Normalisedaveragepeaksignal-methods {ChIPQC} | R Documentation

## Retrieve normalised average peak profiles

### Description

Retrieve normalised average peak profiles

### Methods

`signature(object = "ChIPQCexperiment")`

  Retrieve a `matrix` of normalised average peak signal data for all samples in a ChIP-seq experiment. Each column represents a sample, and each row a base pair position, centered on peak summits.

`signature(object = "list")`

  Retrieve a `matrix` of normalised average peak signal data for all samples in a list of ChIPQCsample objects. Each column represents a sample, and each row a base pair position, centered on peak summits.

`signature(object = "ChIPQCsample")`

  Retrieve a `vector` representing the normalised average peak profile for a sample. Each column represents a basepair position, centered on the peak summits.

### Author(s)

Thomas Carroll and Rory Stark

### See Also

ChIPQC-package, ChIPQCexperiment, ChIPQCsample

### Examples

    data(example_QCexperiment)
    CTCFprofile = Normalisedaveragepeaksignal(QCsample(exampleExp,1))
    length(CTCFprofile)
    plot(CTCFprofile,type='l',ylab="normalised mean pileup")

    allprofiles = Normalisedaveragepeaksignal(exampleExp)
    dim(allprofiles)
    for(i in 1:ncol(allprofiles)) lines(allprofiles[,i],col=i)

[Package ChIPQC version 1.28.0 Index]