GBScleanR-package	GBScleanR
addScheme	addScheme
addScheme,GbsrGenotypeData-method	addScheme
addScheme,GbsrScheme-method	addScheme
assignScheme	assignScheme
assignScheme,GbsrGenotypeData-method	assignScheme
assignScheme,GbsrScheme-method	assignScheme
boxplotGBSR	boxplotGBSR
closeGDS	closeGDS
closeGDS,GbsrGenotypeData-method	closeGDS
countGenotype	countGenotype
countGenotype,GbsrGenotypeData-method	countGenotype
countRead	countRead
countRead,GbsrGenotypeData-method	countRead
estGeno	estGeno
estGeno,GbsrGenotypeData-method	estGeno
GBScleanR	GBScleanR
gbsrGDS2CSV	gbsrGDS2CSV
gbsrGDS2CSV,GbsrGenotypeData-method	gbsrGDS2CSV
gbsrGDS2VCF	gbsrGDS2VCF
gbsrGDS2VCF,GbsrGenotypeData-method	gbsrGDS2VCF
GbsrGenotypeData	GbsrGenotypeData-class
GbsrGenotypeData-class	GbsrGenotypeData-class
GbsrScheme	GbsrScheme-class
GbsrScheme-class	GbsrScheme-class
gbsrVCF2GDS	gbsrVCF2GDS
getAllele	getAllele
getAllele,GbsrGenotypeData-method	getAllele
getChromosome	getChromosome
getChromosome,GbsrGenotypeData-method	getChromosome
getCountAlleleAlt	getCountAlleleAlt
getCountAlleleAlt,GbsrGenotypeData-method	getCountAlleleAlt
getCountAlleleMissing	getCountAlleleMissing
getCountAlleleMissing,GbsrGenotypeData-method	getCountAlleleMissing
getCountAlleleRef	getCountAlleleRef
getCountAlleleRef,GbsrGenotypeData-method	getCountAlleleRef
getCountGenoAlt	getCountGenoAlt
getCountGenoAlt,GbsrGenotypeData-method	getCountGenoAlt
getCountGenoHet	getCountGenoHet
getCountGenoHet,GbsrGenotypeData-method	getCountGenoHet
getCountGenoMissing	getCountGenoMissing
getCountGenoMissing,GbsrGenotypeData-method	getCountGenoMissing
getCountGenoRef	getCountGenoRef
getCountGenoRef,GbsrGenotypeData-method	getCountGenoRef
getCountRead	getCountRead
getCountRead,GbsrGenotypeData-method	getCountRead
getCountReadAlt	getCountReadAlt
getCountReadAlt,GbsrGenotypeData-method	getCountReadAlt
getCountReadRef	getCountReadRef
getCountReadRef,GbsrGenotypeData-method	getCountReadRef
getFixedBias	getFixedBias
getFixedBias,GbsrGenotypeData-method	getFixedBias
getGenotype	getGenotype
getGenotype,GbsrGenotypeData-method	getGenotype
getHaplotype	getHaplotype
getHaplotype,GbsrGenotypeData-method	getHaplotype
getInfo	getInfo
getInfo,GbsrGenotypeData-method	getInfo
getMAC	getMAC
getMAC,GbsrGenotypeData-method	getMAC
getMAF	getMAF
getMAF,GbsrGenotypeData-method	getMAF
getMarID	getMarID
getMarID,GbsrGenotypeData-method	getMarID
getMeanReadAlt	getMeanReadAlt
getMeanReadAlt,GbsrGenotypeData-method	getMeanReadAlt
getMeanReadRef	getMeanReadRef
getMeanReadRef,GbsrGenotypeData-method	getMeanReadRef
getMedianReadAlt	getMedianReadAlt
getMedianReadAlt,GbsrGenotypeData-method	getMedianReadAlt
getMedianReadRef	getMedianReadRef
getMedianReadRef,GbsrGenotypeData-method	getMedianReadRef
getParents	getParents
getParents,GbsrGenotypeData-method	getParents
getPosition	getPosition
getPosition,GbsrGenotypeData-method	getPosition
getRead	getRead
getRead,GbsrGenotypeData-method	getRead
getReplicates	getReplicates
getReplicates,GbsrGenotypeData-method	getReplicates
getSamID	getSamID
getSamID,GbsrGenotypeData-method	getSamID
getSDReadAlt	getSDReadAlt
getSDReadAlt,GbsrGenotypeData-method	getSDReadAlt
getSDReadRef	getSDReadRef
getSDReadRef,GbsrGenotypeData-method	getSDReadRef
histGBSR	histGBSR
initScheme	initScheme
initScheme,GbsrGenotypeData-method	initScheme
initScheme,GbsrScheme-method	initScheme
isOpenGDS	isOpenGDS
isOpenGDS,GbsrGenotypeData-method	isOpenGDS
loadGDS	loadGDS
makeScheme	makeScheme
makeScheme,GbsrGenotypeData-method	makeScheme
nmar	nmar
nmar,GbsrGenotypeData-method	nmar
nsam	nsam
nsam,GbsrGenotypeData-method	nsam
pairsGBSR	pairsGBSR
plotDosage	plotDosage
plotGBSR	plotGBSR
plotReadRatio	plotReadRatio
reopenGDS	reopenGDS
reopenGDS,GbsrGenotypeData-method	reopenGDS
resetCallFilter	resetCallFilter
resetCallFilter,GbsrGenotypeData-method	resetCallFilter
resetFilter	resetFilter
resetFilter,GbsrGenotypeData-method	resetFilter
resetMarFilter	resetMarFilter
resetMarFilter,GbsrGenotypeData-method	resetMarFilter
resetSamFilter	resetSamFilter
resetSamFilter,GbsrGenotypeData-method	resetSamFilter
setCallFilter	setCallFilter
setCallFilter,GbsrGenotypeData-method	setCallFilter
setFixedBias	setFixedBias
setFixedBias,GbsrGenotypeData-method	setFixedBias
setInfoFilter	setInfoFilter
setInfoFilter,GbsrGenotypeData-method	setInfoFilter
setMarFilter	setMarFilter
setMarFilter,GbsrGenotypeData-method	setMarFilter
setParents	setParents
setParents,GbsrGenotypeData-method	setParents
setReplicates	setReplicates
setReplicates,GbsrGenotypeData-method	setReplicates
setSamFilter	setSamFilter
setSamFilter,GbsrGenotypeData-method	setSamFilter
showScheme	showScheme
showScheme,GbsrGenotypeData-method	showScheme
showScheme,GbsrScheme-method	showScheme
thinMarker	thinMarker
thinMarker,GbsrGenotypeData-method	thinMarker
validMar	validMar
validMar,GbsrGenotypeData-method	validMar
validMar<-	validMar
validMar<-,GbsrGenotypeData-method	validMar
validSam	validSam
validSam,GbsrGenotypeData-method	validSam
validSam<-	validSam
validSam<-,GbsrGenotypeData-method	validSam
