NAMESPACE

# Generated by roxygen2: do not edit by hand

export(GREAT)
export(addCellMetadata)
export(addRegionMetadata)
export(annotateRegions)
export(binarizecisTopics)
export(binarizedcisTopicsToCtx)
export(cellTopicHeatmap)
export(createcisTopicObject)
export(createcisTopicObjectFrom10X)
export(createcisTopicObjectFrom10Xmatrix)
export(createcisTopicObjectFromBAM)
export(createcisTopicObjectFromMeth)
export(getBedFiles)
export(getBigwigFiles)
export(getCistromeEnrichment)
export(getCistromes)
export(getRegionsScores)
export(getSignaturesRegions)
export(logLikelihoodByIter)
export(makeBackgroundFeather)
export(modelMatSelection)
export(ontologyDotPlot)
export(plotFeatures)
export(predictiveDistribution)
export(renameCells)
export(runCGSModels)
export(runDM)
export(runPCA)
export(runUmap)
export(runWarpLDAModels)
export(runtSNE)
export(scoredRegionsToCtx)
export(selectModel)
export(signatureCellEnrichment)
export(signaturesHeatmap)
export(topicSignaturesMatrix)
export(topicsRcisTarget)
exportClasses(cisTopic)
import(AUCell)
import(GenomicRanges)
import(Matrix)
import(RcisTarget)
import(data.table)
import(doSNOW)
import(dplyr)
import(feather)
import(fitdistrplus)
import(methods)
import(parallel)
import(plyr)
import(text2vec)
importFrom(GenomicRanges,findOverlaps)
importFrom(GenomicRanges,makeGRangesFromDataFrame)
importFrom(Matrix,colSums)
importFrom(Matrix,rowSums)
importFrom(Rcpp,evalCpp)
importFrom(S4Vectors,queryHits)
importFrom(S4Vectors,subjectHits)
importFrom(data.table,rbindlist)
importFrom(lda,lda.collapsed.gibbs.sampler)
importFrom(parallel,makeCluster)
importFrom(plyr,llply)
importFrom(stats,aggregate)
importFrom(stats,prcomp)
importFrom(utils,globalVariables)
importFrom(utils,packageVersion)