDER                                     "Wilcoxon test"            
RADIATION_THERAPY                          "Wilcoxon test"            
RACE                                       "Kruskal-Wallis test"      
ETHNICITY                                  "Wilcoxon test"            
                                           Significant variables
TIME_FROM_SPECIMEN_DX_TO_DEATH_OR_LAST_FUP "N=1"                
DAYS_TO_DEATH_OR_LAST_FUP                  "N=1"                
YEARS_TO_BIRTH                             "N=0"                
PATHOLOGIC_STAGE                           "N=0"                
PATHOLOGY_T_STAGE                          "N=0"                
PATHOLOGY_N_STAGE                          "N=0"                
PATHOLOGY_M_STAGE                          "N=0"                
MELANOMA_ULCERATION                        "N=2"                
MELANOMA_PRIMARY_KNOWN                     "N=0"                
BRESLOW_THICKNESS                          "N=0"                
GENDER                                     "N=2"                
RADIATION_THERAPY                          "N=0"                
RACE                                       "N=3"                
ETHNICITY                                  "N=0"                
                                           Associated with   
TIME_FROM_SPECIMEN_DX_TO_DEATH_OR_LAST_FUP "shorter survival"
DAYS_TO_DEATH_OR_LAST_FUP                  "shorter survival"
YEARS_TO_BIRTH                             " "               
PATHOLOGIC_STAGE                           " "               
PATHOLOGY_T_STAGE                          " "               
PATHOLOGY_N_STAGE                          " "               
PATHOLOGY_M_STAGE                          " "               
MELANOMA_ULCERATION                        "yes"             
MELANOMA_PRIMARY_KNOWN                     " "               
BRESLOW_THICKNESS                          " "               
GENDER                                     "male"            
RADIATION_THERAPY                          " "               
RACE                                       " "               
ETHNICITY                                  " "               
                                           &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
TIME_FROM_SPECIMEN_DX_TO_DEATH_OR_LAST_FUP "N=0"                                                                                     
DAYS_TO_DEATH_OR_LAST_FUP                  "N=0"                                                                                     
YEARS_TO_BIRTH                             " "                                                                                       
PATHOLOGIC_STAGE                           " "                                                                                       
PATHOLOGY_T_STAGE                          " "                                                                                       
PATHOLOGY_N_STAGE                          " "                                                                                       
PATHOLOGY_M_STAGE                          " "                                                                                       
MELANOMA_ULCERATION                        "N=2"                                                                                     
MELANOMA_PRIMARY_KNOWN                     " "                                                                                       
BRESLOW_THICKNESS                          " "                                                                                       
GENDER                                     "N=2"                                                                                     
RADIATION_THERAPY                          " "                                                                                       
RACE                                       " "                                                                                       
ETHNICITY                                  " "                                                                                       
                                           Associated with        
TIME_FROM_SPECIMEN_DX_TO_DEATH_OR_LAST_FUP "longer survival" "N=1"
DAYS_TO_DEATH_OR_LAST_FUP                  "longer survival" "N=1"
YEARS_TO_BIRTH                             " "               " "  
PATHOLOGIC_STAGE                           " "               " "  
PATHOLOGY_T_STAGE                          " "               " "  
PATHOLOGY_N_STAGE                          " "               " "  
PATHOLOGY_M_STAGE                          " "               " "  
MELANOMA_ULCERATION                        "no"              "N=0"
MELANOMA_PRIMARY_KNOWN                     " "               " "  
BRESLOW_THICKNESS                          " "               " "  
GENDER                                     "female"          "N=0"
RADIATION_THERAPY                          " "               " "  
RACE                                       " "               " "  
ETHNICITY                                  " "               " "  
[1] "vtyp==survival in basici table generation"
[1] "check. how many intervals of data quantile for survival curve?"
[1] 4
[1] "vtyp==survival in basici table generation"
[1] "check. how many intervals of data quantile for survival curve?"
[1] 4
[1] "vtyp==continuous in basici table generation"
[1] "vtyp==multiclass in basici table generation"
[1] "vtyp==continuous in basici table generation"
[1] "vtyp==continuous in basici table generation"
[1] "vtyp==binary in basici table generation"
[1] "vtyp==binary in basici table generation"
[1] "vtyp==binary in basici table generation"
[1] "vtyp==continuous in basici table generation"
[1] "vtyp==binary in basici table generation"
[1] "vtyp==binary in basici table generation"
[1] "vtyp==multiclass in basici table generation"
[1] "vtyp==binary in basici table generation"
