Add Nextstrain functionality #42
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@hmacdope this is now working for all viruses/genes that we have available in https://github.com/asapdiscovery/choppa/blob/nextstrain/choppa/data/metadata/nextstrain.json. There are a few viruses that we'd like to include (MERS-CoV, WNV) but their NextStrain entries are too borked (gene nomenclature is way off). Can you check why CI is failing here and review plz? |
hmacdope
requested changes
Sep 25, 2024
Co-authored-by: Hugo MacDermott-Opeskin <[email protected]>
Co-authored-by: Hugo MacDermott-Opeskin <[email protected]>
hmacdope
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hmacdope
approved these changes
Sep 26, 2024
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With CLI endpoint so that we can download gene mutation data from https://nextstrain.org/pathogens#list