fold.h File Reference

MFE calculations for single RNA sequences. More...

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Functions
float	fold_par (const char *sequence, char *structure, vrna_param_t *parameters, int is_constrained, int is_circular)
	Compute minimum free energy and an appropriate secondary structure of an RNA sequence. More...
float	fold (const char *sequence, char *structure)
	Compute minimum free energy and an appropriate secondary structure of an RNA sequence. More...
float	circfold (const char *sequence, char *structure)
	Compute minimum free energy and an appropriate secondary structure of a circular RNA sequence. More...
void	free_arrays (void)
	Free arrays for mfe folding. More...
void	update_fold_params (void)
	Recalculate energy parameters. More...
void	update_fold_params_par (vrna_param_t *parameters)
	Recalculate energy parameters. More...
void	export_fold_arrays (int **f5_p, int **c_p, int **fML_p, int **fM1_p, int **indx_p, char **ptype_p)
void	export_fold_arrays_par (int **f5_p, int **c_p, int **fML_p, int **fM1_p, int **indx_p, char **ptype_p, vrna_param_t **P_p)
void	export_circfold_arrays (int *Fc_p, int *FcH_p, int *FcI_p, int *FcM_p, int **fM2_p, int **f5_p, int **c_p, int **fML_p, int **fM1_p, int **indx_p, char **ptype_p)
void	export_circfold_arrays_par (int *Fc_p, int *FcH_p, int *FcI_p, int *FcM_p, int **fM2_p, int **f5_p, int **c_p, int **fML_p, int **fM1_p, int **indx_p, char **ptype_p, vrna_param_t **P_p)
int	LoopEnergy (int n1, int n2, int type, int type_2, int si1, int sj1, int sp1, int sq1)
int	HairpinE (int size, int type, int si1, int sj1, const char *string)
void	initialize_fold (int length)

Detailed Description

MFE calculations for single RNA sequences.