org.utgenome.gwt.utgb.client.bio
Class ReferenceSequence

java.lang.Object
  org.utgenome.gwt.utgb.client.bio.Interval
      org.utgenome.gwt.utgb.client.bio.ReferenceSequence

All Implemented Interfaces:

Serializable, Comparable<Interval>, GenomeRange

public class ReferenceSequence
extends Interval

reference genome sequence to which genome reads are aligned

Author:

leo

See Also:

Serialized Form

Field Summary

String	name
String	sequence

Constructor Summary

ReferenceSequence()

ReferenceSequence(int start, String name, String sequence)

Method Summary

void	accept(GenomeRangeVisitor visitor)
String	getName()

Methods inherited from class org.utgenome.gwt.utgb.client.bio.Interval

adjustToOneOrigin, atomicSetStartAndEnd, compareTo, contains, contains, correctInterval, follows, getColor, getEnd, getStart, hasOverlap, intersect, intersectsWith, isAntiSense, isSense, length, precedes, setEnd, setStart, toJSONArray, toString

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

name

public String name

sequence

public String sequence

Constructor Detail

ReferenceSequence

public ReferenceSequence()

ReferenceSequence

public ReferenceSequence(int start,
                         String name,
                         String sequence)

Method Detail

accept

public void accept(GenomeRangeVisitor visitor)

Specified by:

accept in interface GenomeRange

Overrides:

accept in class Interval

getName

public String getName()

Specified by:

getName in interface GenomeRange

Overrides:

getName in class Interval