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Stephen Moore
▴
70
@stephen-moore-492
Last seen 10.2 years ago
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@arragen.com
Phone: 02838 395751
Mobile: 07719 989348
Fax: 02838 398676