NAMESPACE

# Generated by roxygen2: do not edit by hand

export(DEXSeqWrapper)
export(addNormalizedAssays)
export(countFeatures)
export(deuBinPlot)
export(diffSplice2)
export(diffSpliceDGEWrapper)
export(diffSpliceWrapper)
export(geneBinHeatmap)
export(geneLevelStats)
export(plotTopGenes)
export(prepareBins)
export(simesAggregation)
import(GenomeInfoDb)
import(GenomicRanges)
import(S4Vectors)
import(SummarizedExperiment)
import(ggplot2)
import(limma)
import(rtracklayer)
importFrom(ComplexHeatmap,Heatmap)
importFrom(ComplexHeatmap,HeatmapAnnotation)
importFrom(ComplexHeatmap,draw)
importFrom(ComplexHeatmap,rowAnnotation)
importFrom(DEXSeq,DEXSeqDataSet)
importFrom(DEXSeq,DEXSeqResults)
importFrom(DEXSeq,estimateDispersions)
importFrom(DEXSeq,estimateExonFoldChanges)
importFrom(DEXSeq,estimateSizeFactors)
importFrom(DEXSeq,perGeneQValue)
importFrom(DEXSeq,testForDEU)
importFrom(GenomicRanges,width)
importFrom(IRanges,CharacterList)
importFrom(IRanges,FactorList)
importFrom(IRanges,IRanges)
importFrom(IRanges,IntegerList)
importFrom(IRanges,LogicalList)
importFrom(IRanges,NumericList)
importFrom(IRanges,extractList)
importFrom(IRanges,mean)
importFrom(Rsubread,featureCounts)
importFrom(S4Vectors,mcols)
importFrom(S4Vectors,metadata)
importFrom(dplyr,bind_rows)
importFrom(edgeR,DGEList)
importFrom(edgeR,calcNormFactors)
importFrom(edgeR,cpm)
importFrom(edgeR,diffSpliceDGE)
importFrom(edgeR,estimateDisp)
importFrom(edgeR,filterByExpr)
importFrom(edgeR,glmFit)
importFrom(edgeR,glmQLFit)
importFrom(ensembldb,cdsBy)
importFrom(ensembldb,exons)
importFrom(ensembldb,genes)
importFrom(ggrepel,geom_text_repel)
importFrom(limma,diffSplice)
importFrom(limma,lmFit)
importFrom(limma,voom)
importFrom(matrixStats,colMedians)
importFrom(matrixStats,rowMins)
importFrom(methods,as)
importFrom(methods,is)
importFrom(methods,new)
importFrom(stats,ave)
importFrom(stats,model.matrix)
importFrom(stats,p.adjust)
importFrom(stats,pf)
importFrom(stats,pt)
importFrom(stats,setNames)
importFrom(stats,terms)
importFrom(stats,weighted.mean)
importFrom(stringi,stri_reverse)
importFrom(viridisLite,viridis)