[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==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==continuous 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==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"
                          Clinical feature           
DAYS_TO_DEATH_OR_LAST_FUP "DAYS_TO_DEATH_OR_LAST_FUP"
AGE                       "AGE"                      
AGE_mutation.rate         "AGE_mutation rate"        
PATHOLOGY_T_STAGE         "PATHOLOGY_T_STAGE"        
PATHOLOGY_N_STAGE         "PATHOLOGY_N_STAGE"        
HISTOLOGICAL_TYPE         "HISTOLOGICAL_TYPE"        
COMPLETENESS_OF_RESECTION "COMPLETENESS_OF_RESECTION"
NUMBER_OF_LYMPH_NODES     "NUMBER_OF_LYMPH_NODES"    
GLEASON_SCORE_COMBINED    "GLEASON_SCORE_COMBINED"   
GLEASON_SCORE_PRIMARY     "GLEASON_SCORE_PRIMARY"    
GLEASON_SCORE_SECONDARY   "GLEASON_SCORE_SECONDARY"  
GLEASON_SCORE             "GLEASON_SCORE"            
PSA_RESULT_PREOP          "PSA_RESULT_PREOP"         
PSA_VALUE                 "PSA_VALUE"                
RACE                      "RACE"                     
                          Statistical test             Significant variables
DAYS_TO_DEATH_OR_LAST_FUP "Cox regression test"        "N=0"                
AGE                       "Spearman correlation test"  "N=2"                
AGE_mutation.rate         "Linear Regression Analysis" "N=0"                
PATHOLOGY_T_STAGE         "Spearman correlation test"  "N=2"                
PATHOLOGY_N_STAGE         "Wilcoxon test"              "N=0"                
HISTOLOGICAL_TYPE         "Wilcoxon test"              "N=0"                
COMPLETENESS_OF_RESECTION "Kruskal-Wallis test"        "N=0"                
NUMBER_OF_LYMPH_NODES     "Spearman correlation test"  "N=0"                
GLEASON_SCORE_COMBINED    "Spearman correlation test"  "N=2"                
GLEASON_SCORE_PRIMARY     "Spearman correlation test"  "N=2"                
GLEASON_SCORE_SECONDARY   "Spearman correlation test"  "N=1"                
GLEASON_SCORE             "Spearman correlation test"  "N=2"                
PSA_RESULT_PREOP          "Spearman correlation test"  "N=2"                
PSA_VALUE                 "Spearman correlation test"  "N=1"                
RACE                      "Kruskal-Wallis test"        "N=0"                
                          Associated with          
DAYS_TO_DEATH_OR_LAST_FUP " "                      
AGE                       "older"                  
AGE_mutation.rate         " "                      
PATHOLOGY_T_STAGE         "higher stage"           
PATHOLOGY_N_STAGE         " "                      
HISTOLOGICAL_TYPE         " "                      
COMPLETENESS_OF_RESECTION " "                      
NUMBER_OF_LYMPH_NODES     " "                      
GLEASON_SCORE_COMBINED    "higher score"           
GLEASON_SCORE_PRIMARY     "higher score"           
GLEASON_SCORE_SECONDARY   "higher score"           
GLEASON_SCORE             "higher score"           
PSA_RESULT_PREOP          "higher psa_result_preop"
PSA_VALUE                 "higher psa_value"       
RACE                      " "                      
                          &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
DAYS_TO_DEATH_OR_LAST_FUP " "                                                                                       
AGE                       "N=2"                                                                                     
AGE_mutation.rate         " "                                                                                       
PATHOLOGY_T_STAGE         "N=2"                                                                                     
PATHOLOGY_N_STAGE         " "                                                                                       
HISTOLOGICAL_TYPE         " "                                                                                       
COMPLETENESS_OF_RESECTION " "                                                                                       
NUMBER_OF_LYMPH_NODES     " "                                                                                       
GLEASON_SCORE_COMBINED    "N=2"                                                                                     
GLEASON_SCORE_PRIMARY     "N=2"                                                                                     
GLEASON_SCORE_SECONDARY   "N=1"                                                                                     
GLEASON_SCORE             "N=2"                                                                                     
PSA_RESULT_PREOP          "N=2"                                                                                     
PSA_VALUE                 "N=1"                                                                                     
RACE                      " "                                                                                       
                          Associated with               
DAYS_TO_DEATH_OR_LAST_FUP " "                      " "  
AGE                       "younger"                "N=0"
AGE_mutation.rate         " "                      " "  
PATHOLOGY_T_STAGE         "lower stage"            "N=0"
PATHOLOGY_N_STAGE         " "                      " "  
HISTOLOGICAL_TYPE         " "                      " "  
COMPLETENESS_OF_RESECTION " "                      " "  
NUMBER_OF_LYMPH_NODES     " "                      " "  
GLEASON_SCORE_COMBINED    "lower score"            "N=0"
GLEASON_SCORE_PRIMARY     "lower score"            "N=0"
GLEASON_SCORE_SECONDARY   "lower score"            "N=0"
GLEASON_SCORE             "lower score"            "N=0"
PSA_RESULT_PREOP          "lower psa_result_preop" "N=0"
PSA_VALUE                 "lower psa_value"        "N=0"
RACE                      " "                      " "  
[1] "vtyp==survival 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==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==continuous 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==continuous in basici table generation"
[1] "vtyp==multiclass in basici table generation"
