Energy evaluation of hairpin loops for MFE and partition function calculations. More...
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Functions | |
| int | vrna_BT_hp_loop (vrna_fold_compound_t *fc, int i, int j, int en, vrna_bp_stack_t *bp_stack, int *stack_count) |
Backtrack a hairpin loop closed by  . More... | |
Basic free energy interface | |
| int | vrna_E_hp_loop (vrna_fold_compound_t *fc, int i, int j) |
| Evaluate the free energy of a hairpin loop and consider hard constraints if they apply. More... | |
| int | vrna_E_ext_hp_loop (vrna_fold_compound_t *fc, int i, int j) |
| Evaluate the free energy of an exterior hairpin loop and consider possible hard constraints. More... | |
| int | vrna_eval_ext_hp_loop (vrna_fold_compound_t *fc, int i, int j) |
| Evaluate free energy of an exterior hairpin loop. | |
| int | vrna_eval_hp_loop (vrna_fold_compound_t *fc, int i, int j) |
| Evaluate free energy of a hairpin loop. More... | |
| PRIVATE int | E_Hairpin (int size, int type, int si1, int sj1, const char *string, vrna_param_t *P) |
| Compute the Energy of a hairpin-loop. More... | |
Boltzmann weight (partition function) interface | |
| PRIVATE FLT_OR_DBL | exp_E_Hairpin (int u, int type, short si1, short sj1, const char *string, vrna_exp_param_t *P) |
Compute Boltzmann weight  of a hairpin loop. More... | |
| FLT_OR_DBL | vrna_exp_E_hp_loop (vrna_fold_compound_t *fc, int i, int j) |
| High-Level function for hairpin loop energy evaluation (partition function variant) More... | |
Detailed Description
Energy evaluation of hairpin loops for MFE and partition function calculations.
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