# Generated by roxygen2: do not edit by hand

export("downstreamPartnerGene<-")
export("partnerGeneEnsemblId<-")
export("upstreamPartnerGene<-")
export(addFusionReadsAlignment)
export(createFusionReport)
export(decideTranscriptCategory)
export(downstreamPartnerGene)
export(fetchReadsFromFastq)
export(fusionSpanningReadsCount)
export(fusionSplitReadsCount)
export(fusionToDataFrame)
export(getEnsemblIds)
export(getFusionByChromosome)
export(getFusionByGeneName)
export(getFusionById)
export(getTranscriptsEnsembldb)
export(importDefuse)
export(importEricscript)
export(importFusioncatcher)
export(importFusionmap)
export(importInfusion)
export(importJaffa)
export(importPrada)
export(importSoapfuse)
export(importStarfusion)
export(partnerGeneEnsemblId)
export(partnerGeneJunctionSequence)
export(plotCircle)
export(plotFusion)
export(plotFusionReads)
export(plotFusionSeparate)
export(plotFusionTogether)
export(plotFusionTranscript)
export(plotFusionTranscriptsGraph)
export(plotTranscripts)
export(selectTranscript)
export(splitOnUtrAndAddFeature)
export(upstreamPartnerGene)
export(writeFusionReference)
exportClasses(Fusion)
exportClasses(PartnerGene)
import(BiocStyle)
import(Biostrings)
import(GenomicRanges)
import(Gviz)
import(IRanges)
import(RCircos)
import(graphics)
import(methods)
import(org.Hs.eg.db)
import(readr)
importFrom(AnnotationFilter,GeneIdFilter)
importFrom(DT,datatable)
importFrom(S4Vectors,mcols)
importFrom(ensembldb,EnsDb)
importFrom(ensembldb,exonsBy)
importFrom(plyr,ldply)
