Question: how to remove probeset
0
gravatar for Cherif Ben Hamda
4.8 years ago by
Tunisia
Cherif Ben Hamda150 wrote:
hi, if you use affymetrix don't forget to remove AFFX probset. So, you use affymetrix ? Best, Cherif 2014-06-27 15:07 GMT+01:00 James W. MacDonald <jmacdon@uw.edu>: > This question isn't well specified. What exactly do you mean by > 'annotation'? You don't say what array you are using either. > > In future you will be much better served by making your question as > specific as possible. Otherwise you are expecting people to infer what you > want, and you are less likely to get a response, let alone a correct > response. > > If I take a guess and assume you mean something like annotation == 'has a > Gene ID', then it is pretty simple. > > library(genefilter) > subeset <- featureFilter(eset, require.entrez = TRUE, remove.dupEntrez = > FALSE) > > > Best, > > Jim > > > > > On 6/26/2014 7:46 PM, Quan [guest] wrote: > >> Hi, >> >> I want to remove the probeset which do not have annotation in feature >> before do the limma analysis. >> >> could anyone give suggestion on this problem using eset ? >> >> thank you >> Quan >> >> -- output of sessionInfo(): >> >> hi >> >> -- >> Sent via the guest posting facility at bioconductor.org. >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor@r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: http://news.gmane.org/gmane. >> science.biology.informatics.conductor >> >> > -- > James W. MacDonald, M.S. > Biostatistician > University of Washington > Environmental and Occupational Health Sciences > 4225 Roosevelt Way NE, # 100 > Seattle WA 98105-6099 > > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane. > science.biology.informatics.conductor > [[alternative HTML version deleted]]
annotation limma • 324 views
ADD COMMENTlink written 4.8 years ago by Cherif Ben Hamda150
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