cgatools::mapping::GapEst::SequenceRetriever Class Reference

Retrieves sequence at a given offset from the end of the clone. More...

#include <GapsEstimator.hpp>

Inheritance diagram for cgatools::mapping::GapEst::SequenceRetriever:

List of all members.

Public Types
typedef boost::array< char, WOBBLE_SEQUENCE_BASE_COUNT >	Sequence
Public Member Functions
virtual void	getSequence (Sequence &seq, int cloneEndOffset, int sequenceLength) const =0
	Store in seq the sequence starting at cloneEndOffset from the end of the clone, working towards the mate gap sequenceLength bases.
Static Public Attributes
static const size_t	WOBBLE_SEQUENCE_BASE_COUNT = 10

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Detailed Description

Retrieves sequence at a given offset from the end of the clone.

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Member Function Documentation

virtual void cgatools::mapping::GapEst::SequenceRetriever::getSequence	(	Sequence &	seq,
		int	cloneEndOffset,
		int	sequenceLength
	)			const [pure virtual]

Store in seq the sequence starting at cloneEndOffset from the end of the clone, working towards the mate gap sequenceLength bases.

Implemented in cgatools::mapping::GapEst::NoCallSequenceRetriever, and cgatools::mapping::GapEst::TemplateSequenceRetriever< TSequence >.

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

• GapsEstimator.hpp