[BioC] is it possible to find sample batch # in CEL files?

[Rob.Dunne at csiro.au]

Hi Brian,

affxparser has a function called readCelHeader. 


library(affxparser)
dates<-rep(0,length(files))
for (i in 1:length(files)){
         datheader<-readCelHeader(ff[i])$datheader
          dd<-gsub(".*([0-9]{2,2}/[0-9]{2,2}/[0-9]{2,2}).*","\\1", datheader)
         dates[i]<-dd
         }


Bye
Rob

________________________________________
From: bioconductor-bounces at r-project.org [bioconductor-bounces at r-project.org] On Behalf Of Brian Tsai [btsai00 at gmail.com]
Sent: Friday, January 25, 2013 12:23 AM
To: bioconductor at r-project.org
Subject: [BioC] is it possible to find sample batch # in CEL files?

Hi,

I've been downloading raw CEL files from the gene expression omnibus, and
have been trying to process them -- i'd like to account for batch effect
when computing differential expression, but the authors didn't provide the
information explicitly in their annotations. Is this information
stored/retrievable through the CEL files through Bioconductor?

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