Age bins for VirusSeq export

cidgoh / DataHarmonizer

A standardized browser-based spreadsheet editor and validator that can be run offline and locally, and which includes templates for SARS-CoV-2 and Monkeypox sampling data. This project, created by the Centre for Infectious Disease Genomics and One Health (CIDGOH), at Simon Fraser University, is now an open-source collaboration with contributions from the National Microbiome Data Collaborative (NMDC), the LinkML development team, and others.

MIT License

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Age bins for VirusSeq export #217

Closed cmrn-rhi closed 3 years ago

cmrn-rhi commented 3 years ago

The CanCOGeN-COVID19 template no longer appears to have the original age bins 90-99 and 100+. We should revert to those bins in the base template and only have 90+ substituted in for the VirusSeq Portal export.

Confirmed with @griffie

ddooley commented 3 years ago

I did make that change in google sheet but that can/should be reverted back. Its not in DataHarmonizer itself now. Just a pull request that I won't act on.

griffie commented 3 years ago

Is there a pull request? I didn't make one....

ddooley commented 3 years ago

ah, i should have said branch!

cmrn-rhi commented 3 years ago

OK. I've updated the template as follows: host age bin "90 - 99" and "100+" convert to "90+" via the "EXPORT_VirusSeq_Portal" field

ddooley commented 3 years ago

I've tested this out and it works well. It will be part of next release