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Transferred from https://github.com/sars-cov-2-variants/lineage-proposals/issues/1814
KP.2+C832T+Orf1a:V28I,S:S31del
Query: T14700C ,C832T, C897A
No. of seqs: 65
[usher](https://nextstrain.org/fet…
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From branch 36 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1253
JN.1+Orf10:P10S+S:F456L
Query: T22928C,C26753T,C18894T,-G24872T,-A532G
No. of seqs: 50 (Australia 1 Brazil 34 …
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```
# 22 BNT162b2-vaccinated sera collected 1 month after dose 3 and 20 sera collected from COVID-19 patients who were not vaccinated but infected by BA.1 sublineage
Fluorescent focus reduction n…
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Git, GitHub and others have been working on supporting the rename of the default branch of repositories from `master`. Most agreed with a new default of `main`.
References:
- Initial announcement …
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transferred back from https://github.com/cov-lineages/pango-designation/issues/2680
In the batch uploaded today from Philippines i noticed a weird a double AA mutation in the spike in a row.
Being…
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This applies to the sars-cov-2-bot account on usegalaxy.org. My personal account on usegalaxy.org is slow, but not that slow, and searching on test.galaxyproject.org or on my laptop is snappy, but tho…
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From branch 77 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1253
JN.1.7+C28849T+S:F456L,Orf1a:A3497V
Query: C28849T,T22928C,C10755T
No. of seqs: 20 (Franch 1 Germany 1 UK 17 U…
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KR.1 got its DeFLiRT sublineage likely in Philippines
Defining mutations: KR.1 >> C6568T > C6388T, S:S31del (del21653-55)
(New) Query: C6568T,C6388T,T3565C,C897A (by @aviczhl2 )
Samples: 3
Countr…
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I love Usher, it's so useful. I'm not sure whether this is the right repo to open this issue, so please refer me on if this is not the right one.
One usability issue I have with Usher is that I can…
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I am building PanGraph for Sars-CoV2 sequences (around 50k). I observed that the ordering step is a bottleneck here. Is it possible to pass a tree as an argument and bypass the ordering step in PanGra…