asFactorMatrix	asFactorMatrix
attachAssayDataElements	attachAssayDataElements
baf	baf
baf,-method	baf
baf,BAFSet-method	bafset-class
baf-methods	baf
baf.ds	genoset-dataset
baf2mbaf	baf2mbaf
baf<-	baf
baf<-,-method	baf
baf<-,BAFSet,matrix-method	bafset-class
baf<--methods	baf
BAFSet	BAFSet
BAFSet-class	bafset-class
bafset-class	bafset-class
BAFSet.to.ExpressionSets	BAFSet.to.ExpressionSets
boundingIndices	boundingIndices
boundingIndices2	boundingIndices2
chr	chr-methods
chr,-method	chr-methods
chr,GenoSet-method	genoset-class
chr,RangedData-method	genoset-class
chr-methods	chr-methods
chrIndices	chrIndices-methods
chrIndices,-method	chrIndices-methods
chrIndices,RangedDataOrGenoSet-method	genoset-class
chrIndices-methods	chrIndices-methods
chrInfo	chrInfo
chrInfo,-method	chrInfo
chrInfo,RangedDataOrGenoSet-method	genoset-class
chrInfo-methods	chrInfo
chrOrder	chrOrder
class:BAFSet	bafset-class
class:CNSet	cnset-class
class:GenoSet	genoset-class
cn	cn
cn,-method	cn
cn,CNSet-method	cnset-class
cn-methods	cn
cn.ds	genoset-dataset
cn<-	cn
cn<-,-method	cn
cn<-,CNSet,matrix-method	cnset-class
cn<--methods	cn
CNSet	CNSet
CNSet-class	cnset-class
cnset-class	cnset-class
coerce,CNSet,BAFSet-method	bafset-class
coerce,ExpressionSet,BAFSet-method	bafset-class
coerce,ExpressionSet,CNSet-method	cnset-class
colMeans	colMeans
colMeans,-method	colMeans
colMeans,DataFrame-method	genoset-class
colMeans-methods	colMeans
convertToBigMatrix	convertToBigMatrix
elementLengths	genoset-methods
elementLengths,-method	genoset-methods
elementLengths,GenoSet-method	genoset-class
end	genoset-methods
end,-method	genoset-methods
end,GenoSet-method	genoset-class
fake.baf	genoset-dataset
fake.lrr	genoset-dataset
fake.pData	genoset-dataset
featureNames<-,GenoSet-method	genoset-class
gcCorrect	gcCorrect
genomeAxis	genomeAxis
genoPlot	genoPlot
genoPlot,-method	genoPlot
genoPlot,BAFSet,ANY-method	bafset-class
genoPlot,CNSet,ANY-method	cnset-class
genoPlot,GenoSet,ANY-method	genoset-class
genoPlot,numeric,numeric-method	genoset-class
genoPlot,numeric,Rle-method	genoset-class
genoPlot-methods	genoPlot
genoPos	genoPos-methods
genoPos,-method	genoPos-methods
genoPos,RangedDataOrGenoSet-method	genoset-class
genoPos-methods	genoPos-methods
GenoSet	GenoSet
genoset	genoset-dataset
GenoSet-class	genoset-class
genoset-class	genoset-class
genoset.ds	genoset-dataset
initGenoSet	initGenoSet
isGenomeOrder	isGenomeOrder
loadGC	genoset-methods
loadGC,GenoSet,numeric,BSgenome-method	genoset-methods
loadGC,RangedData,numeric,BSgenome-method	genoset-methods
loadGC-methods	genoset-methods
loadGC<-,GenoSet,numeric,BSgenome-method	genoset-class
loadGC<-,RangedData,numeric,BSgenome-method	genoset-class
locData	locData
locData,-method	locData
locData,GenoSet-method	genoset-class
locData-methods	locData
locData.rd	genoset-dataset
locData<-	locData
locData<-,-method	locData
locData<-,GenoSet,RangedData-method	genoset-class
lrr	lrr
lrr,-method	lrr
lrr,BAFSet-method	bafset-class
lrr-methods	lrr
lrr<-	lrr
lrr<-,-method	lrr
lrr<-,BAFSet,matrix-method	bafset-class
lrr<--methods	lrr
modeCenter	modeCenter
names	genoset-methods
names,-method	genoset-methods
names,GenoSet-method	genoset-class
orderedChrs	orderedChrs
orderedChrs,-method	orderedChrs
orderedChrs,RangedDataOrGenoSet-method	genoset-class
orderedChrs-methods	orderedChrs
pos	pos
pos,-method	pos
pos,GenoSet-method	genoset-class
pos,RangedData-method	genoset-class
pos-methods	pos
rangeColMeans	rangeColMeans
ranges	genoset-methods
ranges,-method	genoset-methods
ranges,GenoSet-method	genoset-class
rangeSampleMeans	rangeSampleMeans
readGenoSet	readGenoSet
runCBS	runCBS
segs2RangedData	segs2RangedData
segs2Rle	segs2Rle
segs2RleDataFrame	segs2RleDataFrame
segTable	segTable-methods
segTable,DataFrame-method	genoset-class
segTable,Rle-method	genoset-class
segTable-methods	segTable-methods
show,GenoSet-method	genoset-class
space	genoset-methods
space,-method	genoset-methods
space,GenoSet-method	genoset-class
start	genoset-methods
start,-method	genoset-methods
start,GenoSet-method	genoset-class
subsetAssayData	subsetAssayData
toGenomeOrder	genomeorder
toGenomeOrder,GenoSet-method	genomeorder
toGenomeOrder,RangedData-method	genomeorder
uniqueChrs	uniqueChrs
uniqueChrs,-method	uniqueChrs
uniqueChrs,RangedDataOrGenoSet-method	genoset-class
uniqueChrs-methods	uniqueChrs
universe	universe
universe,-method	universe
universe,GenoSet-method	genoset-class
universe<-	universe
universe<-,-method	universe
universe<-,GenoSet-method	genoset-class
[	genoset-methods
[,GenoSet,ANY,ANY,ANY-method	genoset-class
[,GenoSet,ANY,ANY-method	genoset-methods
[,GenoSet,character,ANY,ANY-method	genoset-class
[,GenoSet,character,ANY-method	genoset-methods
[,GenoSet,RangedData,ANY,ANY-method	genoset-class
[,GenoSet,RangedData,ANY-method	genoset-methods
[,GenoSet,RangesList,ANY,ANY-method	genoset-class
[,GenoSet,RangesList,ANY-method	genoset-methods
