Cdf For Affymetrix Mouse Gene St 2.0?

Question

[Adam Cornwell]

We just got some new data back on Affy Mogene 2.0 ST arrays. I know this design has only been out for a couple of months, but does anyone know of any CDF files available that will work fine with Bioconductor? It looks like there's a chance of being able to get one of the files Affy provides in the library zip to work with Aroma, but I haven't done that before. Otherwise it looks like I'll have to learn about creating CDFs in short order... I'm surprised there isn't much info out on these yet, then again the previous version has been around for years instead of just a couple of months.

Answer 1

[Robert]

I use Partek Genomics Suite which automatically downloads the most up-to-date CDF. Not sure if they pull it from Affy's website or from Partek's...

Answer 2

[UnivStudent]

http://nmg-r.bioinformatics.nl/NuGO_R.html Has the cdf you are looking for that can be installed in R. Might have some of the annotation as well but those can be easily downloaded from NetAffx too.

[Adam Cornwell]

Thanks! I've seen that site before but it wasn't coming up in search results. That did the trick.

[Nathaniel]

How can the CDF be loaded using the 'oligo' package?