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Package: Ringo
Type: Package
Title: R Investigation of ChIP-chip Oligoarrays
Version: 1.36.0
Date: 2016-03-07
Author: Joern Toedling, Oleg Sklyar, Tammo Krueger, Matt Ritchie, Wolfgang Huber
Maintainer: J. Toedling <jtoedling@yahoo.de>
Depends: methods, Biobase (>= 1.14.1), RColorBrewer, limma, Matrix,
grid, lattice
Imports: BiocGenerics (>= 0.1.11), genefilter, limma, vsn, stats4
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
NeedsCompilation: yes
Packaged: 2016-05-04 02:59:17 UTC; biocbuild
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providing 
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