[Bioperl-l] Re: Bioperl tree class

[Heikki Lehvaslaiho]

Jason Eric Stajich wrote:
> 
> We do have a PHYLIP reading/writing object -
> Bio::AlignIO::phylip
> 
> and I actually just used it yesterday for some things and I'm not sure it
> is 100% up to all the standards, but definitely a great start if you find
> and problems with it please help by fixing or posting files that cause
> problems so we can design more tests.
> 
> I have just jumped into phylogenetics in school and realize that our nexus
> writer/reader could be a little more PAUP friendly - hope to add that
> soon.  Would be nice to make sure everything else plays with other apps
> nicely.
> 
> -jason

Good that someone is using those modules I wrote a few months ago. Feedback
is sorely needed. Feel free to take them forward.

	-Heikki

> 
> On Wed, 10 Oct 2001, Elia Stupka wrote:
> 
> > > Did you (or anyone else) get around to writing a bioperl object
> that can
> > > read in PHYLIP format tree files? I am on the verge of writing one; it
> > > wouldn't take long, but there's no sense duplicating effort.
> >
> > No, I haven't, neither has my group in Singapore, just mailing bioperl, to
> > check if Jason or others are working on it.
> >
> > Elia
> >
> > ******************************
> > * http://www.ebi.ac.uk/~elia *
> > * tel:    +44 1223 49 44 31  *
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> > * fax:    +44 1223 49 44 68  *
> > ******************************
> >
> >
> >
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> 
> --
> Jason Stajich
> Duke University
> jason@cgt.mc.duke.edu
> 
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-- 
______ _/      _/_____________________________________________________
      _/      _/                      http://www.ebi.ac.uk/mutations/
     _/  _/  _/  Heikki Lehvaslaiho          heikki@ebi.ac.uk
    _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
   _/  _/  _/  Wellcome Trust Genome Campus, Hinxton
  _/  _/  _/  Cambs. CB10 1SD, United Kingdom
     _/      Phone: +44 (0)1223 494 644   FAX: +44 (0)1223 494 468
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