PAUP for ibm/dos

Dan Jacobson danj at welchgate.welch.jhu.edu
Tue Jan 5 17:10:33 EST 1993

In article <1993Jan5.193553.16035 at galileo.cc.rochester.edu> WERR at db1.cc.rochester.edu (JOHN WERREN) writes:
>we are looking for a PAUP software program that runs on Dos/ibm
>compatible machines.  We have a 386/33 system.  Swoffords old
>1bm version does not accept sequence strings longer than a few
>hundred bases, and we would very much like an updated version.
>thanks for any help.  
> j. werren   
>address  werr at db1.cc.rochester.edu

I don't know what version of Paup you have - I think the latest version
is 3.0 but I would suggest that you contact Swofford for the latest information
about Paup, he still reads his e-mail at swofford at uxh.cso.uiuc.edu.

Here's a little tidbit of information about Paup:

     1.  David Swofford (Illinois Natural  History  Survey,  Natural  Resources
Building,   607   East  Peabody  Drive,  Champaign,  Illinois   61820,  U.S.A.)
distributes PAUP (Phylogenetic Analysis Using Parsimony).
     Since  December,  1985,  Swofford  has  been  distributing  a  precompiled
executable object-code versions of PAUP for the IBM PC and other MSDOS systems.
As of this writing (May, 1991) he has released version  3  (PAUP/Mac)  for  the
Macintosh,  and  later  hopes  to  release  version  3  for  PCDOS  systems and
ultimately for mainframes.  Its cost is  $50.   Orders  received  for  the  Mac
version  will  be filled but the final printed documentation will arrive later,
as it is not completed yet.

     PAUP 3.0 is probably the most sophisticated parsimony program.  It  allows
multistate  characters,  user-defined  weights on individual state transitions,
Wagner,  Camin-Sokal  and  Dollo  parsimony   methods,   bootstrap   confidence
intervals,  and  finding  all  most parsimonious trees by branch-and-bound.  It
also has provision for computing Lake's linear phylogenetic invariants.

This was clipped out of Joe Felsenstein's documentation for PHYLIP - 
another package for doing all sorts of phylogeny.  You may want to
consider getting PHYLIP, it is well supported, extremely well documented,
and FREE.  You can get it by anonymous ftp at evolution.genetics.washington.edu
in the /pub directory. (Kudos to Joe)

Best of Luck,

Dan Jacobson

danj at welchgate.welch.jhu.edu 

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