GBScleanR-package	GBScleanR
addScan	addScan
addScan,GbsrGenotypeData-method	addScan
addScheme	addScheme
addScheme,GbsrGenotypeData-method	addScheme
addScheme,GbsrScheme-method	addScheme
boxplotGBSR	boxplotGBSR
calcReadStats	calcReadStats
calcReadStats,GbsrGenotypeData-method	calcReadStats
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
getAlleleA	getAlleleA
getAlleleA,GbsrGenotypeData-method	getAlleleA
getAlleleB	getAlleleB
getAlleleB,GbsrGenotypeData-method	getAlleleB
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
getFlipped	getFlipped
getFlipped,GbsrGenotypeData-method	getFlipped
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
getMeanReadAlt	getMeanReadAlt
getMeanReadAlt,GbsrGenotypeData-method	getMeanReadAlt
getMeanReadRef	getMeanReadRef
getMeanReadRef,GbsrGenotypeData-method	getMeanReadRef
getParents	getParents
getParents,GbsrGenotypeData-method	getParents
getPloidy	getPloidy
getPloidy,GbsrGenotypeData-method	getPloidy
getPosition	getPosition
getPosition,GbsrGenotypeData-method	getPosition
getQtileReadAlt	getQtileReadAlt
getQtileReadAlt,GbsrGenotypeData-method	getQtileReadAlt
getQtileReadRef	getQtileReadRef
getQtileReadRef,GbsrGenotypeData-method	getQtileReadRef
getRead	getRead
getRead,GbsrGenotypeData-method	getRead
getScanID	getScanID
getScanID,GbsrGenotypeData-method	getScanID
getSDReadAlt	getSDReadAlt
getSDReadAlt,GbsrGenotypeData-method	getSDReadAlt
getSDReadRef	getSDReadRef
getSDReadRef,GbsrGenotypeData-method	getSDReadRef
getSnpID	getSnpID
getSnpID,GbsrGenotypeData-method	getSnpID
getValidScan	getValidScan
getValidScan,GbsrGenotypeData-method	getValidScan
getValidSnp	getValidSnp
getValidSnp,GbsrGenotypeData-method	getValidSnp
hasFlipped	hasFlipped
hasFlipped,GbsrGenotypeData-method	hasFlipped
histGBSR	histGBSR
initScheme	initScheme
initScheme,GbsrGenotypeData-method	initScheme
initScheme,GbsrScheme-method	initScheme
isOpenGDS	isOpenGDS
isOpenGDS,GbsrGenotypeData-method	isOpenGDS
loadGDS	loadGDS
loadScanAnnot	loadScanAnnot
loadScanAnnot,GbsrGenotypeData-method	loadScanAnnot
loadSnpAnnot	loadSnpAnnot
loadSnpAnnot,GbsrGenotypeData-method	loadSnpAnnot
nscan	nscan
nscan,GbsrGenotypeData-method	nscan
nsnp	nsnp
nsnp,GbsrGenotypeData-method	nsnp
openGDS	openGDS
openGDS,GbsrGenotypeData-method	openGDS
pairsGBSR	pairsGBSR
plotDosage	plotDosage
plotGBSR	plotGBSR
plotReadRatio	plotReadRatio
resetFilters	resetFilters
resetFilters,GbsrGenotypeData-method	resetFilters
resetScanFilters	resetScanFilters
resetScanFilters,GbsrGenotypeData-method	resetScanFilters
resetSnpFilters	resetSnpFilters
resetSnpFilters,GbsrGenotypeData-method	resetSnpFilters
saveScanAnnot	saveScanAnnot
saveScanAnnot,GbsrGenotypeData-method	saveScanAnnot
saveSnpAnnot	saveSnpAnnot
saveSnpAnnot,GbsrGenotypeData-method	saveSnpAnnot
setCallFilter	setCallFilter
setCallFilter,GbsrGenotypeData-method	setCallFilter
setFiltGenotype	setFiltGenotype
setFiltGenotype,GbsrGenotypeData-method	setFiltGenotype
setInfoFilter	setInfoFilter
setInfoFilter,GbsrGenotypeData-method	setInfoFilter
setParents	setParents
setParents,GbsrGenotypeData-method	setParents
setRawGenotype	setRawGenotype
setRawGenotype,GbsrGenotypeData-method	setRawGenotype
setScanFilter	setScanFilter
setScanFilter,GbsrGenotypeData-method	setScanFilter
setSnpFilter	setSnpFilter
setSnpFilter,GbsrGenotypeData-method	setSnpFilter
setValidScan	setValidScan
setValidScan,GbsrGenotypeData-method	setValidScan
setValidSnp	setValidSnp
setValidSnp,GbsrGenotypeData-method	setValidSnp
showScheme	showScheme
showScheme,GbsrGenotypeData-method	showScheme
showScheme,GbsrScheme-method	showScheme
subsetGDS	subsetGDS
subsetGDS,GbsrGenotypeData-method	subsetGDS
thinMarker	thinMarker
thinMarker,GbsrGenotypeData-method	thinMarker
