meffil.ewas.summary: Summarize EWAS results.

In perishky/meffil: Efficient algorithms for DNA methylation

Summarize EWAS results.

Description

Generates variable and covariate summary tables, QQ plots, Manhattan plots, a list of associations, plots of the strongest associations and plots of selected CpG sites.

Usage

meffil.ewas.summary(
  ewas.object,
  beta,
  selected.cpg.sites = character(0),
  parameters = meffil.ewas.parameters(),
  verbose = T
)

Arguments

ewas.object	From meffil.ewas().
beta	Methylation levels used in the analysis, either a matrix with one row per CpG site and one column per sample or the filename of a GDS file (Genomic Data Structure).
selected.cpg.sites	Vector of CpG site names to plot (Default: character(0)).
parameters	Default = meffil.ewas.parameters(). List of parameter values. See meffil.ewas.parameters().

Value

List

perishky/meffil documentation built on June 9, 2024, 5:59 p.m.