# Generated by roxygen2: do not edit by hand

S3method(as.data.frame,sesameQC)
S3method(print,DMLSummary)
S3method(print,fileSet)
S3method(print,sesameQC)
export("IG<-")
export("II<-")
export("IR<-")
export("ctl<-")
export("extra<-")
export("oobG<-")
export("oobR<-")
export("pval<-")
export(BetaValueToMValue)
export(DML)
export(DMLShrinkage)
export(DMR)
export(IG)
export(IGpass)
export(II)
export(IIpass)
export(IR)
export(IRpass)
export(MValueToBetaValue)
export(RGChannelSetToSigSets)
export(SNPcheck)
export(SigSet)
export(SigSetList)
export(SigSetListFromIDATs)
export(SigSetListFromPath)
export(SigSetToRatioSet)
export(SigSetsToRGChannelSet)
export(addMask)
export(bSubComplete)
export(bSubMostVariable)
export(bSubProbes)
export(betaToAF)
export(bisConversionControl)
export(buildControlMatrix450k)
export(checkLevels)
export(cnSegmentation)
export(compareMouseBloodReference)
export(compareMouseTissueReference)
export(createUCSCtrack)
export(ctl)
export(deIdentify)
export(detectionPfixedNorm)
export(detectionPnegEcdf)
export(detectionPnegNorm)
export(detectionPnegNormGS)
export(detectionPnegNormTotal)
export(detectionPoobEcdf)
export(detectionPoobEcdf2)
export(diffRefSet)
export(dyeBiasCorr)
export(dyeBiasCorrMostBalanced)
export(dyeBiasCorrTypeINorm)
export(dyeBiasNL)
export(estimateLeukocyte)
export(extra)
export(formatVCF)
export(getAFTypeIbySumAlleles)
export(getAutosomeProbes)
export(getBetas)
export(getNormCtls)
export(getProbesByChromosome)
export(getProbesByGene)
export(getProbesByRegion)
export(getProbesByTSS)
export(getRefSet)
export(getSexInfo)
export(inferEthnicity)
export(inferSex)
export(inferSexKaryotypes)
export(inferStrain)
export(inferTypeIChannel)
export(initFileSet)
export(makeExampleSeSAMeDataSet)
export(makeExampleTinyEPICDataSet)
export(mapFileSet)
export(mask)
export(meanIntensity)
export(noob)
export(noobsb)
export(oobG)
export(oobGpass)
export(oobR)
export(oobRpass)
export(openSesame)
export(openSesameToFile)
export(pOOBAH)
export(pOOBAH2)
export(parseGEOSignalABFile)
export(predictAgeHorvath353)
export(predictAgePheno)
export(predictAgeSkinBlood)
export(predictMouseAgeInMonth)
export(probeID_designType)
export(probeNames)
export(pval)
export(qualityMask)
export(qualityRank)
export(reIdentify)
export(readFileSet)
export(readIDATpair)
export(resetMask)
export(restoreMask)
export(saveMask)
export(scrub)
export(scrubSoft)
export(searchIDATprefixes)
export(sesamePlotIntensVsBetas)
export(sesamePlotRedGrnQQ)
export(sesameQC)
export(sesamize)
export(setMask)
export(signalMU)
export(sliceFileSet)
export(subsetSignal)
export(summaryExtractCfList)
export(summaryExtractTest)
export(topSegments)
export(totalIntensities)
export(totalIntensityZscore)
export(visualizeGene)
export(visualizeProbes)
export(visualizeRegion)
export(visualizeSegments)
exportClasses(SigSet)
exportClasses(SigSetList)
exportMethods(show)
import(BiocParallel)
import(DNAcopy)
import(KernSmooth)
import(graphics)
import(grid)
import(methods)
import(sesameData)
import(stats)
import(stringr)
import(tibble)
import(utils)
import(wheatmap)
importFrom(S4Vectors,"metadata<-")
importFrom(S4Vectors,List)
importFrom(S4Vectors,metadata)
importFrom(SummarizedExperiment,assay)
importFrom(SummarizedExperiment,assays)
importFrom(SummarizedExperiment,colData)
importFrom(SummarizedExperiment,rowData)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,gray.colors)
importFrom(matrixStats,rowMaxs)
importFrom(matrixStats,rowMins)
importFrom(parallel,mclapply)
importFrom(preprocessCore,normalize.quantiles.use.target)
importFrom(randomForest,randomForest)
importFrom(stats,approx)
importFrom(utils,head)
importFrom(utils,tail)
importMethodsFrom(IRanges,subsetByOverlaps)
