boltzmann_sampling.h File Reference
Boltzmann Sampling of secondary structures from the ensemble. More...
Include dependency graph for boltzmann_sampling.h: This graph shows which files directly or indirectly include this file:Go to the source code of this file.
Macros | |
| #define | VRNA_PBACKTRACK_DEFAULT 0 |
| Boltzmann sampling flag indicating default backtracing mode. More... | |
| #define | VRNA_PBACKTRACK_NON_REDUNDANT 1 |
| Boltzmann sampling flag indicating non-redundant backtracing mode. More... | |
Typedefs | |
| typedef void( | vrna_boltzmann_sampling_callback) (const char *stucture, void *data) |
| Callback for Boltzmann sampling. More... | |
| typedef struct vrna_pbacktrack_memory_s * | vrna_pbacktrack_mem_t |
| Boltzmann sampling memory data structure. More... | |
Functions | |
| char * | vrna_pbacktrack5 (vrna_fold_compound_t *fc, unsigned int length) |
| Sample a secondary structure of a subsequence from the Boltzmann ensemble according its probability. More... | |
| char ** | vrna_pbacktrack5_num (vrna_fold_compound_t *fc, unsigned int num_samples, unsigned int length, unsigned int options) |
| Obtain a set of secondary structure samples for a subsequence from the Boltzmann ensemble according their probability. More... | |
| unsigned int | vrna_pbacktrack5_cb (vrna_fold_compound_t *fc, unsigned int num_samples, unsigned int length, vrna_boltzmann_sampling_callback *cb, void *data, unsigned int options) |
| Obtain a set of secondary structure samples for a subsequence from the Boltzmann ensemble according their probability. More... | |
| char ** | vrna_pbacktrack5_resume (vrna_fold_compound_t *vc, unsigned int num_samples, unsigned int length, vrna_pbacktrack_mem_t *nr_mem, unsigned int options) |
| Obtain a set of secondary structure samples for a subsequence from the Boltzmann ensemble according their probability. More... | |
| unsigned int | vrna_pbacktrack5_resume_cb (vrna_fold_compound_t *fc, unsigned int num_samples, unsigned int length, vrna_boltzmann_sampling_callback *cb, void *data, vrna_pbacktrack_mem_t *nr_mem, unsigned int options) |
| Obtain a set of secondary structure samples for a subsequence from the Boltzmann ensemble according their probability. More... | |
| char * | vrna_pbacktrack (vrna_fold_compound_t *fc) |
| Sample a secondary structure from the Boltzmann ensemble according its probability. More... | |
| char ** | vrna_pbacktrack_num (vrna_fold_compound_t *fc, unsigned int num_samples, unsigned int options) |
| Obtain a set of secondary structure samples from the Boltzmann ensemble according their probability. More... | |
| unsigned int | vrna_pbacktrack_cb (vrna_fold_compound_t *fc, unsigned int num_samples, vrna_boltzmann_sampling_callback *cb, void *data, unsigned int options) |
| Obtain a set of secondary structure samples from the Boltzmann ensemble according their probability. More... | |
| char ** | vrna_pbacktrack_resume (vrna_fold_compound_t *fc, unsigned int num_samples, vrna_pbacktrack_mem_t *nr_mem, unsigned int options) |
| Obtain a set of secondary structure samples from the Boltzmann ensemble according their probability. More... | |
| unsigned int | vrna_pbacktrack_resume_cb (vrna_fold_compound_t *fc, unsigned int num_samples, vrna_boltzmann_sampling_callback *cb, void *data, vrna_pbacktrack_mem_t *nr_mem, unsigned int options) |
| Obtain a set of secondary structure samples from the Boltzmann ensemble according their probability. More... | |
| void | vrna_pbacktrack_mem_free (vrna_pbacktrack_mem_t s) |
| Release memory occupied by a Boltzmann sampling memory data structure. More... | |
Detailed Description
Boltzmann Sampling of secondary structures from the ensemble.
A.k.a. Stochastic backtracking
