[BioC] Memory problems with RMA

[Sean Davis]

I think you should try justRMA.  See:

http://files.protsuggest.org/biocond/html/2189.html

and related posts.

Sean

On Aug 2, 2004, at 6:06 AM, Moore, Stephen wrote:

> Dear List,
>
> I have downloaded 100 samples of Affymetrix U133 Plus 2.0 array (more 
> than 50,000 probes) from the web. We read those files into R by using 
> ReadAffy( ) and tried carrying out the normalization by using rma( ). 
> However we have encountered the problem of short of memory. I use 
> Windows 2000 on PC and the memory is 1 GB. Is there some code in R for 
> reading the CEL files one by one and some code to read the data row by 
> row for rma, which may help our available memory deal with 'read files 
> into R' and 'rma' commands.  Has anyone met this problem with this 
> size of dataset before and if so what can we do to correct the 
> situation (possibly by running R on a unix server?).
>
> Dr. Stephen Moore
> Senior Scientist
> ArraGen Ltd.
> Almac House
> Seagoe Industrial Estate
> Craigavon
> Co. Armagh
> BT63 5QD
> Northern Ireland
> E-mail:Stephen.Moore at arragen.com
> Phone: 02838 395751
> Mobile: 07719 989348
> Fax:     02838 398676
>
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