[BioC] clusterStab using a correlation distance
James W. MacDonald
jmacdon at med.umich.edu
Thu Mar 11 21:19:13 CET 2010
Hi Daniel,
Daniel Brewer wrote:
> Hello,
>
> I am interested in using the package clusterStab and in particular the
> clusterComp function as a way to test the stability of the clustering of
> the dendrograms I have produced from microarray data. The problem I
> have is that I would like to use a correlation distance (1-cor()) and it
> appears that the only option is to use a Euclidean distance. Is that
> correct?
Yes, the only option is to use Euclidean distance.
>
> Is there a way to alter the input data so that a Euclidean distance is
> in effect a correlation distance?
No, the distance matrix is computed internally, so inputting anything
but a matrix of data will just make a mess of things.
>
> If not would is be easy to change the source of the function?
Sure. Just download the source package, make whatever changes you want,
and then build and install.
Best,
Jim
>
> Many Thanks
>
> Dan
>
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