UNIX Parsimony Programs

B.L.Cohen gbga13 at udcf.gla.ac.uk
Fri Nov 3 12:54:11 EST 1995


In article <v01510100acbac1380e9d@[142.104.10.9]>, amcarthu at UVic.CA (Andrew
G. McArthur) wrote:

> Colleagues,
> 
> I have a large (98 taxa, 200 bp) NEXUS file that I have tried to analyse
> with PAUP.  Needless to say, it is slow.  I have PHYLIP for UNIX on a new
> SPARC station and wish to try it that way - does anyone have a conversion
> utility for converting NEXUS files to PHYLIP infiles?  Also, what other
> parsimony programs are available for UNIX systems?  I know a UNIX version
> of PAUP is forthcoming, but is there anything else I could try in the
> meantime.  Much thanks!
> 
> Andrew

I suggest that you use the front end GUI GDE from the UMontreal site on
your Unix machine. It provides a good sequence editor that can interconvert
file formats making it easy to go from nexus to phylip. All the phylip
analyses can be done without leaving the editor; it calls the programs and
you can tailor what it does through the .GDEmenu files


-- 
Bernie Cohen                   Phone (+44) (0)141 339 8855 ext. 5103/5101
Molecular Genetics              Fax               330 5994
University of Glasgow
56 Dumbarton Rd,
Glasgow G11 6NU
Scotland, UK.



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