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RNAlib-2.5.0
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Heuristics for two-step pseudoknot forming interaction predictions. More...
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Data Structures | |
| struct | vrna_pk_plex_result_s |
| A result of the RNA PKplex interaction prediction. More... | |
Typedefs | |
| typedef int() | vrna_callback_pk_plex_score(const short *pt, int start_5, int end_5, int start_3, int end_3, void *data) |
| Pseudoknot loop scoring function prototype. More... | |
| typedef struct vrna_pk_plex_option_s * | vrna_pk_plex_opt_t |
| RNA PKplex options object. More... | |
| typedef struct vrna_pk_plex_result_s | vrna_pk_plex_t |
| Convenience typedef for results of the RNA PKplex prediction. More... | |
Functions | |
| vrna_pk_plex_t * | vrna_pk_plex (vrna_fold_compound_t *fc, const int **accessibility, vrna_pk_plex_opt_t options) |
| Predict Pseudoknot interactions in terms of a two-step folding process. More... | |
| int ** | vrna_pk_plex_accessibility (const char *sequence, unsigned int unpaired, double cutoff) |
| Obtain a list of opening energies suitable for PKplex computations. More... | |
| vrna_pk_plex_opt_t | vrna_pk_plex_opt_defaults (void) |
| Default options for PKplex algorithm. More... | |
| vrna_pk_plex_opt_t | vrna_pk_plex_opt (unsigned int delta, unsigned int max_interaction_length, int pk_penalty) |
| Simple options for PKplex algorithm. More... | |
| vrna_pk_plex_opt_t | vrna_pk_plex_opt_fun (unsigned int delta, unsigned int max_interaction_length, vrna_callback_pk_plex_score *scoring_function, void *scoring_data) |
| Simple options for PKplex algorithm. More... | |
Heuristics for two-step pseudoknot forming interaction predictions.