# Generated by roxygen2: do not edit by hand

export(calcAssocProbOR)
export(calcRawAssocProbOR)
export(changeColorAlpha)
export(collapseDegCreToGene)
export(convDegCreResListToCreGeneScoreGR)
export(convertDegCreDataFrame)
export(convertdegCreResListToGInteraction)
export(degCrePRAUC)
export(getAssocDistHits)
export(getDistBinNullAssocProb)
export(getExpectAssocPerDEG)
export(optimizeAlphaDegCre)
export(plotBrowserDegCre)
export(plotDegCreAssocProbVsDist)
export(plotDegCreBinHeuristic)
export(plotExpectedAssocsPerDeg)
export(runDegCre)
import(TxDb.Hsapiens.UCSC.hg38.knownGene)
import(org.Hs.eg.db)
importClassesFrom(GenomicRanges,GRanges)
importClassesFrom(GenomicRanges,GRangesList)
importClassesFrom(S4Vectors,Hits)
importFrom(BiocGenerics,strand)
importFrom(BiocGenerics,width)
importFrom(BiocParallel,MulticoreParam)
importFrom(BiocParallel,SerialParam)
importFrom(BiocParallel,bplapply)
importFrom(BiocParallel,bpparam)
importFrom(GenomicRanges,GRanges)
importFrom(GenomicRanges,GRangesList)
importFrom(GenomicRanges,granges)
importFrom(GenomicRanges,makeGRangesFromDataFrame)
importFrom(IRanges,distance)
importFrom(IRanges,end)
importFrom(IRanges,findOverlaps)
importFrom(IRanges,reduce)
importFrom(IRanges,start)
importFrom(IRanges,tile)
importFrom(InteractionSet,GInteractions)
importFrom(S4Vectors,Hits)
importFrom(S4Vectors,mcols)
importFrom(S4Vectors,queryHits)
importFrom(S4Vectors,subjectHits)
importFrom(Seqinfo,seqnames)
importFrom(grDevices,col2rgb)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,dev.size)
importFrom(grDevices,rgb)
importFrom(graphics,axis)
importFrom(graphics,hist)
importFrom(graphics,layout)
importFrom(graphics,lines)
importFrom(graphics,par)
importFrom(graphics,plot)
importFrom(graphics,points)
importFrom(graphics,polygon)
importFrom(graphics,text)
importFrom(plotgardener,annoHeatmapLegend)
importFrom(plotgardener,annoYaxis)
importFrom(plotgardener,colorby)
importFrom(plotgardener,pageCreate)
importFrom(plotgardener,plotGenes)
importFrom(plotgardener,plotGenomeLabel)
importFrom(plotgardener,plotPairsArches)
importFrom(plotgardener,plotSignal)
importFrom(plotgardener,plotText)
importFrom(qvalue,lfdr)
importFrom(stats,median)
importFrom(stats,p.adjust)
importFrom(stats,pbinom)
importFrom(stats,quantile)
importFrom(stats,rnorm)
importFrom(utils,head)
importFrom(utils,tail)
