Yes, here it is: samr.obj<-samr(data,resp.type="Two class unpaired", nperms=100, center.arrays=T)
where *data *is a matrix of microarray gene expressions with genes as rows and tissues as columns. With putting *center.arrays=T *the *data* matrix is normalized such as each column has median=0. I would like to retrieve the new normalized matrix, but it seems that it is not returned by *samr.* If you have any idea on how I can find this transformed matrix I would be glad to hear that! Thanks again, E. On Tue, Jun 10, 2008 at 11:30 PM, Richardson, Patrick < [EMAIL PROTECTED]> wrote: > Could you post your code so we can see what you are trying to do? > > Thanks, > > Patrick > > ________________________________________ > From: [EMAIL PROTECTED] [EMAIL PROTECTED] On > Behalf Of Eleni Christodoulou [EMAIL PROTECTED] > Sent: Tuesday, June 10, 2008 11:20 AM > To: r-help@r-project.org > Subject: [R] samr result > > Hello list! > > I have a proble trying to perform a SAM analysis using the function samr > from the samr package. I have put the option *center.arrays=TRUE *in order > to scale all the experiments to median=0. I would like to retrieved the > scaled data but it seems that samr does not return it...Does anyone have > any > idea on this? > > Thanks a lot!!! > E. > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. > This email message, including any attachments, is for ...{{dropped:10}} ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
