[BioC] Affymetrix CDF Packages

[Laurent Gautier]

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 those things (and avoid people to
ask the same question). The package 'affy' went through major changes.
One is that the information concerning the probe locations on a chip
were extracted from the CDF files and stored in packages. This allows us
to have a mechanism to link the right CDF information directly from the
CEL file (and free the user to do it). This implementation also
reduces a bit the memory usage (not everything contained in CDF is
stored, only enough to know what is where) and improves the performances
during lookups (speed). There are other advantages, which will be
revealed in time...

If one wants to be on the bleeding edge, it is should be already
possible to do something with the devel version, but please be aware
that we are still working on the toy.


What are these packages could be stated somewhere on the websitei may be
(like on the page where one can download the CDF packages ?).



Laurent




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