[BiO BB] Tree/hierarchcal clustering software?

[Iddo Friedberg]

Hi Chris,

Good to hear from you. Yes, I know Cluto, but it does not seem to have 
hierarchical clustering by distance matrix, only presentation.

Cheers,

./I



Chris Dwan (CCGB) wrote:
> We have a clustering toolkit under a web interface at:
> 
>   http://cluto.ccgb.umn.edu/cgi-bin/wCluto/wCluto.cgi
> 
> I've never used it myself.
> 
> -Chris Dwan
>  University of Minnesota
> 
> On Mon, 17 Nov 2003, Iddo Friedberg wrote:
> 
> 
>>Hi,
>>
>>(Apologies for cross-posting).
>>
>>I have data in the form of a distance matrix (well, similarity, but
>>easily convertible). I would like a hierarchical clustering software which:
>>
>>1) Has a good number of amalgamation rules. I want to throw as many
>>things as I can at my data set. A good number of distance rules
>>(Eucledian, squared, Chebychev etc.) would be nice too.
>>
>>2) A nice tree display. Failing that, an output in one of the standard
>>formats which I can display using TreeView, or somesuch.
>>
>>I know I can use Neighbor from Phylip, I just wondered what else is out
>>there. Any reply would be helpful.
>>
>>Thanks,
>>
>>Iddo
>>
>>--
>>Iddo Friedberg, Ph.D.
>>The Burnham Institute
>>10901 N. Torrey Pines Rd.
>>La Jolla, CA 92037
>>USA
>>Tel: +1 (858) 646 3100 x3516
>>Fax: +1 (858) 646 3171
>>http://ffas.ljcrf.edu/~iddo
>>
>>
>>--
>>Iddo Friedberg, Ph.D.
>>The Burnham Institute
>>10901 N. Torrey Pines Rd.
>>La Jolla, CA 92037
>>USA
>>Tel: +1 (858) 646 3100 x3516
>>Fax: +1 (858) 646 3171
>>http://ffas.ljcrf.edu/~iddo
>>
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-- 
Iddo Friedberg, Ph.D.
The Burnham Institute
10901 N. Torrey Pines Rd.
La Jolla, CA 92037
USA
Tel: +1 (858) 646 3100 x3516
Fax: +1 (858) 646 3171
http://ffas.ljcrf.edu/~iddo