Reduce

Detailed Description

Modules
	ReduceDetail

Classes
struct	nvbio::bowtie2::cuda::ReduceBestApproxContext
struct	nvbio::bowtie2::cuda::ReduceBestExactContext

Functions
void	nvbio::bowtie2::cuda::score_reduce (const ReduceBestApproxContext context, const BestApproxScoringPipelineState< EditDistanceScoringScheme > &pipeline, const ParamsPOD &params)
void	nvbio::bowtie2::cuda::score_reduce (const ReduceBestApproxContext context, const BestApproxScoringPipelineState< SmithWatermanScoringScheme<> > &pipeline, const ParamsPOD &params)
void	nvbio::bowtie2::cuda::score_reduce_paired (const ReduceBestApproxContext context, const BestApproxScoringPipelineState< EditDistanceScoringScheme > &pipeline, const ParamsPOD &params)
void	nvbio::bowtie2::cuda::score_reduce_paired (const ReduceBestApproxContext context, const BestApproxScoringPipelineState< SmithWatermanScoringScheme<> > &pipeline, const ParamsPOD &params)
template<typename ScoringScheme , typename ReduceContext >
void	nvbio::bowtie2::cuda::score_reduce_t (const ReduceContext context, const BestApproxScoringPipelineState< ScoringScheme > &pipeline, const ParamsPOD params)
template<typename ScoringScheme , typename ReduceContext >
void	nvbio::bowtie2::cuda::score_reduce_paired_t (const ReduceContext context, const BestApproxScoringPipelineState< ScoringScheme > &pipeline, const ParamsPOD params)

Function Documentation

void nvbio::bowtie2::cuda::score_reduce	(	const ReduceBestApproxContext	context,
		const BestApproxScoringPipelineState< EditDistanceScoringScheme > &	pipeline,
		const ParamsPOD &	params
	)

Reduce the scores associated to each read in the scoring queue to find the best 2 alignments.

void nvbio::bowtie2::cuda::score_reduce	(	const ReduceBestApproxContext	context,
		const BestApproxScoringPipelineState< SmithWatermanScoringScheme<> > &	pipeline,
		const ParamsPOD &	params
	)

Reduce the scores associated to each read in the scoring queue to find the best 2 alignments.

void nvbio::bowtie2::cuda::score_reduce_paired	(	const ReduceBestApproxContext	context,
		const BestApproxScoringPipelineState< EditDistanceScoringScheme > &	pipeline,
		const ParamsPOD &	params
	)

Reduce the scores associated to each paired-end read in the scoring queue to find the best 2 alignments.

void nvbio::bowtie2::cuda::score_reduce_paired	(	const ReduceBestApproxContext	context,
		const BestApproxScoringPipelineState< SmithWatermanScoringScheme<> > &	pipeline,
		const ParamsPOD &	params
	)

Reduce the scores associated to each paired-end read in the scoring queue to find the best 2 alignments.

template<typename ScoringScheme , typename ReduceContext >

void nvbio::bowtie2::cuda::score_reduce_paired_t	(	const ReduceContext	context,
		const BestApproxScoringPipelineState< ScoringScheme > &	pipeline,
		const ParamsPOD	params
	)

Reduce the scores associated to each paired-end read in the scoring queue to find the best 2 alignments.

Definition at line 524 of file reduce_inl.h.

template<typename ScoringScheme , typename ReduceContext >

void nvbio::bowtie2::cuda::score_reduce_t	(	const ReduceContext	context,
		const BestApproxScoringPipelineState< ScoringScheme > &	pipeline,
		const ParamsPOD	params
	)

Reduce the scores associated to each read in the scoring queue to find the best 2 alignments.

Definition at line 505 of file reduce_inl.h.