[BioC] Memory problems with RMA

[alberto goldoni]

On Monday 02 August 2004 12:06, Moore, Stephen wrote:
i use linux and this system has a best control on swap memory.
it's not very fast b

> 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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-- 
Dott. Alberto Goldoni
Lab. Genetica Medica
Ospedale S.Orsola-Malpighi
via Malpighi n.9, BO