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ClinGen / gene-and-variant-curation-tools

ClinGen's gene and variant curation interfaces (GCI & VCI). Developed by Stanford ClinGen team.
https://curation.clinicalgenome.org/
MIT License
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Assess the upcoming ClinVar changes and potential impact on the VCI #336

Closed cgpreston closed 3 months ago

cgpreston commented 10 months ago

ClinVar is updating their XML format: https://github.com/ncbi/clinvar, we should do an assessment to determine if this will impact our ability to pull and display ClinVar data in the VCI.

Larry plans to update the ClinVar submission service, which we will need to test as well when he has that piece done.

SP ticket: https://broadinstitute.atlassian.net/browse/CGSP-631

cgpreston commented 9 months ago

Some relevant details Larry mentioned:

I’m not sure if eutils data structures will be impacted. I imagine they will because they are add 2 new classification types: SomaticImpact and Oncogenicity So you’ll need to be able to group by these since they no longer have a single interpretation (soon to be classification) at the variant level

cgpreston commented 9 months ago

Mentioned by Melissa Landrum on 10/6/23, they will not do the initial XML switch until January 2024, with an earliest deprecation of the current format in March 2024.