org.biojava.nbio.core.sequence.location.template

Interface AccesionedLocation

All Superinterfaces:

Accessioned, Iterable<Location>, Location

public interface AccesionedLocation
extends Location, Accessioned

A location which is bound to an AccessionID. This is common in INSDC locations where a location actually points to a remote sequence. This is especially common in records describing Genomic sequence assembly.

Author:

ayates

Nested Class Summary

Nested classes/interfaces inherited from interface org.biojava.nbio.core.sequence.location.template.Location

Location.Tools

Field Summary

Fields inherited from interface org.biojava.nbio.core.sequence.location.template.Location

EMPTY

Method Summary

Methods

Modifier and Type	Method and Description
ProxySequenceReader<? extends Compound>	getProxySequenceReader() Return the proxy reader used to get sequence for this location.

Methods inherited from interface org.biojava.nbio.core.sequence.location.template.Location

getEnd, getLength, getRelevantSubLocations, getRelevantSubSequence, getStart, getStrand, getSubLocations, getSubSequence, isBetweenCompounds, isCircular, isComplex

Methods inherited from interface java.lang.Iterable

iterator

Methods inherited from interface org.biojava.nbio.core.sequence.template.Accessioned

getAccession

Method Detail

getProxySequenceReader

ProxySequenceReader<? extends Compound> getProxySequenceReader()

Return the proxy reader used to get sequence for this location. We assume that AccessionID is bound to the instance to facilitate this lookup.