Hi Ranger.
See comments below.
On 8-Jan-10, at 8:03 AM, rangerq wrote:
Hi,
I use aroma.affymetrix to process Human Gene 1.0 ST Array. In the step
of using custom cdf, I want to know that could I use the regular
HuGene ST cdf from Affymetrix instead of the one provided at here?
What are the different between unsupported cdf and the regular cdf?
Could you explain what does 'unsupported' mean? Which one that I can
trust to annotate my data?
The only difference between the CDF that Affy provides and the one
that you can download from the aroma.affymetrix site is that ours has
been converted to binary, allowing it to be read a LOT faster. The
content is identical. As far as the unsupported business goes,
Affymetrix doesn't support it. They make their annotation available
in a different format nowadays. However, that annotation is the same
(or at least it was when I last checked it):
http://www.mail-archive.com/[email protected]/msg00281.html
If I want to make my own cdf, are there some instructions?
Does this help?
http://groups.google.com/group/aroma-affymetrix/web/creating-cdf-files-from-scratch
Cheers,
Mark
Thanks,
ranger QI
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Mark Robinson, PhD (Melb)
Epigenetics Laboratory, Garvan
Bioinformatics Division, WEHI
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When reporting problems on aroma.affymetrix, make sure 1) to run the latest
version of the package, 2) to report the output of sessionInfo() and
traceback(), and 3) to post a complete code example.
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