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equilibrium_probs.h
Go to the documentation of this file.
1 #ifndef VIENNA_RNA_PACKAGE_EQUILIBRIUM_PROBS_H
2 #define VIENNA_RNA_PACKAGE_EQUILIBRIUM_PROBS_H
3
4 /* make this interface backward compatible with RNAlib < 2.2.0 */
5 #define VRNA_BACKWARD_COMPAT
6
7 #include <ViennaRNA/data_structures.h>
8
9 #ifdef DEPRECATION_WARNINGS
10 # ifdef __GNUC__
11 # define DEPRECATED(func) func __attribute__ ((deprecated))
12 # else
13 # define DEPRECATED(func) func
14 # endif
15 #else
16 # define DEPRECATED(func) func
17 #endif
18
30 /*
31 #################################################
32 # BASE PAIR PROBABILITY RELATED FUNCTIONS #
33 #################################################
34 */
35
36 void vrna_pairing_probs(vrna_fold_compound_t *vc, char *structure);
37
51 double vrna_mean_bp_distance_pr(int length, FLT_OR_DBL *pr);
52
65 double vrna_mean_bp_distance(vrna_fold_compound_t *vc);
66
79 vrna_plist_t *vrna_stack_prob(vrna_fold_compound_t *vc, double cutoff);
80
81 #endif
vrna_mean_bp_distance
double vrna_mean_bp_distance(vrna_fold_compound_t *vc)
Get the mean base pair distance in the thermodynamic ensemble.
FLT_OR_DBL
double FLT_OR_DBL
Typename for floating point number in partition function computations.
Definition: data_structures.h:39
vrna_fc_s
The most basic data structure required by many functions throughout the RNAlib.
Definition: data_structures.h:424
vrna_stack_prob
vrna_plist_t * vrna_stack_prob(vrna_fold_compound_t *vc, double cutoff)
Compute stacking probabilities.
data_structures.h
vrna_plist_s
this datastructure is used as input parameter in functions of PS_dot.h and others ...
Definition: data_structures.h:164
vrna_mean_bp_distance_pr
double vrna_mean_bp_distance_pr(int length, FLT_OR_DBL *pr)
Get the mean base pair distance in the thermodynamic ensemble from a probability matrix.
pr
FLT_OR_DBL * pr
A pointer to the base pair probability matrix.