| Files | |
| file | branch_cutting.cpp | 
| file | branch_cutting.h [code] | 
| file | cafe.h [code] | 
| file | cafe_commands.cpp | 
| file | cafe_commands.h [code] | 
| file | cafe_family.c | 
| file | cafe_main.c | 
| file | cafe_report.c | 
| file | cafe_shell.c | 
| Functions corresponding to the commands available in Cafe. | |
| file | cafe_shell.h [code] | 
| file | cafe_tree.c | 
| file | caferror.py | 
| file | conditional_distribution.cpp | 
| file | conditional_distribution.h [code] | 
| file | cross_validator.cpp | 
| file | cross_validator.h [code] | 
| file | error_model.cpp | 
| file | error_model.h [code] | 
| file | gene_family.cpp | 
| file | gene_family.h [code] | 
| file | Globals.cpp | 
| file | Globals.h [code] | 
| file | lambda.cpp | 
| file | lambda.h [code] | 
| file | lambdamu.cpp | 
| file | lambdamu.h [code] | 
| file | likelihood_ratio.cpp | 
| file | likelihood_ratio.h [code] | 
| file | log_buffer.cpp | 
| file | log_buffer.h [code] | 
| file | pvalue.cpp | 
| file | pvalue.h [code] | 
| file | reports.cpp | 
| file | reports.h [code] | 
| file | simerror.cpp | 
| file | simerror.h [code] | 
| file | viterbi.cpp | 
| file | viterbi.h [code] |