sort_gtf: Sorts a GTF file

In Rgff: R Utilities for GFF Files

Sorts a GTF file

Description

This function produces a sorted GTF file from an unsorted GTF file. The default order is by Chromosome, Start, End (reverse) and feature (gene -> transcript -> OTHERS)

Usage

sort_gtf(gtfFile, outFile, forceOverwrite = FALSE)

Arguments

gtfFile	Path to the input GTF file
outFile	Path to the output GTF file, if not provided the output will be the input path (without extension) with the suffix sorted.gtf
forceOverwrite	If output file exists, overwrite the existing file. (default FALSE)

Value

Path to the sorted GTF file

Rgff documentation built on Sept. 30, 2022, 5:08 p.m.