Hi, I am still new to bioc. Could you please point me the most relevant document? Shall I start with the following document? http://www.bioconductor.org/packages/release/bioc/vignettes/oligo/inst /doc/oligoNimblegenExpression.pdf Regards, Peng On Wed, Jul 22, 2009 at 1:43 PM, Vincent Carey <stvjc at="" channing.harvard.edu=""> wrote: > > you'll need to use the oligo package to work with that data. > > ? ?source("http://bioconductor.org/biocLite.R") > ? ?biocLite("oligo", "pd.mogene.1.0.st.v1") > > then oligo's read.celfiles() and rma() can be used. ?you may also need > > biocLite("mogene10stprobeset.db") > > to help interpret results > > On Wed, Jul 22, 2009 at 2:37 PM, Peng Yu <pengyu.ut at="" gmail.com=""> wrote: > > > > Hi, > > > > I have some .cel files and MoGene-1_0-st-v1,r3.cdf in the current > > directory. The .cel files are generated from the Mouse Gene 1.0 ST > > Array. > > > > I run the following command. But it generate an error message. Can > > somebody let me know what the problem is? > > > > Regards, > > Peng > > > > > setwd(".") > > > library(makecdfenv) > > > data<-ReadAffy() > > > eset<-rma(data) > > Error in getCdfInfo(object) : > > ? Could not obtain CDF environment, problems encountered: > > Specified environment does not contain MoGene-1_0-st-v1 > > Library - package mogene10stv1cdf not installed > > Bioconductor - mogene10stv1cdf not available > > > > _______________________________________________ > > Bioconductor mailing list > > Bioconductor at stat.math.ethz.ch > > https://stat.ethz.ch/mailman/listinfo/bioconductor > > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor > > > > -- > Vincent Carey, PhD > Biostatistics, Channing Lab > 617 525 2265