[BioC] help on cdf file

Ben Bolstad bolstad at stat.berkeley.edu
Tue Apr 19 20:13:34 CEST 2005

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

goodprobesets <- geneNames(Dilution)[1:10]
eset <- rma(Dilution,subset=goodprobesets)

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
> x Jianping Jin Ph.D.            x
> x Bioinformatics scientist      x
> x Center for bioinformatics     x
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