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 1 72 #define VRNA_DECOMP_PAIR_IL 2 87 #define VRNA_DECOMP_PAIR_ML 3 102 #define VRNA_DECOMP_ML_ML_ML 5 117 #define VRNA_DECOMP_ML_STEM 4 132 #define VRNA_DECOMP_ML_ML 6 148 #define VRNA_DECOMP_ML_UP 11 164 #define VRNA_DECOMP_ML_ML_STEM 20 180 #define VRNA_DECOMP_ML_COAXIAL 13 196 #define VRNA_DECOMP_ML_COAXIAL_ENC 22 212 #define VRNA_DECOMP_EXT_EXT 9 228 #define VRNA_DECOMP_EXT_UP 8 243 #define VRNA_DECOMP_EXT_STEM 14 258 #define VRNA_DECOMP_EXT_EXT_EXT 15 274 #define VRNA_DECOMP_EXT_STEM_EXT 16 282 #define VRNA_DECOMP_EXT_STEM_OUTSIDE 17 298 #define VRNA_DECOMP_EXT_EXT_STEM 18 315 #define VRNA_DECOMP_EXT_EXT_STEM1 19 318 #define VRNA_DECOMP_EXT_L 20 321 #define VRNA_DECOMP_EXT_EXT_L 21 367 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:454
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...