Detailed description

Definition at line 59 of file gotoh_inl.h.

#include <gotoh_inl.h>

Public Methods
template<typename column_type , typename scoring_type , typename score_type >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	init (const uint32 j, const uint32 N, column_type &column, const scoring_type &scoring, const score_type zero, const score_type infimum)

template<typename column_type >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	previous_column (const uint32 j, const uint32 N, const column_type column)

template<typename column_type >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	last_column (const uint32 j, const uint32 M, const uint32 N, const column_type column)

template<typename score_type >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	new_cell (const uint32 i, const uint32 N, const uint32 j, const uint32 M, const score_type score, const DirectionVector dir, const DirectionVector edir, const DirectionVector fdir)

Member Function Documentation

template<uint32 BAND_LEN, AlignmentType TYPE, typename algorithm_tag>

template<typename column_type , typename scoring_type , typename score_type >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void nvbio::aln::priv::GotohScoringContext< BAND_LEN, TYPE, algorithm_tag >::init	(	const uint32	j,
		const uint32	N,
		column_type &	column,
		const scoring_type &	scoring,
		const score_type	zero,
		const score_type	infimum
	)

inline

Definition at line 71 of file gotoh_inl.h.

template<uint32 BAND_LEN, AlignmentType TYPE, typename algorithm_tag>

template<typename column_type >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void nvbio::aln::priv::GotohScoringContext< BAND_LEN, TYPE, algorithm_tag >::last_column	(	const uint32	j,
		const uint32	M,
		const uint32	N,
		const column_type	column
	)

inline

Definition at line 110 of file gotoh_inl.h.

template<uint32 BAND_LEN, AlignmentType TYPE, typename algorithm_tag>

template<typename score_type >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void nvbio::aln::priv::GotohScoringContext< BAND_LEN, TYPE, algorithm_tag >::new_cell	(	const uint32	i,
		const uint32	N,
		const uint32	j,
		const uint32	M,
		const score_type	score,
		const DirectionVector	dir,
		const DirectionVector	edir,
		const DirectionVector	fdir
	)

inline

Definition at line 126 of file gotoh_inl.h.

template<uint32 BAND_LEN, AlignmentType TYPE, typename algorithm_tag>

template<typename column_type >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void nvbio::aln::priv::GotohScoringContext< BAND_LEN, TYPE, algorithm_tag >::previous_column	(	const uint32	j,
		const uint32	N,
		const column_type	column
	)

inline

Definition at line 98 of file gotoh_inl.h.

The documentation for this struct was generated from the following file: