# Generated by roxygen2: do not edit by hand

export(Aggregation)
export(BalanceHiC)
export(BinGRanges)
export(CompareToBackground)
export(CutHiC)
export(ExtractSubmatrix)
export(FilterInteractions)
export(GenomicSystem)
export(GetInfo)
export(GetQuantif)
export(Hue)
export(ICEnorm)
export(ImportHiC)
export(ImportLoops)
export(IndexFeatures)
export(JoinHiC)
export(MergeGRanges)
export(OrientateMatrix)
export(OverExpectedHiC)
export(PlotAPA)
export(PrepareMtxList)
export(QtlThreshold)
export(SearchPairs)
export(SeqEnds)
export(StrToGRanges)
export(SwitchMatrix)
export(VCnorm)
export(YlGnBu)
export(YlOrRd)
export(ggAPA)
export(plotMultiAPA)
export(preparePlotgardener)
export(viridis)
import(InteractionSet)
import(ggplot2)
importFrom(GenomicRanges,GRanges)
importFrom(GenomicRanges,seqnames)
importFrom(GenomicRanges,start)
importFrom(GenomicRanges,trim)
importFrom(GenomicRanges,width)
importFrom(IRanges,IRanges)
importFrom(IRanges,subsetByOverlaps)
importFrom(S4Vectors,Rle)
importFrom(S4Vectors,first)
importFrom(S4Vectors,mcols)
importFrom(S4Vectors,metadata)
importFrom(S4Vectors,runLength)
importFrom(S4Vectors,runValue)
importFrom(S4Vectors,second)
importFrom(Seqinfo,seqinfo)
importFrom(Seqinfo,seqlevels)
importFrom(checkmate,assert)
importFrom(checkmate,assertCharacter)
importFrom(checkmate,assertChoice)
importFrom(checkmate,assertClass)
importFrom(checkmate,assertCount)
importFrom(checkmate,assertDataFrame)
importFrom(checkmate,assertFileExists)
importFrom(checkmate,assertFunction)
importFrom(checkmate,assertList)
importFrom(checkmate,assertLogical)
importFrom(checkmate,assertMatrix)
importFrom(checkmate,assertNumeric)
importFrom(checkmate,checkCharacter)
importFrom(checkmate,checkChoice)
importFrom(checkmate,checkClass)
importFrom(checkmate,checkList)
importFrom(checkmate,checkLogical)
importFrom(checkmate,checkNumeric)
importFrom(checkmate,makeAssertCollection)
importFrom(checkmate,reportAssertions)
importFrom(data.table,as.data.table)
importFrom(data.table,foverlaps)
importFrom(data.table,setkey)
importFrom(dplyr,case_when)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,join_by)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,select)
importFrom(dplyr,summarise)
importFrom(gridExtra,grid.arrange)
importFrom(gridExtra,grid.table)
importFrom(purrr,map)
importFrom(reshape,melt)
importFrom(rhdf5,h5closeAll)
importFrom(rhdf5,h5ls)
importFrom(rhdf5,h5read)
importFrom(rlang,.data)
importFrom(stats,as.formula)
importFrom(stats,lm)
importFrom(stats,na.omit)
importFrom(stats,p.adjust)
importFrom(stats,pnorm)
importFrom(stats,poly)
importFrom(stats,predict)
importFrom(stats,residuals)
importFrom(stats,sd)
importFrom(strawr,readHicBpResolutions)
importFrom(strawr,readHicChroms)
importFrom(strawr,readHicNormTypes)
importFrom(stringr,str_c)
importFrom(stringr,str_detect)
importFrom(stringr,str_remove)
importFrom(stringr,str_replace)
importFrom(stringr,str_split)
importFrom(utils,head)
importFrom(utils,tail)
importFrom(withr,local_options)
