net.maizegenetics.dna.snp

Class AbstractMaskMatrix

net.maizegenetics.dna.snp.AbstractMaskMatrix

All Implemented Interfaces:

MaskMatrix

Direct Known Subclasses:

MaskGenotypeMatrix, MaskGenotypeStatsMatrix

public class AbstractMaskMatrix
implements MaskMatrix

Field Detail

myNumTaxa

protected int myNumTaxa

myNumSites

protected int myNumSites

Method Detail

siteMask

protected BitSet siteMask(int site)

taxonMask

protected BitSet taxonMask(int taxon)

isMasked

protected boolean isMasked(int taxon,
                           int site)

get

public boolean get(int taxon,
                   int site)

isTaxonMaskedHint

public boolean isTaxonMaskedHint(int taxon)

maskForTaxon

public BitSet maskForTaxon(int taxon)

isSiteMaskedHint

public boolean isSiteMaskedHint(int site)

maskForSite

public BitSet maskForSite(int site)

numTaxa

public int numTaxa()

numSites

public int numSites()

isSiteOptimized

public boolean isSiteOptimized()