convert a GTF file into a GRangesList

Description

Outputs GRangesList object from reading a GTF file

Usage

readFromGTF(file)

Arguments

Value

grlist a GRangesList object, with two columns

• TXNAME specifying prefix for new gene Ids (genePrefix.number), defaults to empty

• GENEID indicating whether filter to remove read classes which are a subset of known transcripts(), defaults to TRUE

Examples

gtf.file <- system.file("extdata",
    "Homo_sapiens.GRCh38.91_chr9_1_1000000.gtf",
    package = "bambu"
)
readFromGTF(gtf.file)