nvbio::aln::HammingDistanceAligner< T_TYPE, scoring_scheme_type, AlgorithmType > Struct Template Reference

Detailed description

template< AlignmentType T_TYPE, typename scoring_scheme_type, typename AlgorithmType = PatternBlockingTag>
struct nvbio::aln::HammingDistanceAligner< T_TYPE, scoring_scheme_type, AlgorithmType >

An edit distance alignment algorithm, see Aligners

Template Parameters

T_TYPE

specifies whether the alignment is SEMI_GLOBAL/GLOBAL

Definition at line 370 of file alignment_base.h.

#include <alignment_base.h>

Public Types
typedef HammingDistanceTag	aligner_tag
	the Aligner Tag More...
typedef AlgorithmType	algorithm_tag
	the Algorithm Tag More...

Public Methods
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	HammingDistanceAligner (const scoring_scheme_type _scheme)

Public Members
scoring_scheme_type	scheme

Static Public Members
static const AlignmentType	TYPE = T_TYPE
	the AlignmentType More...

Member Typedef Documentation

template<AlignmentType T_TYPE, typename scoring_scheme_type, typename AlgorithmType = PatternBlockingTag>

typedef AlgorithmType nvbio::aln::HammingDistanceAligner< T_TYPE, scoring_scheme_type, AlgorithmType >::algorithm_tag

the Algorithm Tag

Definition at line 375 of file alignment_base.h.

template<AlignmentType T_TYPE, typename scoring_scheme_type, typename AlgorithmType = PatternBlockingTag>

typedef HammingDistanceTag nvbio::aln::HammingDistanceAligner< T_TYPE, scoring_scheme_type, AlgorithmType >::aligner_tag

the Aligner Tag

Definition at line 374 of file alignment_base.h.

Constructor & Destructor Documentation

template<AlignmentType T_TYPE, typename scoring_scheme_type, typename AlgorithmType = PatternBlockingTag>

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::aln::HammingDistanceAligner< T_TYPE, scoring_scheme_type, AlgorithmType >::HammingDistanceAligner ( const scoring_scheme_type  _scheme)

inline

Definition at line 378 of file alignment_base.h.

Member Data Documentation

template<AlignmentType T_TYPE, typename scoring_scheme_type, typename AlgorithmType = PatternBlockingTag>

scoring_scheme_type nvbio::aln::HammingDistanceAligner< T_TYPE, scoring_scheme_type, AlgorithmType >::scheme

Definition at line 380 of file alignment_base.h.

template<AlignmentType T_TYPE, typename scoring_scheme_type, typename AlgorithmType = PatternBlockingTag>

const AlignmentType nvbio::aln::HammingDistanceAligner< T_TYPE, scoring_scheme_type, AlgorithmType >::TYPE = T_TYPE

static

the AlignmentType

Definition at line 372 of file alignment_base.h.

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

• E:/git/nvbio/nvbio/alignment/alignment_base.h