[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:  MUTATION_RATE"
[1] "vtyp==survival in table1 generation"
[1] "vtyp==continuous in table1 table 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==continuous in table1 table generation"
[1] "vtyp==continuous in table1 table generation"
[1] "vtyp==multiclass in table1 generation"
[1] "vtyp==binary in table1 table generation"
                            Clinical feature             
DAYS_TO_DEATH_OR_LAST_FUP   "DAYS_TO_DEATH_OR_LAST_FUP"  
AGE                         "AGE"                        
AGE_mutation.rate           "AGE_mutation rate"          
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"
NUMBER_PACK_YEARS_SMOKED    "NUMBER_PACK_YEARS_SMOKED"   
NUMBER_OF_LYMPH_NODES       "NUMBER_OF_LYMPH_NODES"      
RACE                        "RACE"                       
ETHNICITY                   "ETHNICITY"                  
                            Statistical test             Significant variables
DAYS_TO_DEATH_OR_LAST_FUP   "Cox regression test"        "N=2"                
AGE                         "Spearman correlation test"  "N=0"                
AGE_mutation.rate           "Linear Regression Analysis" "N=0"                
NEOPLASM_DISEASESTAGE       "Kruskal-Wallis test"        "N=0"                
PATHOLOGY_T_STAGE           "Spearman correlation test"  "N=0"                
PATHOLOGY_N_STAGE           "Spearman correlation test"  "N=0"                
PATHOLOGY_M_STAGE           "Wilcoxon test"              "N=0"                
GENDER                      "Wilcoxon test"              "N=2"                
KARNOFSKY_PERFORMANCE_SCORE "Spearman correlation test"  "N=2"                
NUMBER_PACK_YEARS_SMOKED    "Spearman correlation test"  "N=0"                
NUMBER_OF_LYMPH_NODES       "Spearman correlation test"  "N=0"                
RACE                        "Kruskal-Wallis test"        "N=2"                
ETHNICITY                   "Wilcoxon test"              "N=0"                
                            Associated with   
DAYS_TO_DEATH_OR_LAST_FUP   "shorter survival"
AGE                         " "               
AGE_mutation.rate           " "               
NEOPLASM_DISEASESTAGE       " "               
PATHOLOGY_T_STAGE           " "               
PATHOLOGY_N_STAGE           " "               
PATHOLOGY_M_STAGE           " "               
GENDER                      "male"            
KARNOFSKY_PERFORMANCE_SCORE "higher score"    
NUMBER_PACK_YEARS_SMOKED    " "               
NUMBER_OF_LYMPH_NODES       " "               
RACE                        " "               
ETHNICITY                   " "               
                            &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
DAYS_TO_DEATH_OR_LAST_FUP   "N=0"                                                                                     
AGE                         " "                                                                                       
AGE_mutation.rate           " "                                                                                       
NEOPLASM_DISEASESTAGE       " "                                                                                       
PATHOLOGY_T_STAGE           " "                                                                                       
PATHOLOGY_N_STAGE           " "                                                                                       
PATHOLOGY_M_STAGE           " "                                                                                       
GENDER                      "N=2"                                                                                     
KARNOFSKY_PERFORMANCE_SCORE "N=2"                                                                                     
NUMBER_PACK_YEARS_SMOKED    " "                                                                                       
NUMBER_OF_LYMPH_NODES       " "                                                                                       
RACE                        " "                                                                                       
ETHNICITY                   " "                                                                                       
                            Associated with        
DAYS_TO_DEATH_OR_LAST_FUP   "longer survival" "N=2"
AGE                         " "               " "  
AGE_mutation.rate           " "               " "  
NEOPLASM_DISEASESTAGE       " "               " "  
PATHOLOGY_T_STAGE           " "               " "  
PATHOLOGY_N_STAGE           " "               " "  
PATHOLOGY_M_STAGE           " "               " "  
GENDER                      "female"          "N=0"
KARNOFSKY_PERFORMANCE_SCORE "lower score"     "N=0"
NUMBER_PACK_YEARS_SMOKED    " "               " "  
NUMBER_OF_LYMPH_NODES       " "               " "  
RACE                        " "               " "  
ETHNICITY                   " "               " "  
[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] "vtyp==continuous in basici table generation"
[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==continuous 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"
