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RNAlib-2.4.17
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Functions to evaluate the free energy of particular types of loops. More...
Functions to evaluate the free energy of particular types of loops.
To assess the free energy contribution of a particular loop within a secondary structure, two variants are provided:
bare free energy Boltzmann weight The latter is usually required for partition function computations.
Collaboration diagram for Energy Evaluation for Individual Loops:Modules | |
| Exterior Loops | |
| Functions to evaluate the free energy contributions for exterior loops. | |
| Hairpin Loops | |
| Functions to evaluate the free energy contributions for hairpin loops. | |
| Internal Loops | |
| Functions to evaluate the free energy contributions for internal loops. | |
| Multibranch Loops | |
| Functions to evaluate the free energy contributions for mutlibranch loops. | |
Files | |
| file | all.h |
| Energy evaluation for MFE and partition function calculations. | |
| file | external.h |
| Energy evaluation of exterior loops for MFE and partition function calculations. | |
| file | hairpin.h |
| Energy evaluation of hairpin loops for MFE and partition function calculations. | |
| file | internal.h |
| Energy evaluation of interior loops for MFE and partition function calculations. | |
| file | multibranch.h |
| Energy evaluation of multibranch loops for MFE and partition function calculations. | |
Functions | |
| int | vrna_eval_loop_pt (vrna_fold_compound_t *vc, int i, const short *pt) |
| Calculate energy of a loop. More... | |
| int | vrna_eval_loop_pt_v (vrna_fold_compound_t *vc, int i, const short *pt, int verbosity_level) |
| Calculate energy of a loop. More... | |
| int vrna_eval_loop_pt | ( | vrna_fold_compound_t * | vc, |
| int | i, | ||
| const short * | pt | ||
| ) |
#include <ViennaRNA/eval.h>
Calculate energy of a loop.
| vc | A vrna_fold_compound_t containing the energy parameters and model details |
| i | position of covering base pair |
| pt | the pair table of the secondary structure |
| int vrna_eval_loop_pt_v | ( | vrna_fold_compound_t * | vc, |
| int | i, | ||
| const short * | pt, | ||
| int | verbosity_level | ||
| ) |
#include <ViennaRNA/eval.h>
Calculate energy of a loop.
| vc | A vrna_fold_compound_t containing the energy parameters and model details |
| i | position of covering base pair |
| pt | the pair table of the secondary structure |
| verbosity_level | The level of verbosity of this function |