[BioC] help on cdf file

[Ben Bolstad]

At least as far as rma() goes you may supply a vector of probeset names
using the subset argument. eg

 
library(affy);library(affydata);data(Dilution)
goodprobesets <- geneNames(Dilution)[1:10]
eset <- rma(Dilution,subset=goodprobesets)
eset






On Tue, 2005-04-19 at 13:17 -0400, Jianping Jin wrote:
> Hi All,
> 
> I am interested in using a reduced number of probe sets of HG-U133plus2, 
> for example  masking some probe sets, to run RMA for my data analysis. I 
> guess that I should make all new .CEL files from the original data sets and 
> a new .cdf file which is modified to fit my new data sets. I am wondering 
> if there are some easy ways with BioC to achieve that? Do I have to write 
> some codes with, e.g. Perl, to make the new data sets and a new cdf?
> 
> Any suggestions and help will be greatly appreciated!
> 
> JP Jin
> 
> xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
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> x Bioinformatics scientist      x
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