org.utgenome.gwt.utgb.client.bio
Interface OnGenome

All Superinterfaces:

Serializable

All Known Subinterfaces:

GraphData

All Known Implementing Classes:

BEDEntry, BEDGene, BlastResult, BSSRead, BSSReadView.BSSAlignment, CDS, ChromosomeMap.ReadLocus, CompactWIGData, DASResult.DASFeature, Exon, Gap, Gene, Interval, MethylViewer.MethlEntry, Read, ReadCoverage, ReadList, ReferenceSequence, RepeatChainFinder.FlippedInterval2D, RepeatChainFinder.Interval2D, SAMRead, SAMReadLight, SAMReadPair, SAMReadPairFragment

public interface OnGenome
extends Serializable

A common interface for data mapped onto a genome sequence (e.g., Read, Gene, SAMRead, WigGraphData, etc.)

Author:

leo

Method Summary

void	accept(OnGenomeDataVisitor visitor)
int	getEnd() return 1-based end position of the data.
String	getName()
int	getStart() return 1-based start position of the data.
boolean	isAntiSense()
boolean	isSense()
int	length() return the length of the data

Method Detail

getStart

int getStart()

return 1-based start position of the data. The interval represents [start, end). ([inclusive, exclusive))

Returns:

getEnd

int getEnd()

return 1-based end position of the data. The interval represents [start, end). ([inclusive, exclusive))

Returns:

isSense

boolean isSense()

isAntiSense

boolean isAntiSense()

length

int length()

return the length of the data

Returns:

getName

String getName()

accept

void accept(OnGenomeDataVisitor visitor)