Thursday Aug 20th, 2015: Difference between revisions
Jump to navigation
Jump to search
Line 28: | Line 28: | ||
* Need 2 pager report | * Need 2 pager report | ||
* Poster for presenting- needs photos of all participants | * Poster for presenting- needs photos of all participants | ||
* End of Year One coming up- will need to prepare annual report soon | |||
==Other items:== | |||
* Chris' could demo update of new AmiGO curation pathway for the data viz meeting next 11am next wed? | |||
* GG and JD show their data structure- When? | |||
* Next all hands: planned for Sept 24th- LC will send out a doodle poll | |||
- Justin Preese | - Justin Preese | ||
Line 67: | Line 47: | ||
- 1. C++ and Matlab under the hood | - 1. C++ and Matlab under the hood | ||
- 2. Matlab and python on the surface for UI | - 2. Matlab and python on the surface for UI | ||
== B. Update from Ontologies Working Group:== | == B. Update from Ontologies Working Group:== | ||
- LoL update: | - LoL update: |
Revision as of 19:04, 20 August 2015
Agenda
Topic: Planteome Project All Hands Meeting Time: Aug 20, 2015 8:00 AM (GMT-7:00) Pacific Time (US and Canada) Join from PC, Mac, iOS or Android: https://zoom.us/j/431144926
- Who: LC, PJ, AM, JE, JP, MAL, GG, JD, CM, EZ
- Regrets: BS, EA, DWS
- Link to recording- Video: TBA
- Link to recording- Audio: TBA
Minutes
A. General Comments and Updates:
Introductions:
- Any new faces- Updates on new hires:
- Georgios moving to Birmingham, has not hired a postdoc, will readvertise, joint position with John
- Austin Meier:
Pankaj Announcements
Ontology Development Workshop
- Goal is to hold it this fall - possibly Nov-Dec, in Corvallis
- goal: not just ontology training (OWL/Protege)
- stay for a couple days (1 week total) for actual hands on
- get people actually comfortable in the system.
- bring in OSU Conferences cordinators to help manage logistics
NSF PI meeting Sept 9th to 11th, Washington DC
- Need 2 pager report
- Poster for presenting- needs photos of all participants
- End of Year One coming up- will need to prepare annual report soon
Other items:
- Chris' could demo update of new AmiGO curation pathway for the data viz meeting next 11am next wed?
- GG and JD show their data structure- When?
- Next all hands: planned for Sept 24th- LC will send out a doodle poll
- Justin Preese
- Main goal: getting a web module for people to segment images, and link those segments to ontology terms/metadata - There are desktop programs/algorithms that work, they are moving them to the web as 'modules' - TL;DR-Newer/better/shinier graph cuts - putting a module on iPlant BisQue that allows you to segment an image, and annotate it with ontologies. - Doing a test environment locally, will expand to testing groups that are larger - working with two students from CompSci - 1. C++ and Matlab under the hood - 2. Matlab and python on the surface for UI
B. Update from Ontologies Working Group:
- LoL update:
- moved from SVN to Github - all 4 of ours - some Crop ontology (maize wheat, rice, casava) - everyone needs github IDs for access to our project "john and george still need"
- Maria Angelique
- Crop ontologies - uploading the 12 ontologies - mapping between crop ontologies, and ref. ontologies - RTB dev meeting - 3 days - discussing NGS - RTB with BTI will split the work - converting spreadsheets to ontology, but they lack complex mapping - Priority is mapping - using an automated tool - working with chris to develop a workflow - MAL has tried tools, chris has tools, need to find out what tool works best. - prospective mapping is better than reterospective mapping - Pankaj: ideal goal is to have a tool available for the workflow - goal is to map back to reference ontology - power comes from the xproducts
C. Update from IT group- Data Store, AmiGO2- Justin Elser
Migration to github
- Seems to be mostly complete. Let me know if there are any more files to transfer with history.
AmiGO 2
Fixed annotation loading issue (well, a workaround)
- Working on bisecting issue so we can stay current with Owltools and AmiGO 2 development.