R: iTRAQ two group analysis

iTRAQ2GroupAnalysis {protViz} | R Documentation

## iTRAQ two group analysis

### Description

The function performes a two group analysis with a t-test for data sets like `iTRAQ`. Result files are generated where the 2 groups are compared for each protein, while a p-value is calculated. If plot equals TRUE, the boxplots are drawn.

### Usage

        iTRAQ2GroupAnalysis(data, group1, group2,
            INDEX, FUN=function(x){return(x)}, plot)

### Arguments

`data` | a data set like iTRAQ.
`group1` | a vector of column ids.
`group2` | a vector of column ids.
`INDEX` | list of factors, each of same length as `X`. The elements are coerced to factors by `as.factor`.
`FUN` | function for doing the data transformation, e.g. log, asinh.
`plot` | boolean. if TRUE boxplots are drawn.

### Details

t.b.d.

### Author(s)

Christian Panse, Jonas Grossmann 2011

### Examples

           data(iTRAQ)
           par(mfrow=c(2,3))
           qProt<-iTRAQ2GroupAnalysis(data=iTRAQ,
            group1=c(3,4,5,6),
            group2=7:10, INDEX=iTRAQ$prot, plot=TRUE)
           qProt
           qPeptide<-iTRAQ2GroupAnalysis(data=iTRAQ,
            group1=c(3,4,5,6),
            group2=7:10,
            INDEX=paste(iTRAQ$prot,iTRAQ$peptide), plot=FALSE)

[Package protViz version 0.2.45 Index]