get_intergenic_regions: Get intergenic regions

In hochwagenlab/hwglabr2: Collection of R functions used in the Hochwagen Lab

Get intergenic regions

Description

Returns table of intergenic regions for specified genome.

Usage

get_intergenic_regions(genome, as_gr = FALSE)

Arguments

genome	Character object specifying the reference genome; accepts one of the following options: "SK1Yue" "sacCer3" "SK1" No default.
as_gr	Logical specifying whether the output should be returned as a GRanges object. If FALSE, output is a data.frame. Can only be used if genome="SK1Yue", because "SK1" and "sacCer3" contain overlapping genes, resulting in negative intervals (not allowed by IRanges). Defaults to FALSE.

Value

R data frame containing coordinates and annotations for all intergenic regions in the genome.

Examples

## Not run: 
get_intergenic_regions(genome='SK1Yue')

get_intergenic_regions(genome='sacCer3')


## End(Not run)

hochwagenlab/hwglabr2 documentation built on Nov. 12, 2022, 7:27 p.m.