# Generated by roxygen2: do not edit by hand

export(annotateDMRsWithGenes)
export(augmentBSSeq)
export(buildDMRs)
export(combinePvalues)
export(computeDMRsInteraction)
export(convertBetaToTabix)
export(extractDMRMotifs)
export(findDMPsArray)
export(findDMPsBSSeq)
export(getBetaHandler)
export(getDMRSequences)
export(getSortedGenomicLocs)
export(launchCMEntViewer)
export(loadExampleInputData)
export(loadExampleInputDataChr21And22)
export(loadExampleInputDataChr5And11)
export(orderByLoc)
export(plotAutoDMRsCircos)
export(plotDMR)
export(plotDMRBlockFormation)
export(plotDMRs)
export(plotDMRsCircos)
export(plotDMRsManhattan)
export(readCustomMethylationBedData)
export(reduceBSseqAroundSeeds)
export(scoreDMRs)
export(simulateDMRs)
export(sortBetaFileByCoordinates)
export(sparsifySeeds)
importFrom(BSgenome,getSeq)
importFrom(DT,DTOutput)
importFrom(DT,datatable)
importFrom(DT,renderDT)
importFrom(GenomeInfoDb,seqnames)
importFrom(GenomicRanges,granges)
importFrom(IRanges,end)
importFrom(IRanges,start)
importFrom(R6,R6Class)
importFrom(SummarizedExperiment,assays)
importFrom(bedr,tabix)
importFrom(bslib,bs_theme)
importFrom(bslib,card)
importFrom(bslib,card_body)
importFrom(bslib,card_header)
importFrom(bslib,nav_item)
importFrom(bslib,nav_panel)
importFrom(bslib,nav_spacer)
importFrom(bslib,page_navbar)
importFrom(bslib,value_box)
importFrom(bsseq,sampleNames)
importFrom(circlize,CELL_META)
importFrom(circlize,circos.clear)
importFrom(circlize,circos.genomicHeatmap)
importFrom(circlize,circos.genomicLink)
importFrom(circlize,circos.initializeWithIdeogram)
importFrom(circlize,circos.link)
importFrom(circlize,circos.rect)
importFrom(circlize,circos.trackPlotRegion)
importFrom(circlize,colorRamp2)
importFrom(data.table,fread)
importFrom(rtracklayer,import.chain)
importFrom(rtracklayer,liftOver)
importFrom(stats,aggregate)
importFrom(stats,as.formula)
importFrom(stats,ave)
importFrom(stats,na.omit)
importFrom(stats,p.adjust)
importFrom(stats,plogis)
importFrom(stats,predict)
importFrom(stats,pt)
importFrom(stats,qlogis)
importFrom(stats,setNames)
importFrom(utils,capture.output)
importFrom(utils,getFromNamespace)
importFrom(utils,head)
importFrom(utils,read.csv)
importFrom(utils,read.table)
importFrom(utils,tail)
importFrom(utils,write.table)
