[BioC] multicore processor

[Markus Schmidberger]

You also should have a look to Luke Tierney's website and his pnmath
code (using openMP):
http://www.cs.uiowa.edu/~luke/R/experimental/

And there is a new mailing list for HPC: R SIG on High-Performance
computing: r-sig-hpc at r-project.org.

And there is a lot of other stuff for parallelization in R and managing
big datasets: snow, Rmpi, affyPara, aroma.affymetrix, ...

And have a look to Dirks tutorial at the UseR2008. This should be a good
starting point for optimization in R:
http://www.statistik.uni-dortmund.de/useR-2008/tutorials/eddelbuettel.html

Best
Markus


João Fadista wrote:
> Check out this paper about R in parallel:
> http://www.biomedcentral.com/1471-2105/9/390
>  
> Regards,
> João
> 
> ________________________________
> 
> De: bioconductor-bounces at stat.math.ethz.ch em nome de Senthil Kumar Sundaram
> Enviada: qui 16-10-2008 21:17
> Para: bioconductor at stat.math.ethz.ch
> Assunto: [BioC] multicore processor
> 
> 
> 
> Hi,
> 
>    I am new to using bioconductor. We have more than 200 CEL files to
> analyze and would like do it on a Linux(64 bit) system with 2 quadcore Intel
> Xeon processors and 16GB RAM. We would like to utilize all 8 processors
> using Oligo package. But currently, it runs only on one processor. Can
> anyone help us to configure bioconductor to use all 8 processors?
> 
> 
> 
> Thanks,
> 
> 
> 
> Senthil Sundaram, MD
> Assistant Professor of Pediatrics and Neurology
> 
> Wayne State University
> PET Center
> Children's Hospital of Michigan
> 3901 Beaubien Street
> Detroit, MI 48201
> Ph:  313-993-2870
> Email: ssundaram at pet.wayne.edu
> 
> 
> 
> 
> 
> 
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> 
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-- 
Dipl.-Tech. Math. Markus Schmidberger

Ludwig-Maximilians-Universität München
IBE - Institut für medizinische Informationsverarbeitung,
Biometrie und Epidemiologie
Marchioninistr. 15, D-81377 Muenchen
URL: http://www.ibe.med.uni-muenchen.de
Mail: Markus.Schmidberger [at] ibe.med.uni-muenchen.de
Tel: +49 (089) 7095 - 4599