core::sequence::NWAligner Class Reference

#include <NWAligner.hh>

Inheritance diagram for core::sequence::NWAligner:

Public Member Functions
	NWAligner ()
	ctor More...
	~NWAligner () override=default
	dtor More...
SequenceAlignment	align (SequenceOP seq_y, SequenceOP seq_x, ScoringSchemeOP ss) override
Public Member Functions inherited from core::sequence::Aligner
	Aligner ()
	ctor More...
	~Aligner () override=default
	dtor More...
void	validate_input (SequenceOP seq_y, SequenceOP seq_x, ScoringSchemeOP ss)
SequenceAlignment	traceback (SequenceOP seq_x, SequenceOP seq_y, DP_Matrix matrix, CellOP start)

Static Public Member Functions
static void	init_matrix (Size y_len, Size x_len, ScoringSchemeOP ss, DP_Matrix &scores)

Constructor & Destructor Documentation

NWAligner()

core::sequence::NWAligner::NWAligner ( )

inline

ctor

~NWAligner()

core::sequence::NWAligner::~NWAligner ( )

overridedefault

dtor

Member Function Documentation

align()

SequenceAlignment core::sequence::NWAligner::align ( SequenceOP  seq_y, SequenceOP  seq_x, ScoringSchemeOP  ss  )

overridevirtual

Implements core::sequence::Aligner.

References core::sequence::above, core::sequence::DP_Matrix::clear(), core::sequence::DP_Matrix::cols(), core::sequence::diagonal, init_matrix(), core::sequence::left, core::sequence::DP_Matrix::rows(), core::sequence::Aligner::traceback(), and core::sequence::Aligner::validate_input().

Referenced by protocols::frag_picker::scores::sequencealign().

init_matrix()

void core::sequence::NWAligner::init_matrix ( Size  y_len, Size  x_len, ScoringSchemeOP  ss, DP_Matrix &  scores  )

static

References core::sequence::end.

Referenced by core::sequence::MCAligner::align(), and align().

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The documentation for this class was generated from the following files:

• src/core/sequence/NWAligner.hh
• src/core/sequence/NWAligner.cc