Hi all, I would like to used the colonCA and golub datasets in some work that I am preparing. Whilst the golub data has been pre-processed of sorts, I would like to normalize the colonCA data with vsn etc. How do I work this function on an exprSet? Or how do I get the data back into a form from which I can proceed as normal? Many thanks Rebecca

Hi Rebecca, On 28 Nov 2005, pmt1rew at leeds.ac.uk wrote: > I would like to used the colonCA and golub datasets in some work > that I am preparing. Whilst the golub data has been pre-processed > of sorts, I would like to normalize the colonCA data with vsn etc. > How do I work this function on an exprSet? Or how do I get the data > back into a form from which I can proceed as normal? If you have an exprSet, you can get the expression matrix using the exprs method. E.g., mat <- exprs(myExprSet) If vsn doesn't operate on exprSet objects, that might be a nice improvement. You might want to look at getIntensityMatrix in vsn, I think that function knows about exprSet objects. + seth