Ringo

This package is for version 2.9 of Bioconductor; for the stable, up-to-date release version, see Ringo.

R Investigation of ChIP-chip Oligoarrays

Bioconductor version: 2.9

The package Ringo facilitates the primary analysis of ChIP-chip data. The main functionalities of the package are data read-in, quality assessment, data visualisation and identification of genomic regions showing enrichment in ChIP-chip. The package has functions to deal with two-color oligonucleotide microarrays from NimbleGen used in ChIP-chip projects, but also contains more general functions for ChIP-chip data analysis, given that the data is supplied as RGList (raw) or ExpressionSet (pre- processed). The package employs functions from various other packages of the Bioconductor project and provides additional ChIP-chip-specific and NimbleGen-specific functionalities.

Author: Joern Toedling, Oleg Sklyar, Tammo Krueger, Matt Ritchie, Wolfgang Huber

Maintainer: J. Toedling <j.toedling at imb-mainz.de>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("Ringo")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("Ringo")

Details

Package Archives

Follow Installation instructions to use this package in your R session.