$,cvgd-method	cvgd-class
$<-,cvgd-method	cvgd-class
assignReadingFrame	assignReadingFrame
codonBias	codonBias
codonUsage	codonUsage
countReads	countReads
coverageDepth	coverageDepth
coverageRates	coverageRates
cvgd	cvgd-class
cvgd-class	cvgd-class
estimatePsite	estimatePsite
filterCDS	filterCDS
FLOSS	FLOSS
frameCounts	frameCounts
getFPKM	getFPKM
getORFscore	getORFscore
getPsiteCoordinates	getPsiteCoordinates
ggBar	ggBar
metaPlot	metaPlot
normalizeTEbyLoess	normalizeTEbyLoess
normBy	normBy
normByRUVs	normByRUVs
PAmotif	PAmotif
plotDistance2Codon	plotDistance2Codon
plotFrameDensity	plotFrameDensity
plotSpliceEvent	plotSpliceEvent
plotTE	plotTE
plotTranscript	plotTranscript
prepareCDS	prepareCDS
readsDistribution	readsDistribution
readsEndPlot	readsEndPlot
readsLenToKeep	readsLenToKeep
ribosomeReleaseScore	ribosomeReleaseScore
shiftReadsByFrame	shiftReadsByFrame
show,cvgd-method	cvgd-class
simulateRPF	simulateRPF
spliceEvent	spliceEvent
strandPlot	strandPlot
summaryReadsLength	summaryReadsLength
translationalEfficiency	translationalEfficiency
[[,cvgd,ANY,ANY-method	cvgd-class
[[<-,cvgd,ANY,ANY,ANY-method	cvgd-class
