Methods to compute the neighbors of an RNA secondary structure. More...

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Macros
#define	VRNA_NEIGHBOR_CHANGE 1
	State indicator for a neighbor that has been changed. More...

#define	VRNA_NEIGHBOR_INVALID 2
	State indicator for a neighbor that has been invalidated. More...

#define	VRNA_NEIGHBOR_NEW 3
	State indicator for a neighbor that has become newly available. More...

Typedefs
typedef void(	vrna_callback_move_update) (vrna_fold_compound_t fc, vrna_move_t neighbor, unsigned int state, void data)
	Prototype of the neighborhood update callback. More...

Functions
void	vrna_loopidx_update (int loopidx, const short pt, int length, const vrna_move_t *m)
	Alters the loopIndices array that was constructed with vrna_loopidx_from_ptable(). More...

vrna_move_t *	vrna_neighbors (vrna_fold_compound_t vc, const short pt, unsigned int options)
	Generate neighbors of a secondary structure. More...

vrna_move_t *	vrna_neighbors_successive (const vrna_fold_compound_t vc, const vrna_move_t curr_move, const short prev_pt, const vrna_move_t prev_neighbors, int size_prev_neighbors, int *size_neighbors, unsigned int options)
	Generate neighbors of a secondary structure (the fast way) More...

int	vrna_move_neighbor_diff_cb (vrna_fold_compound_t fc, short ptable, vrna_move_t move, vrna_callback_move_update cb, void data, unsigned int options)
	Apply a move to a secondary structure and indicate which neighbors have changed consequentially. More...

vrna_move_t *	vrna_move_neighbor_diff (vrna_fold_compound_t fc, short ptable, vrna_move_t move, vrna_move_t **invalid_moves, unsigned int options)
	Apply a move to a secondary structure and indicate which neighbors have changed consequentially. More...

Detailed Description

Methods to compute the neighbors of an RNA secondary structure.

Macros