[BioC] Affymetrix CDF Packages

[Rafael A. Irizarry]

also, if you use the hgu95av2 chip or the hgu133a chip you dont need
to download a sepearte cdf package. those two are included with the 
affy package. if you have a cdf file, e.g. a cumstom chip, 
that we havent created a package for let us now.

rafael
On Fri, 1 Nov 2002, Laurent Gautier wrote:

> On Thu, Oct 31, 2002 at 05:11:28PM -0500, Jeff Gentry wrote:
> > R packages for Affymetrix CDF data is now available on the Bioconductor
> > website at: http://www.bioconductor.org/data/cdfenvs/cdfenvs.html (as well
> > as the 'Affymetrix CDF Packages' link from the normal data page.  Please
> > contact Rafael Irizarry (rafa@jhu.edu) with questions regarding the
> > packages themselves, and myself if you have questions or problems relating
> > to downloading of these packages.
> > 
> > -Jeff
> > 
> 
> Just few words to explain what are these things. 
> The package 'affy' is under major changes. One of
> them is that the probes location information contained in CDF files
> is extracted from there and stored in a R data structure. This was done
> for all the CDF we could get a hand on, and packages were created.
> Advantages are:
> - automated linking from the CEL to the CDF information package
> - small improvement in memory using usage (complete CDF information are
>   no longer stored in memory when not necessary)
> - speed improvement when doing lookups.
> - other advantages that should be revealed in due time.
> 
> If one wants to be on the bleeding edge, the 'devel' version of affy
> can probably be already tried (but be aware that we are still working on
> it).
> 
> A short description of the nature of these packages should probably be
> included on the website (like on the page where one can download
> them)...
> 
> 
>