plot_density: Density Plot of beta-Values

In CompEpigen/methrix: Fast and efficient summarization of generic bedGraph files from Bisufite sequencing

Density Plot of \beta-Values

Description

Density Plot of \beta-Values

Usage

plot_density(
  m,
  ranges = NULL,
  n_cpgs = 25000,
  pheno = NULL,
  col_palette = "RdYlGn"
)

Arguments

m	Input methrix object
ranges	genomic regions to be summarized. Could be a data.table with 3 columns (chr, start, end) or a GenomicRanges object
n_cpgs	Use these many random CpGs for plotting. Default 25000. Set it to NULL to use all - which can be memory expensive.
pheno	Column name of colData(m). Will be used as a factor to color different groups in the violin plot.
col_palette	Name of the RColorBrewer palette to use for plotting.

Value

ggplot2 object

Examples

data('methrix_data')
plot_density(m = methrix_data)

CompEpigen/methrix documentation built on July 24, 2024, 5:49 p.m.