RNAlib-2.2.7
mfe.h
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1 #ifndef VIENNA_RNA_PACKAGE_MFE_H
2 #define VIENNA_RNA_PACKAGE_MFE_H
3 
4 #include <stdio.h>
6 
61 float
63  char *structure);
64 
77  char *structure);
78 
106 float vrna_mfe_window( vrna_fold_compound_t *vc, FILE *file);
107 
108 #ifdef USE_SVM
109 
136 float vrna_mfe_window_zscore(vrna_fold_compound_t *vc, double min_z, FILE *file);
137 #endif
138 
139 void
140 vrna_backtrack_from_intervals(vrna_fold_compound_t *vc,
141  vrna_bp_stack_t *bp_stack,
142  sect bt_stack[],
143  int s);
144 
145 
146 #endif
The most basic data structure required by many functions throughout the RNAlib.
Definition: data_structures.h:390
Stack of partial structures for backtracking.
Definition: data_structures.h:183
float vrna_mfe_window(vrna_fold_compound_t *vc, FILE *file)
Local MFE prediction using a sliding window approach.
float vrna_mfe_dimer(vrna_fold_compound_t *vc, char *structure)
Compute the minimum free energy of two interacting RNA molecules.
Base pair stack element.
Definition: data_structures.h:192
float vrna_mfe(vrna_fold_compound_t *vc, char *structure)
Compute minimum free energy and an appropriate secondary structure of an RNA sequence, or RNA sequence alignment.
float vrna_mfe_window_zscore(vrna_fold_compound_t *vc, double min_z, FILE *file)
Local MFE prediction using a sliding window approach (with z-score cut-off)