[Bioperl-l] [ANNOUNCEMENT] BioPerl and the Google Summer of Code
cjfields at uiuc.edu
Tue Jun 3 11:25:26 EDT 2008
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:
Further information on NESCent's Phyloinformatics Summer of Code,
including all funded projects:
Lab of Dr. Marie-Claude Hofmann
The Institute for Genomic Biology
University of Illinois Urbana-Champaign
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