Difference between revisions of "WBConfCall 2020.08.20-Agenda and Minutes"
From WormBaseWiki
Jump to navigationJump to searchm (→Agenda) |
|||
Line 21: | Line 21: | ||
==Minutes== | ==Minutes== | ||
− | === | + | ===WS279 Data Freeze=== |
− | * | + | * Michael WS 279 dependent on when the 278 build finishes. WS 278 hopefully done end of next week or soon after. |
+ | |||
+ | ===Help Desk=== | ||
+ | * uncharacterized eukaryotic protein-coding gene with an intron | ||
+ | ** https://github.com/WormBase/website/issues/7829 | ||
+ | ** need more information, maybe Cecilia should ask them. | ||
+ | * Help with annotation file for ws235 version | ||
+ | ** Email on Monday Aug 17 | ||
+ | ** Need something parsed from GFF. Raymond will ask who sent them the original file. Exon Rank is an ensembl thing, might be from ensembl-biomart, not WormBase. | ||
+ | How much formatting do we owe users, could give a GFF3 and let them figure it out. On ws220 they may have used WormMart, which we don't have anymore. "It loo | ||
+ | ks like you used a service we don't provide anymore, we have the data in a different format, is that okay" |
Revision as of 15:46, 20 August 2020
Contents
Agenda
WS279 Data Freeze
- When?
Help Desk
- uncharacterized eukaryotic protein-coding gene with an intron
- Help with annotation file for ws235 version
- Email on Monday Aug 17
Handling species lists
- Handling species in WormBase and Alliance
- Want to dump "affected_by_pathogen" field for phenotypes listing pathogenic species
- Want/need to synchronize Postgres with Hinxton and ACEDB
- Would like a primary species list
- Should clean up existing species data, then possibly move to a centralized species tool at the Alliance
- Source data: NCBITaxonomy
- There is some churn on taxonomy ids, e.g. one taxonomy id is merged into another (although it appears to be relatively infrequent compared to other CVs or ontologies)
- We will need a plan for tracking changes and updating our curation data as needed
Minutes
WS279 Data Freeze
- Michael WS 279 dependent on when the 278 build finishes. WS 278 hopefully done end of next week or soon after.
Help Desk
- uncharacterized eukaryotic protein-coding gene with an intron
- https://github.com/WormBase/website/issues/7829
- need more information, maybe Cecilia should ask them.
- Help with annotation file for ws235 version
- Email on Monday Aug 17
- Need something parsed from GFF. Raymond will ask who sent them the original file. Exon Rank is an ensembl thing, might be from ensembl-biomart, not WormBase.
How much formatting do we owe users, could give a GFF3 and let them figure it out. On ws220 they may have used WormMart, which we don't have anymore. "It loo
ks like you used a service we don't provide anymore, we have the data in a different format, is that okay"