# Generated by roxygen2: do not edit by hand

export(plotRegion)
export(readAnnotation)
export(readMiRBaseMatureAnnotation)
export(readMiRBasePreAnnotation)
export(readWholeGenomeAnnotation)
export(regions)
export(runAll)
export(sRNADiffExample)
export(sRNADiffExp)
export(setEmissionProbabilities)
export(setEmissionThreshold)
export(setMergeDistance)
export(setMinDepth)
export(setMinDifferences)
export(setMinOverlap)
export(setNThreads)
export(setSizes)
export(setStrategies)
export(setTransitionProbabilities)
exportMethods(regions)
exportMethods(setEmissionProbabilities)
exportMethods(setEmissionThreshold)
exportMethods(setMergeDistance)
exportMethods(setMinDepth)
exportMethods(setMinDifferences)
exportMethods(setMinOverlap)
exportMethods(setNThreads)
exportMethods(setSizes)
exportMethods(setStrategies)
exportMethods(setTransitionProbabilities)
exportMethods(show)
import(BiocParallel)
import(BiocStyle)
import(DESeq2)
import(GenomeInfoDb)
import(GenomicAlignments)
import(GenomicFeatures)
import(GenomicRanges)
import(IRanges)
import(Rsamtools)
import(S4Vectors)
import(SummarizedExperiment)
import(devtools)
import(ggplot2)
import(methods)
import(rtracklayer)
importFrom(Rcpp,evalCpp)
importFrom(utils,read.csv)
useDynLib(srnadiff)
