sampleRandomRegions: Sample random regions of fixed length.

In fmicompbio/monaLisa: Binned Motif Enrichment Analysis and Visualization

Sample random regions of fixed length.

Description

Sample random regions from the mappable parts of the genome with a given fraction from CpG islands.

Usage

sampleRandomRegions(allowedRegions = NULL, N = 100L, regWidth = 200L)

Arguments

allowedRegions	An unstranded GRanges object of the "allowed" of the genome, usually the mappable regions.
N	Number of regions to sample.
regWidth	Region width.

Details

In order to make the results deterministic, set the random number seed before calling sampleRandomRegions using set.seed.

Value

A GRanges object with randomly sampled mappable regions of width regWidth with fractionCGI coming from CpG islands.

Examples

regs <- GenomicRanges::GRanges(
  seqnames = rep(c("chr1", "chr2"), each = 2), 
  ranges = IRanges::IRanges(start = 1:4, end = 5:8))
set.seed(123)
sampleRandomRegions(regs, N = 2, regWidth = 3L)

fmicompbio/monaLisa documentation built on July 10, 2024, 8:44 a.m.