multiTopTab: Combine one or more toptables extracted from linear model fit

In jdreyf/ezlimma: Streamlines and extends limma package

Combine one or more toptables extracted from linear model fit

Description

Combine one or more toptables extracted from fit using eztoptab.

Usage

multiTopTab(
  fit,
  cols = c("P.Value", "adj.P.Val", "logFC"),
  adjust.method = "BH"
)

Arguments

fit	Object of class MArrayLM as produced by lmFit then eBayes.
cols	Columns of topTable output to include. Possibilities include "logFC", "AveExpr", "z", "t", "P.Value", "adj.P.Val", "B". Some of these column names are then changed here. If logFC is specified, FC will automatically also be given.
adjust.method	Method used to adjust the p-values for multiple testing. Options, in increasing conservatism, include "none", "BH", "BY", and "holm". See p.adjust for the complete list of options. A NULL value will result in the default adjustment method, which is "BH".

Value

Data frame

See Also

eztoptab.

jdreyf/ezlimma documentation built on March 3, 2024, 4:23 a.m.