sort_gff3: Sorts a GFF3 file

In Rgff: R Utilities for GFF Files

Sorts a GFF3 file

Description

This function produces a sorted GFF3 file from an unsorted GFF3 file. The output file will be sorted by Chromosome, Start, End (reverse) and feature (based on the precedency in feature tree)

Usage

sort_gff3(gffFile, outFile, forceOverwrite = FALSE)

Arguments

gffFile	Path to the input GFF3 file
outFile	Path to the output GFF3 file, if not provided the output will be the input path (without extension) with the suffix sorted.gff3
forceOverwrite	If output file exists, overwrite the existing file. (default FALSE)

Value

Path to the sorted GFF3 file

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