[BioC] package to analize vcn data

[James W. MacDonald]

Glazko, Galina wrote:
> Dear list,
> 
>  
> 
> I have Affy SNP v.5.0 data and I need to do copy number variation
> analysis.
> 
> This type of analysis is new for me and I would greatly appreciate if
> someone can share experience...
> 
>  
> 
> - Is there Bioconductor package for Affy SNP v.5.0 chip?

Theoretically the oligo package. However you would need a pd.package for 
this chip, and none AFAIK exists right now.

You might take a look at aroma.affymetrix, which is supposed to handle 
this chip type.

Best,

Jim


> 
> - Is there a package to do vcn analysis?
> 
>  
> 
> Thank you!
> 
> Best regards
> 
> Galina
> 
>  
> 
>  
> 
> 
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> 
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-- 
James W. MacDonald, M.S.
Biostatistician
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623