normalizeD {DAPAR} | R Documentation

## Normalisation

### Description

Provides several methods to normalize data from a matrix. They are organized in four main families : Strong Rescaling, Median Centering, Mean Centering, Mean CenteringScaling. For the first family, two sub-categories are available : the sum by columns and the quantiles method. For the three other families, two categories are available : "overall" which means that the value for each protein (ie line in the expression data tab) is computed over all the samples ; "within conditions" which means that the value for each protein (ie line in the matrix) is computed condition by condition.

### Usage

    normalizeD(qData, labels, family, method)

### Arguments

`qData` | A dataframe that contains quantitative data.
`labels` | A vector of strings containing the column "Label" of the `pData()`.
`family` | One of the following : Global Alignment, Median Centering, Mean Centering, Mean Centering Scaling.
`method` | "Overall" or "within conditions".

### Value

A matrix normalized

### Author(s)

Florence Combes, Samuel Wieczorek

### Examples

    require(DAPARdata)
    data(Exp1_R25_pept)
    qData <- Biobase::exprs(Exp1_R25_pept[1:1000])
    labels <- Biobase::pData(Exp1_R25_pept[1:1000])[,"Label"]
    normalizeD(qData, labels, "Median Centering", "within conditions")

[Package DAPAR version 1.10.4 Index]