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https://mp.weixin.qq.com/s/8LWMm7wwfKehGxTNCqEwkw
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I saw that UKHSA is monitoring a potential AY.119.2/BA.1.1 recombinant. I couldn't find an issue so I tried to figure out which cluster they meant.
This was one here was noticed amongst others by @…
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Issue: as it says on the tin. Most BA.2.38 are called as BA.2 by the latest Nextclade. This can be seen by running on any sample of recent sequences from India, of which a substantial proportion are B…
silcn updated
2 years ago
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Hello, I've tracked down some strange "insertions" and found they are the result of some strange decisions by the aligner. Pictured is the alignment as output by nextclade CLI
![wonky](https://user-i…
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**Current Behavior**
ncov workflow crashes at the join_metadata_and_nextclade_qc rule. The key "Nextclade_pango" doesn't exist in the input files to this rule.
**Expected behavior**
I expected "N…
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While looking for survivors AY.s clades i met this one that recently reached 100% in Saint Vincent and Grenadine.
Defining mutation:
nuc: C29253T, N:S327L
then
nuc: C2455T, C10605T, A14788G, G165…
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Description
Sub-lineage of: BA.2.3
Earliest sequence: 2022-01-31
Most recent sequence: 2022-04-26
Countries circulating: Spain(24/27 Asturias), USA, England, Denmark, Germany, Italy
initially …
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**Submitting author:** @wrightaprilm (April Wright)
**Repository:** https://github.com/wrightaprilm/treesiftr
**Version:** v1.0.0
**Editor:** @juanklopper
**Reviewer:** @ethanwhite, @rachelss
**Archiv…
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Hello,
Thanks for this great tool to detect the recombination events in the bacterial genome！
I have obtained the r/m values in the gubbins.per_branch_statistics.csv file, and next I want to ca…