# Generated by roxygen2: do not edit by hand

export(addLogFC)
export(addMotifScore)
export(addTFMotifInfo)
export(addWeights)
export(aggregateAcrossCellsFast)
export(calculateActivity)
export(calculateP2G)
export(getRegulon)
export(getTFMotifInfo)
export(optimizeMetacellNumber)
export(pruneRegulon)
import(methods)
import(utils)
importClassesFrom(SingleCellExperiment,SingleCellExperiment)
importClassesFrom(SummarizedExperiment,SummarizedExperiment)
importFrom(GenomicRanges,GRanges)
importFrom(GenomicRanges,distance)
importFrom(GenomicRanges,distanceToNearest)
importFrom(GenomicRanges,end)
importFrom(GenomicRanges,findOverlaps)
importFrom(GenomicRanges,mcols)
importFrom(GenomicRanges,resize)
importFrom(GenomicRanges,seqnames)
importFrom(GenomicRanges,start)
importFrom(IRanges,IRanges)
importFrom(IRanges,start)
importFrom(Rcpp,sourceCpp)
importFrom(S4Vectors,"mcols<-")
importFrom(S4Vectors,DataFrame)
importFrom(S4Vectors,Rle)
importFrom(S4Vectors,mcols)
importFrom(S4Vectors,split)
importFrom(SingleCellExperiment,"altExps<-")
importFrom(SingleCellExperiment,SingleCellExperiment)
importFrom(SingleCellExperiment,altExpNames)
importFrom(SingleCellExperiment,altExps)
importFrom(SingleCellExperiment,applySCE)
importFrom(SingleCellExperiment,reducedDim)
importFrom(SummarizedExperiment,"assay<-")
importFrom(SummarizedExperiment,"colData<-")
importFrom(SummarizedExperiment,"rowData<-")
importFrom(SummarizedExperiment,"rowRanges<-")
importFrom(SummarizedExperiment,assay)
importFrom(SummarizedExperiment,assays)
importFrom(SummarizedExperiment,colData)
importFrom(SummarizedExperiment,rowData)
importFrom(SummarizedExperiment,rowRanges)
importFrom(graphics,lines)
importFrom(graphics,points)
importFrom(lifecycle,deprecated)
importFrom(scrapper,aggregateAcrossCells)
importFrom(scrapper,clusterKmeans)
importFrom(stats,ecdf)
importFrom(stats,lm)
importFrom(stats,optim)
importFrom(stats,p.adjust)
importFrom(stats,predict)
importFrom(stats,setNames)
useDynLib(epiregulon)
