1 #ifndef VIENNA_RNA_PACKAGE_CONSTRAINTS_SHAPE_H 2 #define VIENNA_RNA_PACKAGE_CONSTRAINTS_SHAPE_H 25 const char *shape_file,
26 const char *shape_method,
27 const char *shape_conversion,
29 unsigned int constraint_type);
32 const char *shape_method,
33 const char **shape_files,
34 const int *shape_file_association,
36 unsigned int constraint_type);
63 const double *reactivities,
66 unsigned int options);
81 const char **shape_files,
82 const int *shape_file_association,
85 unsigned int options);
110 const double *reactivities,
112 double default_value,
113 const char *shape_conversion,
114 unsigned int options);
150 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: fold_compound.h:131
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...