[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:  RPPA_EXPR"
[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==continuous in table1 table generation"
[1] "vtyp==multiclass in table1 generation"
[1] "vtyp==binary in table1 table generation"
[1] "vtyp==continuous in table1 table generation"
[1] "vtyp==continuous in table1 table generation"
[1] "vtyp==multiclass in table1 generation"
[1] "vtyp==multiclass in table1 generation"
                                       Clinical feature                        
DAYS_TO_DEATH_OR_LAST_FUP              "DAYS_TO_DEATH_OR_LAST_FUP"             
YEARS_TO_BIRTH                         "YEARS_TO_BIRTH"                        
NEOPLASM_DISEASESTAGE                  "NEOPLASM_DISEASESTAGE"                 
PATHOLOGY_T_STAGE                      "PATHOLOGY_T_STAGE"                     
PATHOLOGY_N_STAGE                      "PATHOLOGY_N_STAGE"                     
PATHOLOGY_M_STAGE                      "PATHOLOGY_M_STAGE"                     
GENDER                                 "GENDER"                                
KARNOFSKY_PERFORMANCE_SCORE            "KARNOFSKY_PERFORMANCE_SCORE"           
HISTOLOGICAL_TYPE                      "HISTOLOGICAL_TYPE"                     
RADIATIONS_RADIATION_REGIMENINDICATION "RADIATIONS_RADIATION_REGIMENINDICATION"
NUMBER_PACK_YEARS_SMOKED               "NUMBER_PACK_YEARS_SMOKED"              
YEAR_OF_TOBACCO_SMOKING_ONSET          "YEAR_OF_TOBACCO_SMOKING_ONSET"         
COMPLETENESS_OF_RESECTION              "COMPLETENESS_OF_RESECTION"             
RACE                                   "RACE"                                  
                                       Statistical test           
DAYS_TO_DEATH_OR_LAST_FUP              "Cox regression test"      
YEARS_TO_BIRTH                         "Spearman correlation test"
NEOPLASM_DISEASESTAGE                  "Kruskal-Wallis test"      
PATHOLOGY_T_STAGE                      "Spearman correlation test"
PATHOLOGY_N_STAGE                      "Spearman correlation test"
PATHOLOGY_M_STAGE                      "Wilcoxon test"            
GENDER                                 "Wilcoxon test"            
KARNOFSKY_PERFORMANCE_SCORE            "Spearman correlation test"
HISTOLOGICAL_TYPE                      "Kruskal-Wallis test"      
RADIATIONS_RADIATION_REGIMENINDICATION "Wilcoxon test"            
NUMBER_PACK_YEARS_SMOKED               "Spearman correlation test"
YEAR_OF_TOBACCO_SMOKING_ONSET          "Spearman correlation test"
COMPLETENESS_OF_RESECTION              "Kruskal-Wallis test"      
RACE                                   "Kruskal-Wallis test"      
                                       Significant genes Associated with   
DAYS_TO_DEATH_OR_LAST_FUP              "N=4"             "shorter survival"
YEARS_TO_BIRTH                         "N=27"            "older"           
NEOPLASM_DISEASESTAGE                  "N=9"             " "               
PATHOLOGY_T_STAGE                      "N=30"            "higher stage"    
PATHOLOGY_N_STAGE                      "N=9"             "higher stage"    
PATHOLOGY_M_STAGE                      "N=0"             " "               
GENDER                                 "N=1"             "male"            
KARNOFSKY_PERFORMANCE_SCORE            "N=3"             "higher score"    
HISTOLOGICAL_TYPE                      "N=5"             " "               
RADIATIONS_RADIATION_REGIMENINDICATION "N=0"             " "               
NUMBER_PACK_YEARS_SMOKED               "N=0"             " "               
YEAR_OF_TOBACCO_SMOKING_ONSET          "N=0"             " "               
COMPLETENESS_OF_RESECTION              "N=0"             " "               
RACE                                   "N=0"             " "               
                                       &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
DAYS_TO_DEATH_OR_LAST_FUP              "N=3"                                                                                     
YEARS_TO_BIRTH                         "N=16"                                                                                    
NEOPLASM_DISEASESTAGE                  " "                                                                                       
PATHOLOGY_T_STAGE                      "N=14"                                                                                    
PATHOLOGY_N_STAGE                      "N=4"                                                                                     
PATHOLOGY_M_STAGE                      " "                                                                                       
GENDER                                 "N=1"                                                                                     
KARNOFSKY_PERFORMANCE_SCORE            "N=3"                                                                                     
HISTOLOGICAL_TYPE                      " "                                                                                       
RADIATIONS_RADIATION_REGIMENINDICATION " "                                                                                       
NUMBER_PACK_YEARS_SMOKED               " "                                                                                       
YEAR_OF_TOBACCO_SMOKING_ONSET          " "                                                                                       
COMPLETENESS_OF_RESECTION              " "                                                                                       
RACE                                   " "                                                                                       
                                       Associated with         
DAYS_TO_DEATH_OR_LAST_FUP              "longer survival" "N=1" 
YEARS_TO_BIRTH                         "younger"         "N=11"
NEOPLASM_DISEASESTAGE                  " "               " "   
PATHOLOGY_T_STAGE                      "lower stage"     "N=16"
PATHOLOGY_N_STAGE                      "lower stage"     "N=5" 
PATHOLOGY_M_STAGE                      " "               " "   
GENDER                                 "female"          "N=0" 
KARNOFSKY_PERFORMANCE_SCORE            "lower score"     "N=0" 
HISTOLOGICAL_TYPE                      " "               " "   
RADIATIONS_RADIATION_REGIMENINDICATION " "               " "   
NUMBER_PACK_YEARS_SMOKED               " "               " "   
YEAR_OF_TOBACCO_SMOKING_ONSET          " "               " "   
COMPLETENESS_OF_RESECTION              " "               " "   
RACE                                   " "               " "   
[1] "vtyp==survival in basici table generation"
[1] "check. how many intervals of data quantile for survival curve?"
[1] 4
[1] "check. how many intervals of data quantile for survival curve?"
[1] 4
[1] "check. how many intervals of data quantile for survival curve?"
[1] 4
[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==continuous in basici table generation"
[1] "vtyp==multiclass in basici table generation"
[1] "vtyp==binary in basici table generation"
[1] "vtyp==continuous in basici table generation"
[1] "vtyp==continuous in basici table generation"
[1] "vtyp==multiclass in basici table generation"
[1] "vtyp==multiclass in basici table generation"
