public class IndelAlignment extends AbstractAlignment
IdGroup.Utils
idGroup, numSeqs, numSites
Constructor and Description |
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IndelAlignment(Alignment a,
boolean anchored)
Basic constructor.
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Modifier and Type | Method and Description |
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char |
getData(int seq,
int site)
sequence alignment at (sequence, site)
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getAlignedSequenceString, getChar, getDataType, getIdCount, getIdentifier, getLength, getSequenceCount, getSiteCount, getState, getStates, guessDataType, isGap, isUnknownState, report, setDataType, setIdentifier, toString, whichIdNumber
public IndelAlignment(Alignment a, boolean anchored)
anchored
- sets to score anchored indels as same positionpublic char getData(int seq, int site)
getData
in interface Alignment
getData
in class AbstractAlignment