[BioC] Exon Array analysis

[Mark Robinson]

Hi Junjie.

As far as I know, 'affylmGUI' only works on the Affy chips that the  
'affy' package works on (e.g. older ones like U133, 4302, etc.)

You do have a few options for Exon 1.0 ST in Bioconductor and beyond.   
Perhaps a good starting point is the 'workflow' page on the BioC site:
http://www.bioconductor.org/docs/workflows/oligoarrays/

A non-BioC alternative that has lots of support for Affy arrays in  
general and Affy Exon 1.0 in particular is aroma.affymetrix:
http://groups.google.com/group/aroma-affymetrix/
http://groups.google.com/group/aroma-affymetrix/web/human-exon-array-analysis

Hope that helps.

Cheers,
Mark


On 09/04/2009, at 8:14 AM, Junjie Guo wrote:

> Hi, I'm a grad student at Johns Hopkins Univ. We are trying to  
> analyze our
> affymetrix Exon Array 1.0 data using affylmGUI. But it seems  
> bioconductor
> does not have the CDF file for this array. Do you have any advice  
> for me?
>
> Information of this microarray:
>
> http://www.affymetrix.com/products_services/arrays/specific/mouse_exon.affx#1_4
>
>
> Thanks a lot!
> -Junjie
>
>
> -- 
> ____________________________________________
> Junjie U. Guo, Graduate Student
> The Solomon H. Snyder Department of Neuroscience
> The Johns Hopkins University School of Medicine
>
> 733 N. Broadway, BRB 706
> Institute for Cell Engineering - NeuroICE
> Hongjun Song Laboratory
> Baltimore, MD 21205
>
> guojj at jhmi.edu
>
> 	[[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
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