clean_gff: Clean up data from a gff file and convert to bed format

In joelnitta/baitfindR: Find Baits for Sequence Capture

Description

Helper function for 'find_bed_regions'. Merges overlapping regions and sorts regions.

Usage

clean_gff(region, check.chr = FALSE, verbose = FALSE)

Arguments

region	Dataframe; list of gene regions in "bed" format. Must include the following columns in order: ‘chr' (’chromosome', character), 'start' (start position, numeric), and 'end' (end position, numeric).
check.chr	Logical; should coordinates be checked for chromosomal format with "chr" prefix?
verbose	Logical; should 'bedr' functions output all messages?

Value

Dataframe in "bed" format.

joelnitta/baitfindR documentation built on May 7, 2020, 6:21 p.m.