# Generated by roxygen2: do not edit by hand

export(controlCorrection)
export(coverage.rpm)
export(export.bed)
export(export.wig)
export(filterFFT)
export(fragmentLenDetect)
export(mergeCalls)
export(pcKeepCompDetect)
export(peakDetection)
export(peakScoring)
export(plotPeaks)
export(processReads)
export(processTilingArray)
export(readBAM)
export(readBowtie)
export(syntheticNucMap)
import(methods)
importFrom(GenomicRanges,GRanges)
importFrom(GenomicRanges,GRangesList)
importFrom(IRanges,IRanges)
importFrom(IRanges,IRangesList)
importFrom(IRanges,RleList)
importFrom(S4Vectors,queryHits)
importFrom(dplyr,arrange)
importFrom(dplyr,bind_rows)
importFrom(dplyr,do)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,mutate)
importFrom(dplyr,select)
importFrom(dplyr,ungroup)
importFrom(ggplot2,aes)
importFrom(ggplot2,as_labeller)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,facet_grid)
importFrom(ggplot2,geom_area)
importFrom(ggplot2,geom_blank)
importFrom(ggplot2,geom_hline)
importFrom(ggplot2,geom_line)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_rect)
importFrom(ggplot2,geom_text)
importFrom(ggplot2,geom_vline)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,labs)
importFrom(ggplot2,scale_alpha_manual)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,theme)
importFrom(ggplot2,xlab)
importFrom(ggplot2,xlim)
importFrom(ggplot2,ylab)
importFrom(grDevices,rgb)
importFrom(magrittr,"%>%")
importFrom(parallel,mclapply)
importFrom(stats,cor)
importFrom(stats,fft)
importFrom(stats,pnorm)
importFrom(stats,quantile)
importFrom(stats,runif)
importFrom(utils,getFromNamespace)
importMethodsFrom(Biobase,exprs)
importMethodsFrom(Biobase,pData)
importMethodsFrom(Biobase,sampleNames)
importMethodsFrom(BiocGenerics,"end<-")
importMethodsFrom(BiocGenerics,end)
importMethodsFrom(BiocGenerics,sort)
importMethodsFrom(BiocGenerics,start)
importMethodsFrom(BiocGenerics,strand)
importMethodsFrom(BiocGenerics,width)
importMethodsFrom(Biostrings,nchar)
importMethodsFrom(GenomeInfoDb,"seqlevels<-")
importMethodsFrom(GenomeInfoDb,seqnames)
importMethodsFrom(GenomeInfoDb,sortSeqlevels)
importMethodsFrom(IRanges,coverage)
importMethodsFrom(IRanges,disjointBins)
importMethodsFrom(IRanges,findOverlaps)
importMethodsFrom(IRanges,pos)
importMethodsFrom(IRanges,ranges)
importMethodsFrom(IRanges,reduce)
importMethodsFrom(Rsamtools,ScanBamParam)
importMethodsFrom(Rsamtools,scanBam)
importMethodsFrom(S4Vectors,Rle)
importMethodsFrom(S4Vectors,runLength)
importMethodsFrom(S4Vectors,space)
importMethodsFrom(S4Vectors,values)
importMethodsFrom(ShortRead,chromosome)
importMethodsFrom(ShortRead,position)
importMethodsFrom(ShortRead,readAligned)
importMethodsFrom(ShortRead,sread)