cgatools::mobileelement::MeiFileVcfRecordWriter Class Reference

Inheritance diagram for cgatools::mobileelement::MeiFileVcfRecordWriter:

List of all members.

Public Member Functions
	MeiFileVcfRecordWriter (const std::vector< std::string > meiFieldNames, const cgatools::reference::CrrFile &crr, int numGenomes)
cgatools::reference::Location	getLocation () const
	Get 0-based location of first base of VCF record.
void	writeRef (std::ostream &out) const
	Write REF field of VCF record.
void	writeAlt (std::ostream &out) const
	Write ALT field of VCF record.
void	writeInfo (std::ostream &out) const
	Write INFO field of VCF record.
void	writeFormat (std::ostream &out) const
	Write FORMAT field of VCF record.
void	writeSample (std::ostream &out, size_t gIdx) const
	Write per-sample field of VCF record, for the given genome.
void	setMeiData (meiData &data, int gIdx)

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Member Function Documentation

cgatools::reference::Location cgatools::mobileelement::MeiFileVcfRecordWriter::getLocation

(

)

const [virtual]

Get 0-based location of first base of VCF record.

The value output to the VCF file is at Location.offset+1.

Implements cgatools::conv::VcfRecordWriter.

void cgatools::mobileelement::MeiFileVcfRecordWriter::writeSample	(	std::ostream &	out,
		size_t	idxGenome
	)			const [virtual]

Write per-sample field of VCF record, for the given genome.

Genomes are numbered starting with 0 for the first genome.

Implements cgatools::conv::VcfRecordWriter.

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

• MeiFileVcfSource.hpp