normalise {soGGi} | R Documentation

## Normalise ChIPprofiles

### Description

Various normalisation methods for ChIPprofile objects

### Usage

    ## S4 method for signature 'ChIPprofile'
    normalise(object)

    ## S4 method for signature 'ChIPprofile,character,numeric'
    normalise(object = "ChIPprofile",
      method = "rpm", normFactors = NULL)

### Arguments

`object` | A ChIPprofile object
`method` | A character vector specifying normalisation method. Currently "rpm" for normalising signal for BAM to total reads, "quantile" to quantile normalise across samples, "signalInRegion" to normalise to proportion of signal within intervals, "normaliseSample" to normalise across samples and "normaliseRegions" to apply a normalisation across intervals.
`normFactors` | A numeric vector used to scale columns or rows.

### Value

A ChIPprofile object

### Author(s)

Thomas Carroll

### Examples

    data(chipExampleBig)
    normalise(chipExampleBig,method="quantile",normFactors=1)

[Package soGGi version 1.24.1 Index]