diffAnaLimma {DAPAR} | R Documentation

## 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

### Author(s)

Florence Combes, Samuel Wieczorek

### Examples

    require(DAPARdata)
    data(Exp1_R25_pept)
    condition1 <- '25fmol'
    condition2 <- '10fmol'
    qData <- Biobase::exprs(Exp1_R25_pept[1:1000])
    samplesData <- Biobase::pData(Exp1_R25_pept[1:1000])
    labels <- Biobase::pData(Exp1_R25_pept[1:1000])[,"Label"]
    diffAnaLimma(qData, samplesData, labels, condition1, condition2)

[Package DAPAR version 1.10.4 Index]