[Jalview-discuss] Jalview-discuss Digest, Vol 45, Issue 2

David M. Goodstein dmgoodstein at lbl.gov
Mon Sep 12 19:05:01 BST 2011

It would be nice to have NHX capabilities, so we can annotate the various nodes and work with arbitrary length names.


David M. Goodstein, Ph.D.
Joint Genome Institute / Lawrence Berkeley National Lab
Center for Integrative Genomics / UCBerkeley

On 12 Sep 2011, at 10:51, Jim Procter wrote:

> On 12/09/2011 18:13, Joni Fazo wrote:
>> Hi Jim,
>> Great!  I will start working on the Tree Puzzle web service in a
>> couple of weeks.  I would be happy to share my work and would
>> definitely welcome assistance from yourself and Peter.  I need to wrap
>> some other tasks up before I can turn to the web service development.
> Excellent news!
> I'll shortly add you to the jalview development mailing list, and once 
> you've registered at issues.jalview.org, I'll set you up with commit 
> rights to the git repository.
> Adding in a phylogeny service interface should be reasonably 
> straight-forward from Jalview's side, providing the JABAWS interface 
> returns a standard newick tree file.  (If you need anything more 
> complex... e.g. parsing of NHX format files or working with phyloXML, 
> then the phylogeny parser in jalview may need an upgrade).
> Jim.
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