cgatools::cgdata::EvidenceReader Class Reference

List of all members.

Classes
struct	DnbRecord
struct	DnbsFile
struct	IntervalRecord
struct	IntervalsFile
Public Member Functions
	EvidenceReader (const reference::CrrFile &crr, const GenomeMetadata &exp)
void	seek (const reference::Range &r)
void	seekToChr (uint16_t chr)
	moves the cursor to the first interval of the given chromosome sets inInterval() into false if the cursor moves behind the end of the chromosome
void	nextInChr ()
	moves the cursor to the next interval in the current chromosome sets inInterval() into false if the cursor moves behind the end of the chromosome
bool	inInterval () const
const IntervalRecord &	getInterval () const
const std::vector< DnbRecord > &	getDnbs ()
uint32_t	getScore () const
	Returns the score of the interval at the current position or zero if the last seek didn't find an overlapping interval.
uint32_t	countSupportingDnbs (uint16_t alleleIndex, int32_t scoreThreshold)
	Returns the number of DNBs supporting the given allele of the top hypothesis, such that the ScoreAllele[alleleIndex]-ScoreAllele[alternate] > scoreThreshold.

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Member Function Documentation

uint32_t cgatools::cgdata::EvidenceReader::countSupportingDnbs	(	uint16_t	alleleIndex,
		int32_t	scoreThreshold
	)

Returns the number of DNBs supporting the given allele of the top hypothesis, such that the ScoreAllele[alleleIndex]-ScoreAllele[alternate] > scoreThreshold.

uint32_t cgatools::cgdata::EvidenceReader::getScore

(

)

const [inline]

Returns the score of the interval at the current position or zero if the last seek didn't find an overlapping interval.

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

• EvidenceReader.hpp