Internal Loops

Functions to evaluate the free energy contributions for internal loops. More...

Detailed Description

Functions to evaluate the free energy contributions for internal loops.

Collaboration diagram for Internal Loops:

Files
file	internal.h
	Energy evaluation of interior loops for MFE and partition function calculations.

Basic free energy interface
int	vrna_E_int_loop (vrna_fold_compound_t *fc, int i, int j)
int	vrna_eval_int_loop (vrna_fold_compound_t *fc, int i, int j, int k, int l)
	Evaluate the free energy contribution of an interior loop with delimiting base pairs and . More...
int	vrna_E_ext_int_loop (vrna_fold_compound_t *fc, int i, int j, int *ip, int *iq)
int	vrna_E_stack (vrna_fold_compound_t *fc, int i, int j)

Boltzmann weight (partition function) interface
FLT_OR_DBL	vrna_exp_E_int_loop (vrna_fold_compound_t *fc, int i, int j)
FLT_OR_DBL	vrna_exp_E_interior_loop (vrna_fold_compound_t *fc, int i, int j, int k, int l)

Function Documentation

int vrna_eval_int_loop	(	vrna_fold_compound_t *	vc,
		int	i,
		int	j,
		int	k,
		int	l
	)

#include <ViennaRNA/loops/internal.h>

Evaluate the free energy contribution of an interior loop with delimiting base pairs and .

Note

This function is polymorphic, i.e. it accepts vrna_fold_compound_t of type VRNA_FC_TYPE_SINGLE as well as VRNA_FC_TYPE_COMPARATIVE

SWIG Wrapper Notes:

This function is attached as method eval_int_loop() to objects of type fold_compound