Previously circulating VOC and VOI to "De-escalated"

[3dgiordano]

I have discovered that in this project it uses the table of variants that I keep up to date.

Yesterday I made a change to reflect the way the WHO calls variants that were VOC or VOI but are no longer in circulation.
Now exist PVOC (Previously circulating VOC) and PVOI (Previously circulating VOI).

WHO definition: "A designated VOC or VOI which has demonstrated to no longer pose a major added risk to global public health compared to other circulating SARS-CoV-2 variants, can be designated as previously circulating VOCs or VOIs." source: https://www.who.int/activities/tracking-SARS-CoV-2-variants#PageContent_C296_Col00

You can now use the PVOC and PVOI replacement criteria to pass them to "De-escalated" that variants.
Or if you want to continue working as before, you can return its previous value by replacing PVOC with VOC and PVOI with VOI.

vocal/vocal/update.vocalDB.py

Line 278 in 6ad15cf

sc2_anno_df["type"].replace([np.nan, "FMV"], "De-escalated", inplace=True)

Regards.

[hoelzer]

Hi @3dgiordano ! Thanks a lot for reaching out and letting us know about the changes!

That sounds very reasonable to implement the de-escalation labels.