bedr (version 1.1.3)

get.random.regions: generates a set of random regions

Description

generates a set of random regions for a specific species/build. Choices are human (hg18, hg19), mouse(mm9, mm10). regions are sampled from a log-normal distribution.

Usage

get.random.regions(
	n = 10,
	chr = NULL,
	species = "human",
	build = "hg19",
	size.mean = 10,
	size.sd = 0.25,
	mask.gaps = FALSE,
	mask.repeats = FALSE,
	sort.output = TRUE,
	verbose = TRUE
	)

Arguments

n

number of regions

chr

the chr or region

species

species

build

build

size.mean

region mean in log space

size.sd

region sd in log space

mask.gaps

should the gaps (Ns) in the human reference be ignored as potential start points. This drammatically increases memory and run time but is more appropriate in almost all settings. By default it's off.

mask.repeats

should the repeats from repeatMasker be ignored as potential start points. This drammatically increases memory and run time but is more appropriate in almost all settings. By default it's off.

sort.output

return a sorted index

verbose

words

Author

Daryl Waggott

Examples

test.regions <- get.random.regions(100)