# Generated by roxygen2: do not edit by hand

export("getChunkSize<-")
export("getOverhangSize<-")
export("getTileNumber<-")
export("getTileSize<-")
export(GenoGAM)
export(GenoGAMDataSet)
export(GenoGAMSettings)
export(callPeaks)
export(computeRegionSignificance)
export(computeSignificance)
export(computeSizeFactors)
export(dataRange)
export(fits)
export(genogam)
export(getChromosomes)
export(getChunkSize)
export(getCoefs)
export(getCountMatrix)
export(getFamily)
export(getIndex)
export(getKnots)
export(getOverhangSize)
export(getParams)
export(getSettings)
export(getTileNumber)
export(getTileSize)
export(is.HDF5)
export(makeTestGenoGAM)
export(makeTestGenoGAMDataSet)
export(makeTestGenoGAMDataSetList)
export(makeTestGenoGAMList)
export(plotGenoGAM)
export(pvalue)
export(readData)
export(se)
export(tileSettings)
export(writeToBEDFile)
exportClasses(GenoGAM)
exportClasses(GenoGAMDataSet)
exportClasses(GenoGAMSettings)
import(BiocParallel)
import(GenomicRanges)
import(HDF5Array)
import(IRanges)
import(S4Vectors)
import(methods)
import(rhdf5)
importFrom(DESeq2,"design<-")
importFrom(DESeq2,design)
importFrom(DESeq2,sizeFactors)
importFrom(DelayedArray,rowRanges)
importFrom(GenomeInfoDb,"seqlevels<-")
importFrom(GenomeInfoDb,seqlengths)
importFrom(GenomeInfoDb,seqlevels)
importFrom(GenomicAlignments,seqlevelsInUse)
importFrom(Rcpp,sourceCpp)
importFrom(SummarizedExperiment,"assays<-")
importFrom(SummarizedExperiment,"colData<-")
importFrom(SummarizedExperiment,"rowRanges<-")
importFrom(SummarizedExperiment,SummarizedExperiment)
importFrom(SummarizedExperiment,assay)
importFrom(SummarizedExperiment,assays)
importFrom(SummarizedExperiment,colData)
importFrom(SummarizedExperiment,rowRanges)
importFrom(futile.logger,flog.debug)
importFrom(futile.logger,flog.error)
importFrom(futile.logger,flog.info)
importFrom(futile.logger,flog.threshold)
importFrom(futile.logger,flog.trace)
importFrom(futile.logger,flog.warn)
importFrom(stats,as.formula)
importFrom(stats,dnbinom)
importFrom(stats,na.omit)
importFrom(stats,optim)
importFrom(stats,p.adjust)
importFrom(stats,pnorm)
importFrom(stats,rnbinom)
importFrom(stats,runif)
importFrom(stats,stepfun)
useDynLib(GenoGAM)
