Package: Starr
Version: 1.6.0
Date: 2009-10-12
Title: Simple tiling array analysis of Affymetrix ChIP-chip data
Author: Benedikt Zacher, Johannes Soeding, Pei Fen Kuan, Matthias
        Siebert, Achim Tresch
Maintainer: Benedikt Zacher <zacher@lmb.uni-muenchen.de>
Depends: Ringo, affy, affxparser
Imports: pspline, MASS
Description: Starr facilitates the analysis of ChIP-chip data, in
        particular that of Affymetrix tiling arrays. The package
        provides functions for data import, quality assessment, data
        visualization and exploration. Furthermore, it includes
        high-level analysis features like association of ChIP signals
        with annotated features, correlation analysis of ChIP signals
        and other genomic data (e.g. gene expression), peak-finding
        with the CMARRT algorithm and comparative display of multiple
        clusters of ChIP-profiles. It uses the basic Bioconductor
        classes ExpressionSet and probeAnno for maximum compatibility
        with other software on Bioconductor. All functions from Starr
        can be used to investigate preprocessed data from the Ringo
        package, and vice versa. An important novel tool is the the
        automated generation of correct, up-to-date microarray probe
        annotation (bpmap) files, which relies on an efficient mapping
        of short sequences (e.g. the probe sequences on a microarray)
        to an arbitrary genome.
License: Artistic-2.0
biocViews:
        Microarray,OneChannel,DataImport,QualityControl,Preprocessing,ChIPchip
LazyLoad: yes
Packaged: 2010-10-19 23:09:38 UTC; biocbuild
Built: R 2.12.0; universal-apple-darwin9.8.0; 2010-10-20 05:12:22 UTC; unix
Archs: i386, ppc, x86_64
