Bioconductor version: 2.7
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 <joern.toedling at curie.fr>
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("Ringo")
To cite this package in a publication, start R and enter:
citation("Ringo")
Common Bioconductor workflows include:
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