News and Notices

• Our NESCent working group proposal has been funded. The first meeting is May 20-23, 2007 at NESCent headquarters in Durham, NC. For more information, see the working group wiki.
• EIG helped to organize, and participated in, a NESCent phyloinformatics hackathon in December, 2006.
• Our next telecon: TBA

Overview: Purpose and activities of the Evolutionary Informatics Group

The Evolutionary Informatics Group is a small group of people that, at present, is united mainly by the goal of developing a Perl infrastructure to facilitate evolutionary analysis of molecular data. However, the reason that we chose the name "Evolutionary Informatics Group" is that various subsets of this group share diverse and sometimes broader goals, including:

• developing broader (not just Perl, not just molecular) informatics support for evolutionary analysis
• developing a robust relational schema for character-data-and-trees data sets
• carrying out specific analysis on evolutionary questions of interest
• developing software to visualize outputs of evolutionary analysis (trees, reconstructions)

We began to collaborate to pursue some of these goals in the spring of 2006. Some of our activities include:

• from this spring, a Bio::CDAT proposal for BioPerl^?
• our proposal for a NESCent working group from June, 2006.
• an initial face-to-face Organization/Vision meeting, 29 June in Philadelphia (see photos below; links are on the MeetingsNotes page)
• planning activities for a NESCent phyloinformatics hackathon
• ongoing email discussions and teleconferences on design and implementation issues

Meetings Notes

Resources and links

• Aaron's ConceptGlossary
• NEXUS resources:
  • from Iglesias, et al, a formal grammar of NEXUS in Backus-Naur form.
  • The NEXUS projects page for the Stoltzfus group, where you can get a test set of NEXUS files
  • The Bio::NEXUS package (Perl API for NEXUS).
  • The Nexplorer server providing a graphical web interface to browse and manipulate your uploaded NEXUS data.

• The complete information package (warning: 12 MB) from our 29 June Philly meeting, with background papers and project docs.
• Bio::Phylo
• BioPerl
• CIPRES

Target problems ("use cases")

Below is the table of contents for our use case list (summer, 2006), which was the seed for the more extensive NESCent use case list.

Tests

Here I want to start a list of specific test problems, including data files and expected outputs.

Design and Implementation Issues

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