[Biodevelopers] Tree/hierarchical clustering software?

[Patrick McConnell]

John Quackenbush recently demoed Tigr's microarray data analysis tools at
the CAMDA conference.  They appeared quite impressive, and are open source:

http://www.tigr.org/software/tm4/

-Patrick McConnell
Duke Binformatics Shared Resource
Duke University
mccon012 at mc.duke.edu


                                                                                                                                                 
                      Iddo Friedberg                                                                                                             
                      <idoerg at burnham.org>               To:       biodevelopers at bioinformatics.org                                              
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                      biodevelopers-admin at bioinfo        Subject:  [Biodevelopers] Tree/hierarchical clustering software?                        
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                      11/17/2003 01:30 PM                                                                                                        
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Hi,

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

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