RNAlib-2.2.7
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Files | |
file | aln_util.h |
Various utility- and helper-functions for sequence alignments and comparative structure prediction. | |
Data Structures | |
struct | vrna_pinfo_s |
A base pair info structure. More... | |
Typedefs | |
typedef struct vrna_pinfo_s | vrna_pinfo_t |
Typename for the base pair info repesenting data structure vrna_pinfo_s. | |
typedef struct vrna_pinfo_s | pair_info |
Old typename of vrna_pinfo_s. More... | |
Functions | |
vrna_pinfo_t * | vrna_aln_pinfo (vrna_fold_compound_t *vc, const char *structure, double threshold) |
Retrieve an array of vrna_pinfo_t structures from precomputed pair probabilities. More... | |
struct vrna_pinfo_s |
A base pair info structure.
For each base pair (i,j) with i,j in [0, n-1] the structure lists:
Data Fields | |
unsigned | i |
nucleotide position i | |
unsigned | j |
nucleotide position j | |
float | p |
Probability. | |
float | ent |
Pseudo entropy for ![]() | |
short | bp [8] |
Frequencies of pair_types. | |
char | comp |
1 iff pair is in mfe structure | |
typedef struct vrna_pinfo_s pair_info |
vrna_pinfo_t* vrna_aln_pinfo | ( | vrna_fold_compound_t * | vc, |
const char * | structure, | ||
double | threshold | ||
) |
#include <ViennaRNA/aln_util.h>
Retrieve an array of vrna_pinfo_t structures from precomputed pair probabilities.
This array of structures contains information about positionwise pair probabilies, base pair entropy and more
vc | The vrna_fold_compound_t of type VRNA_VC_TYPE_ALIGNMENT with precomputed partition function matrices |
structure | An optional structure in dot-bracket notation (Maybe NULL) |
threshold | Do not include results with pair probabilities below threshold |