1 #ifndef VIENNA_RNA_PACKAGE_CONSTRAINTS_H 2 #define VIENNA_RNA_PACKAGE_CONSTRAINTS_H 27 #define VRNA_CONSTRAINT_FILE 0 35 #define VRNA_CONSTRAINT_SOFT_MFE 0 43 #define VRNA_CONSTRAINT_SOFT_PF VRNA_OPTION_PF 57 #define VRNA_DECOMP_PAIR_HP (unsigned char)1 72 #define VRNA_DECOMP_PAIR_IL (unsigned char)2 87 #define VRNA_DECOMP_PAIR_ML (unsigned char)3 89 #define VRNA_DECOMP_PAIR_ML_OUTSIDE (unsigned char)4 103 #define VRNA_DECOMP_ML_ML_ML (unsigned char)5 118 #define VRNA_DECOMP_ML_STEM (unsigned char)6 133 #define VRNA_DECOMP_ML_ML (unsigned char)7 149 #define VRNA_DECOMP_ML_UP (unsigned char)8 165 #define VRNA_DECOMP_ML_ML_STEM (unsigned char)9 181 #define VRNA_DECOMP_ML_COAXIAL (unsigned char)10 197 #define VRNA_DECOMP_ML_COAXIAL_ENC (unsigned char)11 213 #define VRNA_DECOMP_EXT_EXT (unsigned char)12 229 #define VRNA_DECOMP_EXT_UP (unsigned char)13 244 #define VRNA_DECOMP_EXT_STEM (unsigned char)14 259 #define VRNA_DECOMP_EXT_EXT_EXT (unsigned char)15 275 #define VRNA_DECOMP_EXT_STEM_EXT (unsigned char)16 283 #define VRNA_DECOMP_EXT_STEM_OUTSIDE (unsigned char)17 299 #define VRNA_DECOMP_EXT_EXT_STEM (unsigned char)18 316 #define VRNA_DECOMP_EXT_EXT_STEM1 (unsigned char)19 318 #define VRNA_DECOMP_EXT_STEM_EXT1 (unsigned char)20 320 #define VRNA_DECOMP_EXT_L (unsigned char)21 321 #define VRNA_DECOMP_EXT_EXT_L (unsigned char)22 367 const char *constraint,
368 unsigned int options);
Find a vector of perturbation energies that minimizes the discripancies between predicted and observe...
void vrna_constraints_add(vrna_fold_compound_t *vc, const char *constraint, unsigned int options)
Add constraints to a vrna_fold_compound_t data structure.
The most basic data structure required by many functions throughout the RNAlib.
Definition: data_structures.h:463
Various data structures and pre-processor macros.
This module provides function to incorporate SHAPE reactivity data into the folding recursions by mea...
Functions and data structures for handling of secondary structure hard constraints.
Functions and data structures for secondary structure soft constraints.
Functions for incorporation of ligands binding to hairpin and interior loop motifs using the soft con...