[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==binary 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==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==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"                       
HISTOLOGICAL_TYPE             "HISTOLOGICAL_TYPE"            
NUMBER_PACK_YEARS_SMOKED      "NUMBER_PACK_YEARS_SMOKED"     
YEAR_OF_TOBACCO_SMOKING_ONSET "YEAR_OF_TOBACCO_SMOKING_ONSET"
COMPLETENESS_OF_RESECTION     "COMPLETENESS_OF_RESECTION"    
NUMBER_OF_LYMPH_NODES         "NUMBER_OF_LYMPH_NODES"        
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             "Wilcoxon test"             
PATHOLOGY_M_STAGE             "Wilcoxon test"             
GENDER                        "Wilcoxon test"             
HISTOLOGICAL_TYPE             "Kruskal-Wallis test"       
NUMBER_PACK_YEARS_SMOKED      "Spearman correlation test" 
YEAR_OF_TOBACCO_SMOKING_ONSET "Spearman correlation test" 
COMPLETENESS_OF_RESECTION     "Kruskal-Wallis test"       
NUMBER_OF_LYMPH_NODES         "Spearman correlation test" 
RACE                          "Kruskal-Wallis test"       
ETHNICITY                     "Wilcoxon test"             
                              Significant variables Associated with
DAYS_TO_DEATH_OR_LAST_FUP     "N=0"                 " "            
AGE                           "N=0"                 " "            
AGE_mutation.rate             "N=0"                 " "            
NEOPLASM_DISEASESTAGE         "N=1"                 " "            
PATHOLOGY_T_STAGE             "N=1"                 "higher stage" 
PATHOLOGY_N_STAGE             "N=0"                 " "            
PATHOLOGY_M_STAGE             "N=0"                 " "            
GENDER                        "N=0"                 " "            
HISTOLOGICAL_TYPE             "N=0"                 " "            
NUMBER_PACK_YEARS_SMOKED      "N=0"                 " "            
YEAR_OF_TOBACCO_SMOKING_ONSET "N=0"                 " "            
COMPLETENESS_OF_RESECTION     "N=0"                 " "            
NUMBER_OF_LYMPH_NODES         "N=0"                 " "            
RACE                          "N=0"                 " "            
ETHNICITY                     "N=0"                 " "            
                              &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
DAYS_TO_DEATH_OR_LAST_FUP     " "                                                                                       
AGE                           " "                                                                                       
AGE_mutation.rate             " "                                                                                       
NEOPLASM_DISEASESTAGE         " "                                                                                       
PATHOLOGY_T_STAGE             "N=1"                                                                                     
PATHOLOGY_N_STAGE             " "                                                                                       
PATHOLOGY_M_STAGE             " "                                                                                       
GENDER                        " "                                                                                       
HISTOLOGICAL_TYPE             " "                                                                                       
NUMBER_PACK_YEARS_SMOKED      " "                                                                                       
YEAR_OF_TOBACCO_SMOKING_ONSET " "                                                                                       
COMPLETENESS_OF_RESECTION     " "                                                                                       
NUMBER_OF_LYMPH_NODES         " "                                                                                       
RACE                          " "                                                                                       
ETHNICITY                     " "                                                                                       
                              Associated with      
DAYS_TO_DEATH_OR_LAST_FUP     " "             " "  
AGE                           " "             " "  
AGE_mutation.rate             " "             " "  
NEOPLASM_DISEASESTAGE         " "             " "  
PATHOLOGY_T_STAGE             "lower stage"   "N=0"
PATHOLOGY_N_STAGE             " "             " "  
PATHOLOGY_M_STAGE             " "             " "  
GENDER                        " "             " "  
HISTOLOGICAL_TYPE             " "             " "  
NUMBER_PACK_YEARS_SMOKED      " "             " "  
YEAR_OF_TOBACCO_SMOKING_ONSET " "             " "  
COMPLETENESS_OF_RESECTION     " "             " "  
NUMBER_OF_LYMPH_NODES         " "             " "  
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==binary 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==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==multiclass in basici table generation"
[1] "vtyp==binary in basici table generation"
