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cov-lineages / pango-designation

Repository for suggesting new lineages that should be added to the current scheme
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lineage notes curation #2280

Open RaphaelRaphael opened 1 year ago

RaphaelRaphael commented 1 year ago

Proposition of curation of lineage_notes.txt file (formating issues etc... )

lineage_notes.txt

ciscorucinski commented 1 year ago

@RaphaelRaphael I just quickly created this branch to see the changes more easily. Having a standard format would be much easier! However, there were a few instances where replacing US with USA caused unintended results. I seen the following...

Oh, and there are 2 separate repositories where the issues are located in. cov-lineages/pango-designation and sars-cov-2-variants/lineage-proposals

KatSteinke commented 1 year ago

Might I pop in with a suggestion while you're at it? Most lineage aliases have "Alias of [full lineage]" in their descriptions, but I've stumbled over a handful of lineage aliases in the newest lineage notes (specifically HF.1 and sublineages) that just state the full designation of "XBB.1.16.13.1" (etc) with no "Alias of" - I don't think that's in your set yet, though? I think it'd be helpful to have a unified format for that - for example, I have a script that parses the notes and relies on the "alias" part to be there (to differentiate from lineages named in other contexts such as "recombinant of [lineage] and [lineage]"). What do you think?

ciscorucinski commented 1 year ago

Thank you for bringing that up. Usually the missing "Alias of" does get fixed, but they can easily be missed for some time. This will have to be fixed, too.

DailyCovidCases commented 4 months ago

Please close this issue