GMOD Evo Hackathon
From GMOD
Contents
Proposal for GMOD NESCent hackathon
NESCent has funds to support a certain number of hackathons every year. We are proposing a GMOD hackathon for June 2010. It would have a focus on extending GMOD for evolutionary biology, and would probably propose funding for 10-15 attendees. Proposals are reviewed on a competitive basis.
Organizing Committee
Proposed Topics
- Alignment metadata
- Population diversity support for chado and associated application connectivity (a la GDPDM)
- Evolutionary phenotype data in chado
- GBrowse_syn compatibility with SAM data
- Chado change management, release process, schema versioning
- handling pangenomes
- integration with the GO consortium's PAINT project to infer GO terms from the annotations associated with nodes in phylogenetic trees
Proposed Dates
June 7-11, 2010
First conference call, 2PM EST Feb. 12, 2010
Agenda
Please add/change items.
Purpose of the hackathon
The hackathon was proposed to bring more support for evolutionary biology into the GMOD toolkit. We should thinks of what current needs are not being addresses or adequately addressed and take care to keep the focus on this topic. Some ideas I have are:
- Better support for comparative genomics (mainly MSA but also other types) data and data visualization. For example, bringing GBrowse_syn up to the same standard as GBrowse, improving support for the data processing and loading, useing an ontology such as the multiple alignment ontology for critical meta-data not captured bycurrent MSA formats.
- Others...
mckays 14:55, 12 February 2010 (UTC)
- focus in on one or at most two implementation goals for the hackathon
- identify which type of person we need to invite
- start to develop a list of critical people to have there
- develop some action items and assign them to people
- drafting the proposal?
- securing the venue?
- NESCent has blocked out the second week of June or the last two weeks of July for us mckays 14:55, 12 February 2010 (UTC)
- June timeframe overlaps with Arthropod Genomics (at this time, only Carson Holt is going from GMOD); nothing overlaps yet with last two weeks of July) - see Calendar for what else is going on.
- NESCent has blocked out the second week of June or the last two weeks of July for us mckays 14:55, 12 February 2010 (UTC)
Minutes
Second conference call, 5PM EST Feb. 22, 2010
Agenda
Please add/change items.
- Focused on getting the proposal written.
- Discuss prior white papers:
- Identify key elements of the GMOD evo hackathon whitepaper
- Assign tasks to be completed before next call.
Minutes
Third conference call, 2PM EST Mar 17, 2010
Agenda
Please add/change items.
- Focused on getting the proposal written.
- clarify metadata issues
- Dole out responsibilities
