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RNAlib-2.2.10
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This module provides function to incorporate SHAPE reactivity data into the folding recursions by means of soft constraints. More...
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Functions | |
| 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) More... | |
| 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 et al. method) More... | |
| 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) More... | |
| 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 parameters for conversion into pseudo free energies. More... | |
| 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. More... | |
This module provides function to incorporate SHAPE reactivity data into the folding recursions by means of soft constraints.
| 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 parameters for conversion into pseudo free energies.
| method_string | The string that contains the encoded SHAPE reactivity conversion method |
| method | A pointer to the memory location where the method character will be stored |
| param_1 | A pointer to the memory location where the first parameter of the corresponding method will be stored |
| param_2 | A pointer to the memory location where the second parameter of the corresponding method will be stored |