R: Density Plot of beta-Values

plot_density {methrix}

R Documentation

Density Plot of β-Values

Density Plot of β-Values

plot_density(m, ranges = NULL, n_cpgs = 25000, pheno = NULL,
  bw.adjust = 2, col_palette = "RdYlGn")

`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.
`bw.adjust`	Multiplicate bandwide adjustment. See `geom_density` for more information
`col_palette`	Name of the RColorBrewer palette to use for plotting.

ggplot2 object

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

[Package methrix version 1.1.0 Index]