basicSeuratProc	basicSeuratProc
bestClusterThresholds	bestClusterThresholds
bestClusterTreeThresholds	bestClusterTreeThresholds
buildWijMatrix	buildWijMatrix
buildWijMatrix.CsparseMatrix	buildWijMatrix
buildWijMatrix.TsparseMatrix	buildWijMatrix
checkCountsWholeNumbers	checkCountsWholeNumbers
collapseCellsByType	collapseCellsByType
Conos	Conos
convertToPagoda2	convertToPagoda2
edgeMat	edgeMat
edgeMat,Pagoda2-method	edgeMat
edgeMat,Seurat-method	edgeMat
edgeMat,seurat-method	edgeMat
edgeMat<-	edgeMat
edgeMat<-,Pagoda2-method	edgeMat
edgeMat<-,Seurat-method	edgeMat
edgeMat<-,seurat-method	edgeMat
embeddingPlot	reexports
estimateWeightEntropyPerCell	estimateWeightEntropyPerCell
findSubcommunities	findSubcommunities
getBetweenCellTypeCorrectedDE	getBetweenCellTypeCorrectedDE
getBetweenCellTypeDE	getBetweenCellTypeDE
getCellNames	getCellNames
getCellNames,Conos-method	getCellNames
getCellNames,Pagoda2-method	getCellNames
getCellNames,Seurat-method	getCellNames
getCellNames,seurat-method	getCellNames
getClustering	getClustering
getClustering,Conos-method	getClustering
getClustering,Pagoda2-method	getClustering
getClustering,Seurat-method	getClustering
getClustering,seurat-method	getClustering
getClusteringGroups	getClusteringGroups
getClusterRelationshipConsistency	getClusterRelationshipConsistency
getCountMatrix	getCountMatrix
getCountMatrix,Pagoda2-method	getCountMatrix
getCountMatrix,Seurat-method	getCountMatrix
getCountMatrix,seurat-method	getCountMatrix
getEmbedding	getEmbedding
getEmbedding,Conos-method	getEmbedding
getEmbedding,Pagoda2-method	getEmbedding
getEmbedding,Seurat-method	getEmbedding
getEmbedding,seurat-method	getEmbedding
getGeneExpression	getGeneExpression
getGeneExpression,Conos-method	getGeneExpression
getGeneExpression,Pagoda2-method	getGeneExpression
getGenes	getGenes
getGenes,Conos-method	getGenes
getGenes,Pagoda2-method	getGenes
getGenes,Seurat-method	getGenes
getGenes,seurat-method	getGenes
getGlobalClusterMarkers	getGlobalClusterMarkers
getNeighborMatrix	getNeighborMatrix
getOdGenesUniformly	getOdGenesUniformly
getOverdispersedGenes	getOverdispersedGenes
getOverdispersedGenes,Conos-method	getOverdispersedGenes
getOverdispersedGenes,Pagoda2-method	getOverdispersedGenes
getOverdispersedGenes,Seurat-method	getOverdispersedGenes
getOverdispersedGenes,seurat-method	getOverdispersedGenes
getPca	getPca
getPca,Pagoda2-method	getPca
getPca,Seurat-method	getPca
getPca,seurat-method	getPca
getPerCellTypeDE	getPerCellTypeDE
getPercentGlobalClusters	getPercentGlobalClusters
getRawCountMatrix	getRawCountMatrix
getRawCountMatrix,Conos-method	getRawCountMatrix
getRawCountMatrix,Pagoda2-method	getRawCountMatrix
getRawCountMatrix,Seurat-method	getRawCountMatrix
getRawCountMatrix,seurat-method	getRawCountMatrix
getSampleNamePerCell	getSampleNamePerCell
greedyModularityCut	greedyModularityCut
leiden.community	reexports
multimulti.community	multimulti.community
multitrap.community	multitrap.community
namedLevels	namedLevels
namedNames	namedNames
p2app4conos	p2app4conos
plotClusterBarplots	plotClusterBarplots
plotClusterBoxPlotsByAppType	plotClusterBoxPlotsByAppType
plotComponentVariance	plotComponentVariance
plotDEheatmap	plotDEheatmap
plotEmbeddings	plotEmbeddings
plotSamples	plotSamples
projectKNNs	projectKNNs
propagateLabelsDiffusion	propagateLabelsDiffusion
quickCCA	quickCCA
quickCPCA	quickCPCA
quickPlainPCA	quickPlainPCA
rawMatricesWithCommonGenes	rawMatricesWithCommonGenes
reexports	reexports
saveConosForScanPy	saveConosForScanPy
saveDEasCSV	saveDEasCSV
saveDEasJSON	saveDEasJSON
scanKModularity	scanKModularity
sgdBatches	sgdBatches
small_panel.preprocessed	small_panel.preprocessed
stableTreeClusters	stableTreeClusters
