[Biodevelopers] Tree/hierarchical clustering software?

Patrick McConnell MCCon012 at mc.duke.edu
Mon Nov 17 14:57:43 EST 2003

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


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

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


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.



Iddo Friedberg, Ph.D.
The Burnham Institute
10901 N. Torrey Pines Rd.
La Jolla, CA 92037
Tel: +1 (858) 646 3100 x3516
Fax: +1 (858) 646 3171

Biodevelopers mailing list
Biodevelopers at bioinformatics.org

More information about the Biodevelopers mailing list