Agenda

Implementation plan for additional features and improvements

* Fix bugs & display issues with TR viewer, then get it out for testing and feedback (April/May)
* Flesh out the documentation on the TR software (April/May)
* Run 3 reconciliation pipelines on the 6spp test data of gene families:  (1) TreeBEST, (2) PrimeGSR, (3) RaxML+NOTUNG.  Add results (with support values) to the database.  Compare results among the 3 methods above relative to the manual (polyploidy-based) reconciliations (April/May)
* Use the comparison above to decide what reconciliation pipeline to run on the 1KP data, and then launch it on TACC.  Put the results into database for mining, and so that the TR viewer can serve as an enhanced online supplement to the 1KP paper (by end of May)
* Give an iEvoBio presentation on this stuff (if accepted) (June)
* Mentor a Google Summer of Code project to improve the software API, making both the DB and viewer independently useful (this depends on the outcome of GSoC review/allocation process) (May-Aug)
* Coordinate with other groups on three fronts: (1) deciding on the reference tree(s) for reconciliations - it needs to include green algae! (2) deciding how all the iPToL components will interact for users within the DE (3) figuring out how the TNRS could be used to allow users to upload their own trees for reconciliation (#1 by end of May, #2 & 3 depending on the rest of iPToL).

Also see: https://docs.google.com/document/d/1ABkvD7GB-sHQEIOegmCnLILAqYHRugdBeRAFPKeD5vk/edit?hl=en&authkey=CJbqgcsH#

(and the original spreadsheet https://spreadsheets.google.com/ccc?key=0AkrKQiz_yk8wdG5Ddm9Sa1FDMk1uYXdVZ2FjaDl4d2c&hl=en&authkey=CO__3MQI#gid=0)