[BioC] normalization of colonCA data

[Seth Falcon]

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