DAPAR (version 1.4.7)

diffAnaLimma: Performs differential analysis on an MSnSet object, calling the limma package functions

Description

Method to perform differential analysis on an MSnSet object (calls the limma package function).

Usage

diffAnaLimma(qData, samplesData, labels, condition1, condition2)

Arguments

qData

A dataframe that contains quantitative data.

samplesData

A dataframe where lines correspond to samples and columns to the meta-data for those samples.

labels

A vector of the conditions (labels) (one label per sample).

condition1

A vector that contains the names of the conditions considered as condition 1

condition2

A vector that contains the names of the conditions considered as condition 2

Value

A dataframe as returned by the limma package

Examples

data(UPSpep25)
condition1 <- '25fmol'
condition2 <- '10fmol'
qData <- Biobase::exprs(UPSpep25)
samplesData <- Biobase::pData(UPSpep25)
labels <- Biobase::pData(UPSpep25)[,"Label"]
diffAnaLimma(qData, samplesData, labels, condition1, condition2)