Standards Call 2022-03

Agenda

IMPORTANT: Due to non-synchronized DST switching we will meet one hour earlier for those people in Europe, but the usual time for those in North America.
Review of v1.4 milestone : Goal is to present the v1.4 release at the AIRR VI meeting, discuss and decide what (and what not) to include.
Germline-related objects - open questions:
- #562
- #590
Generic Contributor object: Schema has now multiple data structures that annotate researchers involved in a study and their roles. We should try to consolidate this. (#552)
Call 2021-08 notes: Follow up on ComRepo feedback (also see Call 2021-12), suggested restructuring:
- TSV output SHOULD be supported for all data that is commonly represented in tabular structures
- All API endpoints SHOULD return JSON encodings
- For some API endpoints it is possible to request TSV files
- For any endpoints supporting TSV encodings these will be clearly documented in the API Spec and/or Documentation
- Endpoints that do not support TSV can reject TSV requests
- If API endpoint returns a field then the content of that field in JSON and TSV MUST be equivalent
- Bottom line: API Endpoints that are JSON or JSON+TSV should be defined in the spec/docs - the repositories don't get to choose.
Cell schema (#409) and associated pull request (#574)
Restarted activity on (#404): Should we try to have a closer integration of the Receptor object and MHCGenotype from the Germline schema?

Germline-related objects: Most immediate issues are solved. MHC will need more time and will be considered to be a separate issue. Will introduce split between MHC class I and II alleles. Also, we need a vocabulary for the experimental support for a given allele call. Will continue discussion in #573.
Revisited issues of the v1.4 milestone: Push a couple of those to v2.0 (e.g., Manifest), remaining issues should be doable until mid-May.
Contributor object: Agreement that this consolidation is in general the right thing to do. As CRediT is now receiving increasing support from publishers and ORCiD, we will adopt this vocabulary for the contributor role. Submission specific roles currently foreseen in the AIRR Schema (study contact, data collection, data submission) will are independent of CRediT and will therefore use separate tags/ keywords. As this object will create incompatible changes the target will be pushed to v2.0. (#552)
Only touched briefly on Cell (#409) and Receptor (#404) object, will follow-up on Github and in the next call.