limmaCompleteTest {DAPAR} | R Documentation

## Computes a hierarchical differential analysis

### Description

This function is a limmaCompleteTest

### Usage

    limmaCompleteTest(qData, Conditions, RepBio, RepTech, Contrast = 1)

### Arguments

`qData` | A matrix of quantitative data, without any missing values.
`Conditions` | A vector of factor which indicates the name of the biological condition for each replicate.
`RepBio` | A vector of factor which indicates the number of the bio rep for each replicate.
`RepTech` | A vector of factor which indicates the number of the tech rep for each replicate.
`Contrast` | 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

fdsfdgfdg

### Author(s)

Quentin Giai-Gianetto

### Examples

    require(DAPARdata)
    data(Exp1_R25_pept)
    obj <- wrapper.mvImputation(Exp1_R25_pept[1:1000], "QRILC")
    condition1 <- '25fmol'
    condition2 <- '10fmol'
    qData <- Biobase::exprs(obj)
    RepBio <- RepTech <- factor(1:6)
    conds <- factor(c(rep(condition1, 3), (rep(condition2, 3))))
    limma <- limmaCompleteTest(qData,conds,RepBio, RepTech)

[Package DAPAR version 1.10.4 Index]