rowScaling {qPLEXanalyzer} | R Documentation

## Normalization by scaling peptide/protein intensity across all samples

### Description

Divide each peptide/protein by the row mean/median and transform to log2

### Usage

    rowScaling(MSnSetObj, scalingFunction)

### Arguments

`MSnSetObj` | MSnSet; an object of class MSnSet
`scalingFunction` | function; median or mean

### Value

An object of class `MSnSet` (see `MSnSet-class`).

### Examples

    data(human_anno)
    data(exp3_OHT_ESR1)
    MSnSet_data <- convertToMSnset(exp3_OHT_ESR1$intensities_qPLEX1,
                                   metadata=exp3_OHT_ESR1$metadata_qPLEX1,
                                   indExpData=c(7:16),
                                   Sequences=2,
                                   Accessions=6)
    MSnset_norm <- rowScaling(MSnSet_data, scalingFunction=median)

[Package qPLEXanalyzer version 1.8.2 Index]