[BioC] Human Gene 1.0ST v1 package

[Mark Robinson]

Dorothy.

You have a few options in R/BioC:

1. aroma.affymetrix -- see:
http://groups.google.com/group/aroma-affymetrix/
http://groups.google.com/group/aroma-affymetrix/web/human-exon-array-analysis 
  (very similar to this)

2. oligo/pdInfoBuilder -- see:
http://article.gmane.org/gmane.science.biology.informatics.conductor/18963

3. xps -- see:
http://www.bioconductor.org/packages/2.3/bioc/html/xps.html

Each of these will allow you to do some fairly standard things ...  
background correct, normalization, RMA summarization, QC plots, etc.   
Each requires a bit of setup.

... and there are probably others ...

Cheers,
Mark



On 25/11/2008, at 12:17 PM, dorothyc wrote:

> Hi,
> I'm a computational biologist at Genome Sciences Centre, Vancouver,  
> BC, Canada.  I'm working on the Affymetrix Human Gene 1.0 ST v1.
>
> I'd like to do the normalization, QC report, and fold-change with  
> R.  I'm wondering if there is a package in BioConductor for this  
> array.
>
> Thanks,
> Dorothy
>
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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
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