[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==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==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"                                
HISTOLOGICAL_TYPE                      "HISTOLOGICAL_TYPE"                     
RADIATIONS_RADIATION_REGIMENINDICATION "RADIATIONS_RADIATION_REGIMENINDICATION"
COMPLETENESS_OF_RESECTION              "COMPLETENESS_OF_RESECTION"             
NUMBER_OF_LYMPH_NODES                  "NUMBER_OF_LYMPH_NODES"                 
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"            
HISTOLOGICAL_TYPE                      "Wilcoxon test"            
RADIATIONS_RADIATION_REGIMENINDICATION "Wilcoxon test"            
COMPLETENESS_OF_RESECTION              "Kruskal-Wallis test"      
NUMBER_OF_LYMPH_NODES                  "Spearman correlation test"
RACE                                   "Kruskal-Wallis test"      
                                       Significant genes
DAYS_TO_DEATH_OR_LAST_FUP              "N=1"            
YEARS_TO_BIRTH                         "N=7"            
NEOPLASM_DISEASESTAGE                  "N=30"           
PATHOLOGY_T_STAGE                      "N=29"           
PATHOLOGY_N_STAGE                      "N=30"           
PATHOLOGY_M_STAGE                      "N=6"            
GENDER                                 "N=0"            
HISTOLOGICAL_TYPE                      "N=30"           
RADIATIONS_RADIATION_REGIMENINDICATION "N=0"            
COMPLETENESS_OF_RESECTION              "N=30"           
NUMBER_OF_LYMPH_NODES                  "N=30"           
RACE                                   "N=0"            
                                       Associated with                
DAYS_TO_DEATH_OR_LAST_FUP              "shorter survival"             
YEARS_TO_BIRTH                         "older"                        
NEOPLASM_DISEASESTAGE                  " "                            
PATHOLOGY_T_STAGE                      "higher stage"                 
PATHOLOGY_N_STAGE                      "higher stage"                 
PATHOLOGY_M_STAGE                      "class1"                       
GENDER                                 " "                            
HISTOLOGICAL_TYPE                      "colon mucinous adenocarcinoma"
RADIATIONS_RADIATION_REGIMENINDICATION " "                            
COMPLETENESS_OF_RESECTION              " "                            
NUMBER_OF_LYMPH_NODES                  "higher number_of_lymph_nodes" 
RACE                                   " "                            
                                       &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
DAYS_TO_DEATH_OR_LAST_FUP              "N=1"                                                                                     
YEARS_TO_BIRTH                         "N=2"                                                                                     
NEOPLASM_DISEASESTAGE                  " "                                                                                       
PATHOLOGY_T_STAGE                      "N=12"                                                                                    
PATHOLOGY_N_STAGE                      "N=17"                                                                                    
PATHOLOGY_M_STAGE                      "N=6"                                                                                     
GENDER                                 " "                                                                                       
HISTOLOGICAL_TYPE                      "N=30"                                                                                    
RADIATIONS_RADIATION_REGIMENINDICATION " "                                                                                       
COMPLETENESS_OF_RESECTION              " "                                                                                       
NUMBER_OF_LYMPH_NODES                  "N=14"                                                                                    
RACE                                   " "                                                                                       
                                       Associated with                     
DAYS_TO_DEATH_OR_LAST_FUP              "longer survival"             "N=0" 
YEARS_TO_BIRTH                         "younger"                     "N=5" 
NEOPLASM_DISEASESTAGE                  " "                           " "   
PATHOLOGY_T_STAGE                      "lower stage"                 "N=17"
PATHOLOGY_N_STAGE                      "lower stage"                 "N=13"
PATHOLOGY_M_STAGE                      "class0"                      "N=0" 
GENDER                                 " "                           " "   
HISTOLOGICAL_TYPE                      "colon adenocarcinoma"        "N=0" 
RADIATIONS_RADIATION_REGIMENINDICATION " "                           " "   
COMPLETENESS_OF_RESECTION              " "                           " "   
NUMBER_OF_LYMPH_NODES                  "lower number_of_lymph_nodes" "N=16"
RACE                                   " "                           " "   
[1] "vtyp==survival in basici table generation"
[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==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==multiclass in basici table generation"
