[Bioperl-l] Using Graph?
Thu, 7 Nov 2002 10:05:59 -0800
It is already a dependency, just a silent one :) The OntologyEngineI implementation by Chris Zmasek depends on it, I just haven't gotten around to document this. Yes, it is an excellent module and installs smoothly out of the box.
> -----Original Message-----
> From: Heikki Lehvaslaiho [mailto:firstname.lastname@example.org]
> Sent: Thursday, November 07, 2002 1:46 AM
> To: Bioperl
> Subject: [Bioperl-l] Using Graph?
> I needed to find the shortest path of location mapping between
> coordinate systems and not finding anything useful from CPAN, wrote
> Bio::Coordinate::Graph that allowed me to do exactly what I wanted.
> Nat pointed out the 'Graph' to me:
> On Wed, 2002-11-06 at 00:03, Nathan (Nat) Goodman wrote:
> > 3) Did you consider using an existing general purpose
> graph package? I've
> > used the one in CPAN which works reasonably well. I
> realize it's overkill
> > here, but graphs are such a basic modeling tool that there
> may be some value
> > in adopting a standard graph package for BioPerl. Then,
> modules dealing
> > with taxonomies and phylogenies, etc., etc. could use the
> standard graph
> > package instead of everyone coding their own special case.
> I had a look at it and seems pretty good. (Written by a Finn,
> so it has
> to be good. ;-) ) Most importantly, it is really general purpose.
> it has a dependecy for
> Is anyone in a position to start using Graph now or in near future?
> I'd be much more confortable to add one more dependency into
> bioperl if
> I knew that other modules will be using it, too.
> Any opinions welcome,
> ______ _/ _/_____________________________________________________
> _/ _/ http://www.ebi.ac.uk/mutations/
> _/ _/ _/ Heikki Lehvaslaiho email@example.com
> _/_/_/_/_/ 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
> ___ _/_/_/_/_/________________________________________________________
> Bioperl-l mailing list