[BioC] Affy SNP array analysis

Holger Schwender holger.schw at gmx.de
Fri Sep 12 01:54:40 MEST 2003

I think this is a very interesting idea, and I might probably contribute to
such a package since I'm currently working on a project that is concerned
with SNP data (mainly cluster and classification analysis, no SNP detection).
But I'm only interested in co-authoring such a package. So if anyone else is
interested in making a package for SNP analysis, please send me an email.

I have already written some function, but I've just started.

> >
> > As you may or may not know, Affy now has an array for SNP mapping. Are
> > there plans to make a package for analyzing this sort of data, or is
> > this too far afield from gene expression to fall under the Bioconductor
> > umbrella?
> I would say this is less a question of falling under an umbrella
> (Bioconductor is directed at general computational biology) and more
> a question of resources.  We have a lot of work to do to stabilize
> and deploy the next release.
> I have yet to see data from these SNP chips;
> if there are any public resources that will help us to consider
> class design and basic strategies, please let us know.  The
> genotyping chips are probably a good opportunity for someone
> looking to make an impact on the project.
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