[BioC] bout big data set for Affy R packge

[Rob Dunne]

Hi Wei Liu,

if they are affymetrix 1.0 ST exon arrays, I can send you a modified version of read.celfiles from the oligo package that 
should read a 300 microarray data set. I dont know it it will work for other array types, possibly not without some work.
 It is a modified version of the read.celfiles that uses the big.matrix class from the big.memory package

my.data<-read.celfiles(filenames=ff,useAffyio=FALSE)
my. data
#assayData: 6553600 features, 335 samples 
#Annotation: pd.huex.1.0.st.v2 

Bye
Rob




On 12/20/2012 01:21 AM, 刘伟 wrote:
> Dear Buddy,
> I am a user of affy R package. When I attempt to handle a large
> number (aprox. 300) of microarrays, I always get an error in memory
> allocation from R. I searched the web but didnot find any solution for
> readaffy() with large dataset. I donnot know if the problem can be
> fixed in some way. Any suggestion is appreciated. Thanks.
>
> Sincerely,
> Wei Liu
>
> 	[[alternative HTML version deleted]]
>
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Rob Dunne         Fax: +61 2 9325 3200     Tel: +61 2 9325 3263
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