writeToGTF: write GRangeslist into GTF file

In GoekeLab/bambu: Context-Aware Transcript Quantification from Long Read RNA-Seq data

write GRangeslist into GTF file

Description

Write annotation GRangesList into a GTF file

Usage

writeToGTF(annotation, file, geneIDs = NULL)

Arguments

annotation	a GRangesList object
file	the output gtf file name
geneIDs	an optional dataframe of geneIDs (column 2) with the corresponding transcriptIDs (column 1)

Value

gtf a GTF dataframe

Examples

outputGtfFile <- tempfile()
gr <- readRDS(system.file("extdata",
    "annotationGranges_txdbGrch38_91_chr9_1_1000000.rds",
    package = "bambu"
))
writeToGTF(gr, outputGtfFile)

GoekeLab/bambu documentation built on April 6, 2024, 10:36 p.m.