Package: Ringo
Type: Package
Title: R Investigation of ChIP-chip Oligoarrays
Version: 1.12.0
Date: 2010-04-19
Author: Joern Toedling, Oleg Sklyar, Tammo Krueger, Matt Ritchie,
        Wolfgang Huber
Maintainer: J. Toedling <joern.toedling@curie.fr>
Depends: methods, Biobase (>= 1.14.1), RColorBrewer, limma, Matrix,
        grid
Imports: genefilter, limma, vsn
Suggests: rtracklayer (>= 1.3.1), mclust, topGO (>= 1.15.0)
Description: 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.
Reference: Joern Toedling, Oleg Sklyar, Tammo Krueger, Jenny J.
        Fischer, Silke Sperling, and Wolfgang Huber (2007). Ringo - an
        R/Bioconductor package for analyzing ChIP-chip readouts. BMC
        Bioinformatics, 8:221.
License: Artistic-2.0
biocViews:
        Microarray,TwoChannel,DataImport,QualityControl,Preprocessing
LazyLoad: yes
Packaged: 2010-04-23 08:17:50 UTC; biocbuild
Built: R 2.11.0; x86_64-pc-mingw32; 2010-04-23 13:09:02 UTC; windows
