[BioC] Affymetrix data analysis

[Robert Gentleman]

and even more importantly, please read the posting guide before posting 
- it is *important*

James W. MacDonald wrote:
> Hi Tristan,
> 
> Tristan Coram wrote:
>> Hi,
>>
>>  
>>
>> I am trying to read in my Affymetrix CEL files (48 files, total ~600 MB) but
>> I keep getting memory errors.  Can somebody please help me with this.  Or is
>> therea remote server I can send my data to for computation?
> 
> You don't say anything about your OS, version of R, sessionInfo(), 
> amount of RAM, etc, etc, so really there is very little anybody can say 
> for sure (this is like calling a mechanic on the phone and saying 'My 
> car won't run. Can you help me?').
> 
> Some general prescriptives:
> 
> 1.) Get more RAM. It's cheap these days.
> 2.) Use justRMA() or justGCRMA().
> 3.) Use a 64-bit OS with lots of RAM.
> 4.) If on windows or linux, you can use RMAexpress (google to find).
> 
> HTH,
> 
> Jim
> 
> 
>>  
>>
>> Any help is much appreciated.
>>
>>  
>>
>> Thanks
>>
>>  
>>
>>  
>>
>> Dr. Tristan Coram
>>
>> Postdoctoral Research Associate
>>
>> Research Plant Pathologist/Geneticist
>>
>>  
>>
>> United States Department of Agriculture
>>
>> Agricultural Research Service
>>
>> Wheat Genetics, Quality Physiology & Disease Research
>>
>>  
>>
>> 209 Johnson Hall
>>
>> Washington State University
>>
>> Pullman, WA 99163
>>
>>  
>>
>> Office: +1 509 335-1596  Fax: +1 509 335-2553
>>
>> Email: tcoram at mail.wsu.edu
>>
>>  
>>
>>  
>>
>>
>> 	[[alternative HTML version deleted]]
>>
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> 
> 

-- 
Robert Gentleman, PhD
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M2-B876
PO Box 19024
Seattle, Washington 98109-1024
206-667-7700
rgentlem at fhcrc.org