[Bioperl-l] [ANNOUNCEMENT] BioPerl and the Google Summer of Code

miraceti miraceti at gmail.com
Tue Jun 3 11:58:00 EDT 2008

Thanks for the welcome,
I'm very excited to be part of the great community,
Here is the wiki page for the project,
*I'll look forward to interacting with you and getting lots of help!

Mira Han

On Tue, Jun 3, 2008 at 11:25 AM, Chris Fields <cjfields at uiuc.edu> wrote:

> On behalf of the BioPerl core developers, Google, and the National
> Evolutionary Synthesis Center (NESCent), I would like to congratulate Mira
> Han on being accepted as a student for the Google Summer of Code (GSoC) and
> welcome her to the BioPerl community.  Mira's accepted project proposal
> involves developing phyloXML support for BioPerl.  Following is the proposal
> abstract:
> "PhyloXML is an XML document model for phylogenetic data that incorporates
> various annotation types, including user customized data. The format is
> currently not supported by BioPerl. I propose a SAX based data structure and
> interface for PhyloXML support in BioPerl. I will use most of the existing
> IO structures such as TreeIO and TreeEventBuilder and subclass them to
> extend the functions specific to PhyloXML. The objects will be connected to
> various existing BioPerl modules, such as SeqI, TaxonI, AnnotationI by
> reference in order to accommodate different phyloXML elements."
> NESCent, under the Phyloinformatics Summer of Code, is participating as a
> mentoring organization in the GSoC for the second year.  This year, five
> projects (including Mira's) are being funded by Google, with a sixth project
> being funded by external sources.  Mira's co-mentors for this project are
> myself, Jason Stajich, Rutger Vos, and Christian Zmasek (the primary
> developer of phyloXML).  However, I encourage Mira to ask questions on the
> BioPerl mail list for feedback from the greater BioPerl community.
> Further information on phyloXML:
> http://www.phyloxml.org/
> Further information on NESCent's Phyloinformatics Summer of Code, including
> all funded projects:
> https://www.nescent.org/wg/phyloinformatics/index.php?title=Phyloinformatics_Summer_of_Code_2008
> Sincerely,
> Christopher Fields
> Postdoctoral Researcher
> Lab of Dr. Marie-Claude Hofmann
> The Institute for Genomic Biology
> University of Illinois Urbana-Champaign
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