global_methylation_distribution: Global methylation distribution

In jokergoo/cotools: R functions

Description

Global methylation distribution

Usage

global_methylation_distribution(sample_id, annotation,
    annotation_color = structure(seq_along(unique(annotation)), names = unique(annotation)),
    ha = NULL, chromosome = paste0("chr", 1:22), by_chr = FALSE, max_cov = 100,
    background = NULL, p = 0.001)

Arguments

sample_id	a vector of sample ids
annotation	subtype information
annotation_color	color for subtypes
ha	additional annotation can be specified as a HeatmapAnnotation object
chromosome	chromosomes
by_chr	whether make the plot by chromosome
max_cov	maximum coverage (used to get rid of extremely high coverage which affect visualization of CpG coverage distribution)
background	background to look into
p	probability to randomly sample CpG sites

Details

It visualize distribution of methylation valus and CpG coverages through heatmaps.

Examples

# There is no example
NULL

jokergoo/cotools documentation built on May 19, 2019, 6:24 p.m.