make.contrast {DAPAR} | R Documentation

## Builds the contrast matrix

### Description

This function builds the contrast matrix

### Usage

    make.contrast(design, condition, contrast = 1)

### Arguments

`design` | The data.frame which correspond to the pData function of MSnbase
`condition` | xxxxx
`contrast` | An integer that Indicates if the test consists of the comparison of each biological condition versus each of the other ones (Contrast=1; for example H0:"C1=C2" vs H1:"C1!=C2", etc.) or each condition versus all others (Contrast=2; e.g. H0:"C1=(C2+C3)/2" vs H1:"C1!=(C2+C3)/2", etc. if there are three conditions).

### Value

A constrat matrix

### Author(s)

Thomas Burger, Quentin Giai-Gianetto, Samuel Wieczorek

### Examples

    utils::data(Exp1_R25_pept, package='DAPARdata')
    design <- make.design(Biobase::pData(Exp1_R25_pept))
    conds <- Biobase::pData(Exp1_R25_pept)$Condition
    make.contrast(design, conds)

[Package DAPAR version 1.18.5 Index]