CAFE
Computational Analysis of gene Family Evolution
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likelihood_ratio.h
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1 #ifndef LIKELIHOOD_RATIO_H_7F6D20CB_1791_422E_B34B_54DF43D11DA5
2 #define LIKELIHOOD_RATIO_H_7F6D20CB_1791_422E_B34B_54DF43D11DA5
3 
4 #include <vector>
5 
6 extern "C" {
7 #include <family.h>
8 }
9 void cafe_lhr_for_diff_lambdas(pCafeParam param, pTree lambda_tree2, int num_lambdas, OPTIMIZER_INIT_TYPE lfunc);
10 void update_branchlength(pCafeTree pcafe, pTree lambda_tree, double bl_augment, int *old_branchlength, int* t);
11 
12 void likelihood_ratio_report(pCafeFamily pfamily,
13  pCafeTree pcafe,
14  const std::vector<double> &pvalues,
15  const std::vector<int> &plambda,
16  const std::vector<double*> &lambda_cache,
17  FILE *fout);
18 
19 
20 
21 #endif
cafe_lhr_for_diff_lambdas
void cafe_lhr_for_diff_lambdas(pCafeParam param, pTree lambda_tree2, int num_lambdas, OPTIMIZER_INIT_TYPE lfunc)
Definition: likelihood_ratio.cpp:158
update_branchlength
void update_branchlength(pCafeTree pcafe, pTree lambda_tree, double bl_augment, int *old_branchlength, int *t)
Definition: likelihood_ratio.cpp:52
bl_augment
const double bl_augment
Definition: likelihood_ratio.cpp:12
likelihood_ratio_report
void likelihood_ratio_report(pCafeFamily pfamily, pCafeTree pcafe, const std::vector< double > &pvalues, const std::vector< int > &plambda, const std::vector< double * > &lambda_cache, FILE *fout)
Definition: likelihood_ratio.cpp:31
tagCafeParam
Singleton structure that holds all of the global data that Cafe acts on.
Definition: family.h:115
tagTree
Definition: tree.h:11
CafeFamily
Structure representing a matrix of values of family sizes.
Definition: family.h:88
CafeTree
Definition: family.h:17
OPTIMIZER_INIT_TYPE
OPTIMIZER_INIT_TYPE
Definition: family.h:107