limmaTwoLevels {a4Base}R Documentation

Wrapper for the limma function for the comparison of two groups (two factor levels)

Description

Wrapper for the limma function for the comparison of two groups (two factor levels)

Usage

limmaTwoLevels(object, group, probe2gene = TRUE)

Arguments

object

object of class ExpressionSet

group

string indicating the variable defining the two groups to be compared

probe2gene

logical; if TRUE Affymetrix probeset IDs are translated into gene symbols; if FALSE no such translation is done

Value

S4 object of class 'limma' with the following two components:

MArrayLM

S4 object of class MArrayLM as returned by the limma function of the limma package

geneSymbols

character vector of gene symbols; this slot is only populated if probe2gene=TRUE (and if the ExpressionSet object is appropriately annotated by addGeneInfo for gene symbols to be extracted)

Note

A 'topTable' method is defined for 'limma' objects.

Author(s)

Tobias Verbeke and Willem Talloen


[Package a4Base version 1.41.0 Index]