Package: Ringo
Type: Package
Title: R Investigation of ChIP-chip Oligoarrays
Version: 1.18.0
Date: 2011-06-03
Author: Joern Toedling, Oleg Sklyar, Tammo Krueger, Matt Ritchie, Wolfgang Huber
Maintainer: J. Toedling <j.toedling@imb-mainz.de>
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: 2011-11-01 07:52:00 UTC; biocbuild
Built: R 2.14.0; i386-pc-mingw32; 2011-11-01 12:47:11 UTC; windows
Archs: i386, x64
