jthomaso at nmsu.edu (THOMASON) writes:
> Does anyone know where I can get a hold of a copy of MacClade
>(cladistics)? analyzation software for the common mac? I've been
>checking the retailers and noone seems to be able to get a grip on it
>around here atleast. Please reply via EMAIL.... Thank You
You can obtain MacClade by anonymous ftp from the following sites:
Host fly.bio.indiana.edu
Location: /molbio/mac
FILE -rw-r--r-- 144646 May 14 1991 macclade.hqx
Host sunbcd.weizmann.ac.il
Location: /pub/software/mac
FILE -r--r--r-- 144646 May 14 1991 macclade.hqx
Host sunsite.unc.edu
Location: /pub/academic/bio/molbio/mac
FILE -r--r--r-- 144646 May 14 1991 macclade.hqx
For those of you who aren't familiar with MacClade here's a
description that Joe Felsenstein (noted phylogeny guru and author of
the PHYLIP package) wrote in his Phylip documentation:
3. If you have a Macintosh computer and any interest in discrete-state
parsimony methods (including DNA and protein parsimony), you should definitely
get MacClade. As of this writing it was distributed by Wayne Maddison,
Department of Ecology and Evolutionary Biology, University of Arizona, Tucson,
Arizona 85721, U.S.A. David Maddison and he have produced a program enabling
you to use the mouse-window interface to specify and rearrange phylogenies by
hand, and watch the number of character steps and the distribution of states of
a given character on the tree change as you do so. MacClade is positively
addictive and will give you a much better feel for the tree and your data.
It's the closest thing to a phylogeny video game that I have seen. It has been
influential in spurring the inclusion of interaction and graphics into other
phylogeny programs. (I have tried to supply this functionality in PHYLIP by
incorporating the programs MOVE, DOLMOVE, and DNAMOVE, which act somewhat like
MacClade). MacClade does not have a sophisticated search algorithm to find
best trees: it largely relies on you to do it by hand (which is surprisingly
effective), with only a local rearrangement algorithm available to improve on
that tree.
Version 2.1 was released in March 1987. Version 3, with a spread-sheet
data editor, support for polytomies, charting facilities, PHYLIP, PAUP, and
HENNIG86 compatibility, and many other new features, is coming soon. The
program is originally written in Lightspeed Pascal but is provided in pre-
compiled form, and is available for distribution cost ($6 in North America, $8
overseas, or three or four Macintosh diskettes in barter). It requires a 512K
Macintosh, Macintosh Plus, or larger. In the near future the distribution of
version 3 will be on a commercial basis by Sinauer Associates of Sunderland,
Massachusetts, although versions 1 and 2 will continue to be freely
distributable. Version 2 is also available by electronic mail from the EMBL
and Houston net servers which distribute free software for molecular data
analysis, in their Mac software, as a squeezed and then binhexed file.
Best of luck,
Dan Jacobson
danj at chablis.gwu.edu
