rankIvariantNormalise {beadarray} | R Documentation

## Rank Invariant Normalisation for Bead Summary data

### Description

Normalise expression matrix using rank invariant genes

### Usage

    rankInvariantNormalise(exprs, T)

### Arguments

`exprs` | An expression matrix from an ExpressionSet object
`T` | A target distribution vector used to normalise to. The default is NULL in which case the average quantiles are used

### Details

Using the normalize.invariantset from affy, we find a list of rank invariant genes whose rank does not change significantly between the columns of exprs. We then fit a normalising curve to each array using the values of the rank invariant genes of the array and a target distribution.

The target distribution may be specified by the user and by default is the vector of average quantiles across all arrays.

### Value

Expression matrix with the same dimensions as the input

### Author(s)

Mark Dunning

### Examples

    data(BSData)

    BSData.ri  = assayDataElementReplace(BSData, "exprs", rankInvariantNormalise(exprs(BSData)))

[Package beadarray version 1.6.0 Index]