# Generated by roxygen2: do not edit by hand

export(aggregatePeaks)
export(aggregatePeaks_regions)
export(annotateInts)
export(baitmap2baited_genes)
export(boxplotsCapC)
export(getMatrix)
export(loadCdList)
export(loadGrl)
export(makeBedGraphs)
export(makeIntsTable)
export(makeOneGeneOnePeak)
export(makeQCplots)
export(plotAggregatePeaks)
export(plotInteractions)
export(plotSigIntsStats)
export(quantifyWithinPeaks)
export(rmap2rmapgr)
export(runChicagoForPostChicago)
import(BiocFileCache)
import(GenomicRanges)
import(IRanges)
import(RColorBrewer)
import(S4Vectors)
import(ggplot2)
import(gridExtra)
import(matrixStats)
import(patchwork)
import(pheatmap)
import(rtracklayer)
importFrom(Chicago,chicagoPipeline)
importFrom(Chicago,defaultSettings)
importFrom(Chicago,exportResults)
importFrom(Chicago,readAndMerge)
importFrom(Chicago,setExperiment)
importFrom(dplyr,mutate)
importFrom(dplyr,n)
importFrom(grDevices,adjustcolor)
importFrom(grDevices,boxplot.stats)
importFrom(grDevices,dev.off)
importFrom(grDevices,palette.colors)
importFrom(grDevices,pdf)
importFrom(grDevices,png)
importFrom(grDevices,rgb)
importFrom(graphics,abline)
importFrom(graphics,barplot)
importFrom(graphics,boxplot)
importFrom(graphics,legend)
importFrom(graphics,lines)
importFrom(graphics,par)
importFrom(graphics,polygon)
importFrom(graphics,rect)
importFrom(graphics,text)
importFrom(gridExtra,grid.arrange)
importFrom(matrixStats,colMedians)
importFrom(rlang,.data)
importFrom(stats,density)
importFrom(stringr,str_remove)
importFrom(tidyr,pivot_longer)
importFrom(utils,read.delim)
importFrom(utils,str)
importFrom(utils,write.table)
