[Bioperl-l] Re: Phylip question

[Heikki Lehvaslaiho]

David,

In bioperl we do not deal directly with PHYLIP programs but what we have
is a generic interface to free EMBOSS program suite and there is a
version of PHYLIP that uses the EMBOSS interface. Check
http://www.emboss.org/.

The bioperl modules to use are:

Bio::Factory::EMBOSS
Bio::Tools::Run::EMBOSSApplication

We have nothing that would help you process the output from PHYLIP
programs. Contributions would be more than welcome.

Hope this helps,

	-Heikki

On Tue, 2002-11-05 at 00:29, Dave Lee wrote:
> Heikki,
>  
> Hi, my name is David and I'm working on a research project at Berkeley.
> I'm wondering if you can help me out a little bit. I saw that you wrote
> phylip.pm and so I thought I'd give you an email. If you can't help,
> then could you point me to another resource? Thanks.
>  
> What I want to do is write a PERL program that takes arrays of
> nucleotides and uses the PHYLIP programs to produce a distance matrix
> and phylip tree info. Has anyone already written a similar PERL program
> that does this? It would save me much time.
>  
> Thanks for your prompt reply,
> -Dave
> Bioinformatics Researcher
> Bioengineering, University of California at Berkeley
-- 
______ _/      _/_____________________________________________________
      _/      _/                      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
___ _/_/_/_/_/________________________________________________________