1 #ifndef VIENNA_RNA_PACKAGE_CONSTRAINTS_SHAPE_H 2 #define VIENNA_RNA_PACKAGE_CONSTRAINTS_SHAPE_H 15 const char *shape_file,
16 const char *shape_method,
17 const char *shape_conversion,
19 unsigned int constraint_type);
22 const char *shape_method,
23 const char **shape_files,
24 const int *shape_file_association,
26 unsigned int constraint_type);
53 const double *reactivities,
56 unsigned int options);
71 const char **shape_files,
72 const int *shape_file_association,
75 unsigned int options);
100 const double *reactivities,
102 double default_value,
103 const char *shape_conversion,
104 unsigned int options);
140 double default_value);
int vrna_sc_SHAPE_parse_method(const char *method_string, char *method, float *param_1, float *param_2)
Parse a character string and extract the encoded SHAPE reactivity conversion method and possibly the ...
The most basic data structure required by many functions throughout the RNAlib.
Definition: data_structures.h:454
int vrna_sc_SHAPE_to_pr(const char *shape_conversion, double *values, int length, double default_value)
Convert SHAPE reactivity values to probabilities for being unpaired.
Various data structures and pre-processor macros.
int vrna_sc_add_SHAPE_zarringhalam(vrna_fold_compound_t *vc, const double *reactivities, double b, double default_value, const char *shape_conversion, unsigned int options)
Add SHAPE reactivity data as soft constraints (Zarringhalam et al. method)
int vrna_sc_add_SHAPE_deigan(vrna_fold_compound_t *vc, const double *reactivities, double m, double b, unsigned int options)
Add SHAPE reactivity data as soft constraints (Deigan et al. method)
int vrna_sc_add_SHAPE_deigan_ali(vrna_fold_compound_t *vc, const char **shape_files, const int *shape_file_association, double m, double b, unsigned int options)
Add SHAPE reactivity data from files as soft constraints for consensus structure prediction (Deigan e...