[BioC] cdf file

[Mark Robinson]

Hi Jan.

There is actually an "unsupported" version of the CDF file available  
from Affy at:
http://www.affymetrix.com/support/technical/libraryfilesmain.affx

AFAIK, Bioconductor does not provide CDF environments for these chips.

One option is to build the environments yourself, e.g. the oligo/ 
pdInfoBuilder route:
http://article.gmane.org/gmane.science.biology.informatics.conductor/18963/

Another option is to use the aroma.affymetrix R package:
http://groups.google.com/group/aroma-affymetrix/

... within that, there is a CDF file available from:
http://groups.google.com/group/aroma-affymetrix/web/ragene-1-0-st-v1

... and yet another R package you could try is 'xps':
http://article.gmane.org/gmane.science.biology.informatics.conductor/17839/

Cheers,
Mark




On 11/08/2008, at 1:58 PM, <Jan.Shaw at csiro.au> <Jan.Shaw at csiro.au>  
wrote:

> Dear Bioconductor
>
> I am looking for a cdf file for the Rat Gene 1.0 ST Array.  There is
> none available on the Affymetrix website and none on the Bioconductor
> website.  Can you help me?
>
> Regards
> Jan Shaw
> CSIRO
>
> 	[[alternative HTML version deleted]]
>
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------------------------------
Mark Robinson
Epigenetics Laboratory, Garvan
Bioinformatics Division, WEHI
e: m.robinson at garvan.org.au
e: mrobinson at wehi.edu.au
p: +61 (0)3 9345 2628
f: +61 (0)3 9347 0852