2018 Berkeley GO Docathon
Logistics
Rooms
- 153 has been reserved on Tuesday, January 23rd. 248 is reserved for the other 4 days.
Agenda (Draft)
Monday, January 22nd
- Noctua landing page - click on About link at upper right
- Noctua Quick Start Guide
- GO-CAM Guidelines (this is the old Google doc)
Tuesday, January 23rd
- GO-CAM Guidelines
- Relations - definitions, examples
- Reasoning, inferred annotations
- Use of evidence
- GO-CAM Paper
- Annotation File Pipelines
- File submissions
- Jenkins jobs and reports
- GO rules
Wednesday, January 24th
- GOC website - move more detailed documentation off of the website, but provide links to internal (i.e. wiki or readthedocs) pages
- Annotation Guidelines - use GO handbook chapters wherever possible
- Overall GO philosophy
- Annotation of specific areas of biology, e.g. apoptosis, signaling, transcription
- Give GO-CAM examples wherever possible
- Annotation of specific types of experiments, e.g. ChIP
- Types of gene products, e.g. transmembrane proteins
- Evidence Codes
- Annotation Extension
- File Format Guide
- Annotation Guidelines - use GO handbook chapters wherever possible
Thursday, January 25th
- GOC website - move more detailed documentation off of the website, but provide links to internal (i.e. wiki or readthedocs) pages
- FAQs
- Ontology Documentation
- GO Database
Friday, January 26th
- GOC website - move more detailed documentation off of the website, but provide links to internal (i.e. wiki or readthedocs) pages
- Annotation Tools, Downloads, and Beyond
- Contributing to GO
- Submitting GO Annotations
- Other Useful Links
Procedure
- All documentation will be reviewed based on the priority listed in the agenda (all is the objective)
- Documentation may be located in the wiki, google docs, geneontology.org, GitHub and ReadTheDocs. The goal of the Docathon is to consolidate.
- Curators: first on the wiki, and later we will decide if this is the final location.
- Ontology documentation: first: clean up the wiki, and see what needs to be moved (either on readthedocs or on the wiki- to be decided)
- Software developer documentation: GitHub
- User documentation: first on the wiki, later on the geneontology.org
Logistics
Accommodations
There are two ways travelers can secure their reservation:
1. By Phone- 1-800-325-3535 and mention "Gene Ontology" 2. Via the Web- https://www.starwoodmeeting.com/Book/GeneOntology
Getting there:
Taxis also available from either MacArthur or Ashby
Parking
We will try to reserve as many spots outside the front entrance as we can. Look for spots that say "GO meeting". if you see one, take it.
If there is none available, don't worry. Park temporarily and grab a parking pass from the person at the gate, you can then park in the garage:
Meeting Location
Berkeley Lab, Aquatic Park Offices
Lawrence Berkeley National Laboratory (LBNL), Aquatic Park office of Biosciences Operations at Berkeley Physical address: 717 Potter Street, Berkeley, CA 94710
Meeting room: room 181
Travel between hotel and meeting
- Walk, 1.3 miles
- Free Hollis Shuttle
- Taxi/Lyft/Uber
Aim to be at the lab for 9am
Participants
Name | Organization | Comments |
---|---|---|
David Hill | Jackson Laboratory | |
Kimberly Van Auken | Caltech | |
Pascale Gaudet | SIB Swiss Institute of Bioinformatics | |
Huaiyu Mi | USC |
LBL:
- Chris Mungall
- Eric Douglass
- Seth Carbon
- Suzi Lewis