methylation_gtrellis: Plot coverage and methylation for a single sample

In jokergoo/epik: Integrative Analysis and Visualization of Epigenomic Sequencing Data

Description

Plot coverage and methylation for a single sample

Usage

methylation_gtrellis(sid, chromosome = paste0("chr", 1:22),
    species = "hg19", nw = 10000, pch = 16, pt_gp = gpar(size = unit(1, "mm")), transparency = 0.8,
    title = qq("Distribution of CpG coverage and methylation for @{sid}"), ...)

Arguments

sid	a single sample ID
chromosome	a vector of chromosome names
species	species
nw	number of windows to segment the genome
pch	point type
pt_gp	graphic parameters for points (col will be excluded)
transparency	transparency of points
title	title of the plot
...	pass to gtrellis_layout

Details

The whole genome is segented by nw windows and mean methylation and mean CpG coverage are visualized as two tracks.

Value

No value is returned.

Author(s)

Zuguang Gu <[e-mail]>

See Also

methylation_gtrellis_multiple_samples visualizes methylation for multiple samples.

Examples

# There is no example
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jokergoo/epik documentation built on Sept. 28, 2019, 9:20 a.m.