GMOD
Jun 2016 GMOD Meeting
|
2016 GMOD
Meeting June 30 - July 1, 2016 Indiana University Bloomington, Indiana, United States #GMOD2016 @gmodproject |
GMOD will be holding a community meeting on June 30th and July 1st in Bloomington, IN, immediately after the 2016 Galaxy Community Conference (GCC2016). GMOD Meetings are a mix of user and developer presentations, and are a great place to find out what is happening in the project, what’s coming up, and what others are doing.
Please register online at Eventbrite by June 20th 2016. Early bird registration ends May 21.
For those who would like to present a talk or poster, the meeting registration form includes a section for submitting the presentation title and abstract.
If you have any suggestions or requests for the meeting, please contact the GMOD help desk.
Contents
About GMOD
GMOD is the Generic Model Organism Database project, a collection of interoperable open-source software components for annotating, visualizing, managing and analyzing biological data. GMOD is also an active community of software developers and biologists addressing common challenges with their data.
The GMOD suite includes widely used tools such as GBrowse and JBrowse (and WebGBrowse) for genome browsing, Apollo, Canto and MAKER for genome annotation, GBrowse_syn and CMap for comparative genomics visualization, Chado, BioMart and InterMine for data integration, management, and querying, and Galaxy and Ergatis (and ISGA) for data analysis.
Registration
Please register online at EventBrite. Early bird registration ends May 30th.
The registration fee includes lunch on June 30th.
Draft Agenda
Walnut room, Thursday, June 30
| Time | Topic | Presenter(s) | Presentation | |—-|—-|—-|—-| | 08:50 | Pre-meeting continental breakfast | | | | 09:15 | Introductions | | | | 09:40 | The State of GMOD | Scott Cain | Intro, InterMine, MAKER | | 10:10 | Introduction to uMOD | Scott Cain | Slides | | 10:35 | Coffee | | | | 10:50 | GMOD in Action: The Legume Federation Project | Ethalinda Cannon | Slides | | 11:20 | JBrowse Update | Eric Yao | Slides | | 11:50 | Lunch | | | | 1:00 | Apollo: Collaborative Manual Annotation in the GMOD Workflow | Nathan Dunn | Slides | | 1:30 | Tripal Update | Lacey-Anne Sanderson | | | 2:30 | Coffee | | | | 2:45 | Galaxy Update | Dave Clements, Bjöern Grüning | Slides | | 3:15 | EvidentialGene project at http://eugenes.org/EvidentialGene/ | Don Gilbert | Slides | | 3:45 | FlyBase Update and Chado discussion | Josh Goodman | |
Friday, July 1
| Time | Topic | Presenter(s) | Presentation |
|---|---|---|---|
| 08:50 | Pre-meeting continental breakfast | ||
| 09:15 | Tripal Expression module and search | Meg Staton | Slides |
| 09:45 | Lightning talks, including Asela Dassanayake, Eric Rasche and Thoba Lose | <a href=”https://raw.githubusercontent.com/GMOD/gmod.github.io/main/mediawiki/images/1/15/GMOD_Asela.pdf” class=”internal” | |
| title=”GMOD Asela.pdf”>Asela/LanzaTech</a> | |||
| 11:30 | Lunch (on your own) | ||
| 1:00 | Tripal workshop |
Agenda items
More to be added as we confirm more speakers. If you are interested in giving a talk please contact the GMOD help desk.
- GMOD project updates, including Tripal, Galaxy, JBrowse, Chado, MAKER.
- Introduction to umod (Scott Cain)
- “Apollo: Collaborative Manual Annotation in the GMOD Workflow” (Nathan Dunn)
- Tripal update (Lacey Sanderson)
- Tripal Expression module and search (Ming Chen)
- EvidentialGene project at http://eugenes.org/EvidentialGene/ (Don Gilbert)
- DictyBase on using and extending GMOD tools (Chado, JBrowse) and new infrastructure(docker and possibly kubernetes) (Siddhartha Basu)
- GMOD in Action: The Legume Federation Project (Ethalinda Cannon)
- Tripal Workshop (Friday afternoon)
Logistics
If you require lodging, we have partnered with the 2016 Galaxy Community Conference.
You DO NOT have to register for the GCC2016 conference to utilize housing. Just check HOUSING ONLY when registering.
Please put your travel times here.
“It’s tempting to see bioinformatics as a collection of potential problems. Being at a GMOD meeting helps us see bioinformatics as a collection of potential solutions.”
Isabelle Phan, SBRI, and past GMOD meeting participant
(Thanks to Dave Clements for the nice logo)