Remove transcript duplicates

Description

Removes Structural duplicates of transcripts in a GRanges object Note that duplicates must have different transcript ids.

Usage

removeDuplicateTranscripts(transcripts)

Arguments

Value

GRanges object with unique transcript structures in exon form

Author(s)

Beth Signal

See Also

Other gtf manipulation: UTR2UTR53, addBroadTypes, exonsToTranscripts, filterGtfOverlap, removeSameExon, reorderExonNumbers

Examples

gtf <- rtracklayer::import(system.file("extdata","example_gtf.gtf",
package = "GeneStructureTools"))
exons <- gtf[gtf$type=="exon"]
exons.altName <- exons
exons.altName$transcript_id <- paste(exons.altName$transcript_id, "duplicated", sep="_")
exons.duplicated <- c(exons, exons.altName)
length(exons.duplicated)
exons.deduplicated <- removeDuplicateTranscripts(exons.duplicated)
length(exons.deduplicated)