[BioC] mouse4302,db_2.0.2 in AffylmGUI

[Keith Satterley]

Richard,

You don't supply output from sessionInfo() so I can't tell what versions you have.

packageDescription("mouse4302.db")

will give you information about your currently installed mouse4302.db package.

To install mouse4302.db, use:

source("http://bioconductor.org/biocLite.R")
biocLite("mouse4302.db")

I'm using R-2.6.2 on Windows and it installed:
http://bioconductor.org/packages/2.1/data/annotation/bin/windows/contrib/2.6/mouse4302.db_2.0.2.zip


hope that helps

cheers,

Keith

========================
Keith Satterley
Bioinformatics Division
The Walter and Eliza Hall Institute of Medical Research
Parkville, Melbourne,
Victoria, Australia
=======================

Richard Friedman wrote:
> Dear Bioconductor users,
> 
> 	I want the most uptodate annotation for the mouse 4302 chip.
> As far as  know that is mouse4302,db_2.0.2. However when I use
> AffylmGUI it automatically loads mouse4302_2.0.1.
> 
> My questions:
> 
> 1. Is there any way to get afflmGUI to load  mouse4302,db_2.0.2 instead.
> 
> OR
> 
> 2. Failing, that I have not been able to combine the limma output with
> selected columns of the annotation in the R command line. Pragmatically
> I have been using afflmGUI to get the annotation file or downloading  
> it from
> thee affy web site and merging it in excel. any quick code to do this
> entirely in the command line would be appreciated. I have not been
> successful in applying the code in "Bioinformatics and Computational
> Biology Solutions..."  to this purpose.
> 
> Any suggestions would be appreciated.
> 
> Thanks and best wishes,
> Rich
> ------------------------------------------------------------
> Richard A. Friedman, PhD
> Associate Research Scientist,
> Biomedical Informatics Shared Resource
> Herbert Irving Comprehensive Cancer Center (HICCC)
> Lecturer,
> Department of Biomedical Informatics (DBMI)
> Educational Coordinator,
> Center for Computational Biology and Bioinformatics (C2B2)/
> National Center for Multiscale Analysis of Genomic Networks (MAGNet)
> Box 95, Room 130BB or P&S 1-420C
> Columbia University Medical Center
> 630 W. 168th St.
> New York, NY 10032
> (212)305-6901 (5-6901) (voice)
> friedman at cancercenter.columbia.edu
> http://cancercenter.columbia.edu/~friedman/
> 
> In Memoriam,
> Arthur C. Clarke
> 
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