Difference between revisions of "WBConfCall 2023.03.02-Agenda and Minutes"

Revision as of 17:45, 2 March 2023

#8959 Is it possible to get WS276 JBrowse again? Scott set it up.
#8965 I have tried downloading gene data to CVS or any other format. It only shows html format. It seems to be the links for all buttons are broken. This is probably related to the Caltech power outage today.
#8966 C. inopinata ortholog info? This is part of the discussion about non-elegans species community curation

VC2010 (CGC1) from Erich Schwarz (Cornell)
20 new assemblies from Cristian Riccio (Sanger) https://github.com/WormBase/website/issues/8958

What is the current WormBase-preferred method of receiving community-driven manual curation data for S. ratti and what types of changes are sufficient?
- Researchers can keep a slim version of GFF and a CSV about gene info including gene history and information needed to update gene pages. These can be stored on github
- Wen and Hinxton will communicate with them about setting a standard of community curation.
Gene pages at the Alliance
- Would minimally require a Basic Gene Information (BGI) JSON submission to the Alliance File Management System (FMS)
- BGI entries minimally require primary key (curie), taxon, symbol, and SO term
- agr_schema ingest JSON specifications: https://github.com/alliance-genome/agr_schemas/tree/master/ingest
  - gene.json specification: https://github.com/alliance-genome/agr_schemas/blob/master/ingest/gene/gene.json
  - basicGeneticEntity specification: https://github.com/alliance-genome/agr_schemas/blob/master/ingest/basicGeneticEntity.json

piRNAs from Wen Tang (Ohio State University College of Medicine) https://github.com/WormBase/website/issues/8962

Parasite workshop invite WormBase to participate in their discussion on how to establish gold standards on parasite community curation

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 == S. ratti community curation ==
 * What is the current WormBase-preferred method of receiving community-driven manual curation data for S. ratti and what types of changes are sufficient?
+** Researchers can keep a slim version of GFF and a CSV about gene info including gene history and information needed to update gene pages. These can be stored on github
+** Wen and Hinxton will communicate with them about setting a standard of community curation.
 * Gene pages at the Alliance
 ** Would minimally require a Basic Gene Information (BGI) JSON submission to the Alliance File Management System (FMS)