NAMESPACE

# Generated by roxygen2: do not edit by hand

export(ChoosePCs)
export(ComputeSilhouetteScores)
export(ConvertGeneOrthologs)
export(CosineDist)
export(FindFilteredMarkers)
export(FindSpecificMarkers)
export(IntegrateSubclusters)
export(PrepareData)
export(ReclusterCells)
export(ReduceDimensions)
export(RunPHATE)
export(theme_yehlab)
import(magrittr)
importFrom(Matrix,t)
importFrom(Seurat,CellCycleScoring)
importFrom(Seurat,CreateDimReducObject)
importFrom(Seurat,DefaultAssay)
importFrom(Seurat,DimPlot)
importFrom(Seurat,Embeddings)
importFrom(Seurat,FindAllMarkers)
importFrom(Seurat,FindClusters)
importFrom(Seurat,FindIntegrationAnchors)
importFrom(Seurat,FindMarkers)
importFrom(Seurat,FindNeighbors)
importFrom(Seurat,FindVariableFeatures)
importFrom(Seurat,GetAssayData)
importFrom(Seurat,Idents)
importFrom(Seurat,IntegrateData)
importFrom(Seurat,NormalizeData)
importFrom(Seurat,PercentageFeatureSet)
importFrom(Seurat,PrepSCTIntegration)
importFrom(Seurat,RunPCA)
importFrom(Seurat,RunTSNE)
importFrom(Seurat,RunUMAP)
importFrom(Seurat,SCTransform)
importFrom(Seurat,ScaleData)
importFrom(Seurat,SelectIntegrationFeatures)
importFrom(Seurat,SplitObject)
importFrom(Seurat,Stdev)
importFrom(Seurat,VariableFeatures)
importFrom(SeuratObject,GetAssayData)
importFrom(SeuratObject,as.Seurat)
importFrom(SeuratObject,colSums)
importFrom(biomaRt,getBM)
importFrom(biomaRt,getLDS)
importFrom(biomaRt,useMart)
importFrom(cluster,silhouette)
importFrom(doParallel,registerDoParallel)
importFrom(dplyr,across)
importFrom(dplyr,bind_rows)
importFrom(dplyr,case_when)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,mutate)
importFrom(dplyr,pull)
importFrom(dplyr,select)
importFrom(dplyr,summarise)
importFrom(dplyr,ungroup)
importFrom(dplyr,with_groups)
importFrom(foreach,"%dopar%")
importFrom(foreach,foreach)
importFrom(foreach,registerDoSEQ)
importFrom(future,plan)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_rect)
importFrom(ggplot2,element_text)
importFrom(ggplot2,labs)
importFrom(ggplot2,theme)
importFrom(matrixStats,rowVars)
importFrom(parallel,clusterEvalQ)
importFrom(parallel,makeCluster)
importFrom(parallel,stopCluster)
importFrom(phateR,phate)
importFrom(stats,as.dist)
importFrom(stats,dist)
importFrom(stats,quantile)