[BioC] BioC packages for Human Gene 1.0 ST arrays

[Groot, Philip de]

Hello Jean,
 
You can use the same packages if you use hugene10stv1.r3cdf <http://bioconductor.org/packages/2.5/data/annotation/html/hugene10stv1.r3cdf.html> .
Loading the .CEL-files is done as follows:
 
x <- ReadAffy(cdfname="hugene10stv1.r3cdf <http://bioconductor.org/packages/2.5/data/annotation/html/hugene10stv1.r3cdf.html> ")
 
Alternatively, you can use the MBNI Custom CDF files which contain remapped probes in newly defined probesets.
More info: http://nugo-r.bioinformatics.nl/NuGO_R.html
 
Regards,
 
Dr. Philip de Groot Ph.D.
Bioinformatics Researcher

Wageningen University / TIFN
Nutrigenomics Consortium
Nutrition, Metabolism & Genomics Group
Division of Human Nutrition
PO Box 8129, 6700 EV Wageningen
Visiting Address: Erfelijkheidsleer: De Valk, Building 304
Dreijenweg 2, 6703 HA  Wageningen
Room: 0052a
T: +31-317-485786
F: +31-317-483342
E-mail:   Philip.deGroot at wur.nl <mailto:Philip.deGroot at wur.nl> 
Internet: http://www.nutrigenomicsconsortium.nl <http://www.nutrigenomicsconsortium.nl/> 
             http://humannutrition.wur.nl <http://humannutrition.wur.nl/> 
             https://madmax.bioinformatics.nl <https://madmax.bioinformatics.nl/> 
 
 
 

________________________________

From: jiayu wen [mailto:jiayu.jean.wen at gmail.com]
Sent: Wed 7-4-2010 7:46
To: bioconductor
Subject: [BioC] BioC packages for Human Gene 1.0 ST arrays



Dear list,

I used ReadAffy, vsnrma, nsFilter, and Limma to analyze hgu133plus2 
arrays.
What is the equivalent package to analyze Human Gene 1.0 ST arrays? 
Thanks.

Jean
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