[BioC] Problem with "as.matrix.vsn" and "duplicateCorrelation" fromlimma

[Gordon Smyth]

Hi Wolfgang,

Actually there is an as.matrix method for vsn objects in the limma 
package, it just had a bug. Now fixed.

Best wishes
Gordon

>[BioC] Problem with "as.matrix.vsn" and "duplicateCorrelation" fromlimma
>
>
>
>Wolfgang Huber 
><mailto:bioconductor%40stat.math.ethz.ch?Subject=%5BBioC%5D%20Problem%20with%20%22as.matrix.vsn%22%20and%20%22duplicateCorrelation%22%0A%20from%09limma&In-Reply-To=3aa934e00709151315m371c208dleea83bf372da2aaa%40mail.gmail.com>huber 
>at ebi.ac.uk
>Sun Sep 16 02:07:38 CEST 2007
>
>Dear Artur,
>
>there is no "as.matrix" function for objects of type "vsn", such as
>returned by the "vsn2" function. You are right to use the "exprs"
>accessor instead.
>
>If you are looking for a wrapper to vsn2 that produces an ExpressionSet
>(rather than a vsn object), please look at "justvsn" (in the devel
>branch, will be in the bioc 2.1 release).
>
>Best wishes
>         Wolfgang
>
> > Hi all,
> >
> > I just wanted to report an error that I've been geting:
> > When I run duplicateCorrelation on this vsn object I get an error message.
> > If instead of using the vsn object I use the result of an "expres(
> > vsn.object)" function call it apparently works.
> > I could be mistaken, but I don't think that I upgraded my packages or R and
> > duplicateCorrelation after the last time I used duplicateCorrelation
> > succesfully.
> >
> > Thanks a lot!
> >
> > Artur Veloso
> >
> > Masters in Marine Biology Candidate
> > College of Charleston, South Carolina, USA