$,LineagePulseObject-method	cash-LineagePulseObject-method
accessors	accessors
boolFixedPopulation	accessors
boolFixedPopulation<-	LPsetters
boolFixedPopulations	accessors
calcNormConst	calcNormConst
calcPostDrop_Matrix	calcPostDrop_Matrix
calcPostDrop_Vector	calcPostDrop_Vector
decompressDispByGene	decompressDispByGene
decompressDispByGeneMM	decompressDispByGeneMM
decompressDropoutRateByCell	decompressDropoutRateByCell
decompressDropoutRateByGene	decompressDropoutRateByGene
decompressMeansByGene	decompressMeansByGene
decompressMuByGeneMM	decompressMuByGeneMM
dfAnnotationProc	accessors
dfAnnotationProc<-	LPsetters
dfResults	accessors
dfResults<-	LPsetters
evalDropoutModel	evalDropoutModel
evalDropoutModel_comp	evalDropoutModel_comp
evalImpulseModel	evalImpulseModel
evalImpulseModel_comp	evalImpulseModel_comp
evalLogLikGene	evalLogLikGene
evalLogLikGeneMM	evalLogLikGeneMM
evalLogLikMatrix	evalLogLikMatrix
evalLogLikMuDispGeneFit	evalLogLikMuDispGeneFit
evalLogLikMuDispGeneFit_comp	evalLogLikMuDispGeneFit_comp
evalLogLikNB	evalLogLikNB
evalLogLikNB_comp	evalLogLikNB_comp
evalLogLikPiZINB_ManyCells	evalLogLikPiZINB_ManyCells
evalLogLikPiZINB_ManyCells_comp	evalLogLikPiZINB_ManyCells_comp
evalLogLikPiZINB_SingleCell	evalLogLikPiZINB_SingleCell
evalLogLikPiZINB_SingleCell_comp	evalLogLikPiZINB_SingleCell_comp
evalLogLikZINB	evalLogLikZINB
evalLogLikZINB_comp	evalLogLikZINB_comp
fitLPModels	fitLPModels
fitModel	fitModel
fitMuDisp	fitMuDisp
fitMuDispGene	fitMuDispGene
fitMuDispGeneImpulse	fitMuDispGeneImpulse
fitMuDispGeneMM	fitMuDispGeneMM
fitPi	fitPi
fitPi_ManyCells	fitPi_ManyCells
fitPi_SingleCell	fitPi_SingleCell
function	runLineagePulse
getFitsDispersion	getFitsDispersion
getFitsDropout	getFitsDropout
getFitsMean	getFitsMean
getNormData	getNormData
getPostDrop	getPostDrop
initDispModel	initDispModel
initDropModel	initDropModel
initialiseImpulseParameters	initialiseImpulseParameters
initMuModel	initMuModel
LineagePulse	runLineagePulse
LineagePulseObject-class	LineagePulseObject-class
LPsetters	LPsetters
lsDispModelConst	accessors
lsDispModelConst<-	LPsetters
lsDispModelH0	accessors
lsDispModelH0<-	LPsetters
lsDispModelH0_NB	accessors
lsDispModelH0_NB<-	LPsetters
lsDispModelH1	accessors
lsDispModelH1<-	LPsetters
lsDispModelH1_NB	accessors
lsDispModelH1_NB<-	LPsetters
lsDropModel	accessors
lsDropModel<-	LPsetters
lsFitConvergence	accessors
lsFitConvergence<-	LPsetters
lsMuModelConst	accessors
lsMuModelConst<-	LPsetters
lsMuModelH0	accessors
lsMuModelH0<-	LPsetters
lsMuModelH0_NB	accessors
lsMuModelH0_NB<-	LPsetters
lsMuModelH1	accessors
lsMuModelH1<-	LPsetters
lsMuModelH1_NB	accessors
lsMuModelH1_NB<-	LPsetters
main	runLineagePulse
matCountsProc	accessors
matCountsProc<-	LPsetters
matWeights	accessors
matWeights<-	LPsetters
names,LineagePulseObject-method	names-LineagePulseObject-method
plotCellDensity	plotCellDensity
plotGene	plotGene
processSCData	processSCData
runDEAnalysis	runDEAnalysis
runLineagePulse	runLineagePulse
scaDFSplinesDisp	accessors
scaDFSplinesDisp<-	LPsetters
scaDFSplinesMu	accessors
scaDFSplinesMu<-	LPsetters
scaOmega	accessors
scaOmega<-	LPsetters
simulateContinuousDataSet	simulateContinuousDataSet
sortGeneTrajectories	sortGeneTrajectories
strReport	accessors
strReport<-	LPsetters
strVersion	accessors
strVersion<-	LPsetters
testDropout	testDropout
vecAllGenes	accessors
vecAllGenes<-	LPsetters
vecConfoundersDisp	accessors
vecConfoundersDisp<-	LPsetters
vecConfoundersMu	accessors
vecConfoundersMu<-	LPsetters
vecH0Pop	accessors
vecH0Pop<-	LPsetters
vecNormConst	accessors
vecNormConst<-	LPsetters
wrapper,	runLineagePulse
writeReport	writeReport
[[,LineagePulseObject,character,missing-method	sub-sub-LineagePulseObject-character-missing-method
`boolFixedPopulation<-`	LPsetters
`dfAnnotationProc<-`	LPsetters
`dfResults<-`	LPsetters
`lsDispModelConst<-`	LPsetters
`lsDispModelH0<-`	LPsetters
`lsDispModelH0_NB<-`	LPsetters
`lsDispModelH1<-`	LPsetters
`lsDispModelH1_NB<-`	LPsetters
`lsDropModel<-`	LPsetters
`lsFitConvergence<-`	LPsetters
`lsMuModelConst<-`	LPsetters
`lsMuModelH0<-`	LPsetters
`lsMuModelH0_NB<-`	LPsetters
`lsMuModelH1<-`	LPsetters
`lsMuModelH1_NB<-`	LPsetters
`matCountsProc<-`	LPsetters
`matWeights<-`	LPsetters
`scaDFSplinesDisp<-`	LPsetters
`scaDFSplinesMu<-`	LPsetters
`scaOmega<-`	LPsetters
`strReport<-`	LPsetters
`strVersion<-`	LPsetters
`vecAllGenes<-`	LPsetters
`vecConfoundersDisp<-`	LPsetters
`vecConfoundersMu<-`	LPsetters
`vecH0Pop<-`	LPsetters
`vecNormConst<-`	LPsetters
