Difference between revisions of "WormBase-Caltech Weekly Calls"
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== March 12, 2020 == | == March 12, 2020 == | ||
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+ | === Cancelled meetings === | ||
+ | Meetings are being cancelled, including Biocuration 2020. Ranjana will update our Wormbase meeting page with a note to users | ||
=== Storing invalid/avoided WBPersons and email addresses in Postgres === | === Storing invalid/avoided WBPersons and email addresses in Postgres === |
Revision as of 18:41, 12 March 2020
Contents
Previous Years
GoToMeeting link: https://www.gotomeet.me/wormbase1
2020 Meetings
March 5, 2020
WormBase curation
- Tim Schedl: WB needs to do more curation for phenotype and variation
- Doing community curation, but not fast enough
- Would like to work on more automation; e.g. having Textpresso return all sentences mentioning an allele in papers that are predicted to have phenotype data
Alaksa
- Joesph may be able to meet with Raymond
- How can the tool be maintained? If it can't it needs to be pulled
Single cell expression tool
- Tool is here: http://de.wormcells.com/
- What do we need to consider for pulling into WormBase?
- Where does the data sit and how does the tool access it? Can we integrate the data more into WormBase (e.g. local curation databases)?
- Would want it to be in sync with WormBase releases
- May not need to reprocess with every release with current (small-ish) data set
- Fully integrated tool versus an embedded tool?
Name service updates
- For now we will stick to the CGIs that Juancarlos has built for variations and strains
- Juancarlos can discuss with Matt R. and Sibyl the possibility of integrating API requests to the Name service into a CGI form for the OA
March 12, 2020
Cancelled meetings
Meetings are being cancelled, including Biocuration 2020. Ranjana will update our Wormbase meeting page with a note to users
Storing invalid/avoided WBPersons and email addresses in Postgres
- Currently Chris has been maintaining (on Google sheets) a list of papers, people, and email addresses to omit from future WormBase outreach requests
- Valerio would like to add these to Postgres to keep a more central repository of them
- Chris would still like to be able to readily update/edit the content of those lists
Updates on Alaska
Raymond and Eduardo met with Joseph and decided to have the tool running as is for now even though maintaining it can be hard The future plan is to move the platform to Google colab to reduce maintainance work.
Noctua GO-CAM updates
- Noctua is a production tool available for annotations
- Create as many interconnected models and make available for curators is the ongoing goal
- React models are in the process of being imported
- Real time validation messages as curation is being done is being worked on
- Kimberly will send out the details for logging into Noctua