[BioC] What packages needed for anti-correlated clustering?

[Peter Langfelder]

I'm not sure what you mean by anti-correlated clustering. There cannot
really be clusters of anti-correlated genes, since if variable A is
(strongly) anti-correlated with B and B is (strongly) anticorrelated
with C, then A and C are (most likely) positively correlated. This is
very different from positive correlation which can be loosely though
of as being transitive.

If you still want to try, yes, you can use the correlation as a
dissimilarity matrix (which is equivalent to using minus the
correlation as a similarity matrix) and input it to your favourite
clustering procedure (for example, hclust) but the results may not be
meaningful.

Peter

On Fri, Nov 1, 2013 at 7:52 AM, Parth Patel <parth1415 at gmail.com> wrote:
> Hi all,
>
>
>
> I have list of 1000 genes, and I am trying to perform anti-correlated
> clustering using R. Basically, I am trying to find genes that are
> anti-correlated out of 1000.
>
> Can you tell me what type of package should I use for doing anti-correlated
> clustering?
>
>
>
> Thanks in advance,
>
> Parth.
>
>
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