info.bioinfweb.libralign.pherogram.model

Class PherogramAlignmentRelation

java.lang.Object

info.bioinfweb.libralign.model.utils.indextranslation.IndexRelation

info.bioinfweb.libralign.pherogram.model.PherogramAlignmentRelation

public class PherogramAlignmentRelation
extends IndexRelation

A bean class storing the base call sequence position corresponding to editable sequence position or the other way around in an alignment between the base call sequence from Sanger sequencing and the corresponding editable sequence in an AlignmentArea.

Author:

Ben Stöver

Field Summary

Fields inherited from class info.bioinfweb.libralign.model.utils.indextranslation.IndexRelation

GAP, OUT_OF_RANGE

Constructor Summary

Constructors

Constructor and Description
PherogramAlignmentRelation(int before, int corresponding, int after, java.util.ListIterator<ShiftChange> iterator)

Method Summary

Modifier and Type	Method and Description
java.util.ListIterator<ShiftChange>	getIterator() Returns an iterator positioned before the next shift change entry.

Methods inherited from class info.bioinfweb.libralign.model.utils.indextranslation.IndexRelation

getAfter, getAfterValidIndex, getBefore, getBeforeValidIndex, getCorresponding, indexToString, toString

Methods inherited from class java.lang.Object

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

Constructor Detail

PherogramAlignmentRelation

public PherogramAlignmentRelation(int before,
                                  int corresponding,
                                  int after,
                                  java.util.ListIterator<ShiftChange> iterator)

Method Detail

getIterator

public java.util.ListIterator<ShiftChange> getIterator()

Returns an iterator positioned before the next shift change entry.