org.biojava.nbio.core.sequence.location.SequenceLocation<S,C>

All Implemented Interfaces:: Serializable, Iterable<Location>, Location, Accessioned

public class SequenceLocation<S extends AbstractSequence<C>,C extends Compound> extends SimpleLocation

A location in a sequence that keeps a reference to its parent sequence

Author:

Scooter Willis , Paolo Pavan

See Also:

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
Constructor Summary

Constructors

Constructor

Description

SequenceLocation(int start, int end, S sequence)

SequenceLocation(int start, int end, S sequence, Strand strand)

SequenceLocation(int start, int end, S sequence, Strand strand, boolean circular, List<Location> subLocations)

SequenceLocation(Point start, Point end, S sequence, Strand strand)
Method Summary

Modifier and Type

Method

Description

S

getSequence()

void

setSequence(S sequence)

Methods inherited from class org.biojava.nbio.core.sequence.location.template.AbstractLocation
assertLocation, canComplement, equals, getAccession, getEnd, getLength, getRelevantSubLocations, getRelevantSubSequence, getStart, getStrand, getSubLocations, getSubSequence, hashCode, isBetweenCompounds, isCircular, isComplex, isPartial, isPartialOn3prime, isPartialOn5prime, iterator, reverseSequence, setAccession, setBetweenCompounds, setCircular, setEnd, setPartialOn3prime, setPartialOn5prime, setStart, setStrand, setSubLocations, toString

Methods inherited from class java.lang.Object
clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface java.lang.Iterable
forEach, spliterator

Class SequenceLocation<S extends AbstractSequence<C>,C extends Compound>

Nested Class Summary