[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==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"
[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"           
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"                                  
ETHNICITY                              "ETHNICITY"                             
                                       Statistical test            
DAYS_TO_DEATH_OR_LAST_FUP              "Cox regression test"       
AGE                                    "Spearman correlation test" 
AGE_mutation.rate                      "Linear Regression Analysis"
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"       
ETHNICITY                              "Wilcoxon test"             
                                       Significant variables
DAYS_TO_DEATH_OR_LAST_FUP              "N=0"                
AGE                                    "N=2"                
AGE_mutation.rate                      "N=2"                
NEOPLASM_DISEASESTAGE                  "N=0"                
PATHOLOGY_T_STAGE                      "N=0"                
PATHOLOGY_N_STAGE                      "N=0"                
PATHOLOGY_M_STAGE                      "N=0"                
GENDER                                 "N=1"                
KARNOFSKY_PERFORMANCE_SCORE            "N=0"                
HISTOLOGICAL_TYPE                      "N=2"                
RADIATIONS_RADIATION_REGIMENINDICATION "N=0"                
NUMBER_PACK_YEARS_SMOKED               "N=2"                
YEAR_OF_TOBACCO_SMOKING_ONSET          "N=0"                
COMPLETENESS_OF_RESECTION              "N=0"                
RACE                                   "N=1"                
ETHNICITY                              "N=0"                
                                       Associated with                  
DAYS_TO_DEATH_OR_LAST_FUP              " "                              
AGE                                    "older"                          
AGE_mutation.rate                      " "                              
NEOPLASM_DISEASESTAGE                  " "                              
PATHOLOGY_T_STAGE                      " "                              
PATHOLOGY_N_STAGE                      " "                              
PATHOLOGY_M_STAGE                      " "                              
GENDER                                 "male"                           
KARNOFSKY_PERFORMANCE_SCORE            " "                              
HISTOLOGICAL_TYPE                      " "                              
RADIATIONS_RADIATION_REGIMENINDICATION " "                              
NUMBER_PACK_YEARS_SMOKED               "higher number_pack_years_smoked"
YEAR_OF_TOBACCO_SMOKING_ONSET          " "                              
COMPLETENESS_OF_RESECTION              " "                              
RACE                                   " "                              
ETHNICITY                              " "                              
                                       &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
DAYS_TO_DEATH_OR_LAST_FUP              " "                                                                                       
AGE                                    "N=0"                                                                                     
AGE_mutation.rate                      " "                                                                                       
NEOPLASM_DISEASESTAGE                  " "                                                                                       
PATHOLOGY_T_STAGE                      " "                                                                                       
PATHOLOGY_N_STAGE                      " "                                                                                       
PATHOLOGY_M_STAGE                      " "                                                                                       
GENDER                                 "N=1"                                                                                     
KARNOFSKY_PERFORMANCE_SCORE            " "                                                                                       
HISTOLOGICAL_TYPE                      " "                                                                                       
RADIATIONS_RADIATION_REGIMENINDICATION " "                                                                                       
NUMBER_PACK_YEARS_SMOKED               "N=2"                                                                                     
YEAR_OF_TOBACCO_SMOKING_ONSET          " "                                                                                       
COMPLETENESS_OF_RESECTION              " "                                                                                       
RACE                                   " "                                                                                       
ETHNICITY                              " "                                                                                       
                                       Associated with                       
DAYS_TO_DEATH_OR_LAST_FUP              " "                              " "  
AGE                                    "younger"                        "N=2"
AGE_mutation.rate                      " "                              " "  
NEOPLASM_DISEASESTAGE                  " "                              " "  
PATHOLOGY_T_STAGE                      " "                              " "  
PATHOLOGY_N_STAGE                      " "                              " "  
PATHOLOGY_M_STAGE                      " "                              " "  
GENDER                                 "female"                         "N=0"
KARNOFSKY_PERFORMANCE_SCORE            " "                              " "  
HISTOLOGICAL_TYPE                      " "                              " "  
RADIATIONS_RADIATION_REGIMENINDICATION " "                              " "  
NUMBER_PACK_YEARS_SMOKED               "lower number_pack_years_smoked" "N=0"
YEAR_OF_TOBACCO_SMOKING_ONSET          " "                              " "  
COMPLETENESS_OF_RESECTION              " "                              " "  
RACE                                   " "                              " "  
ETHNICITY                              " "                              " "  
[1] "vtyp==survival 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==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"
[1] "vtyp==binary in basici table generation"
