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**New proposed recombinant lineage**
**Description
Recombinant cluster between:** AY.4 x BA.1
**Earliest Sequence:** 2022-01-17
**Latest Sequence:** 2022-01-22
**Countries circulating:** UK (…
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**Description**
**Recombinant between**: AY.x (my guess is AY.44, based on Nuc mutation A4015G) & BA.1.1
**Earliest sequence**: 2021/12/24 (US-MA)
**Most recent sequence**: 2022/1/18 (US-UT)
**Cou…
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Hi everyone, I'm just opening this issue to highlight that there are several sequences with an unusual mutation pattern in our most recent upload from South Africa, which will potentially represent tw…
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Nextclade is very helpful for me to analysis the clades, mutations for my local SARS-CoV-2 sequences. But if nextclade can be developed to analysis other viruses, it will be much better!
The hypoth…
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I think it would be worth designating a BA.2 sublineage with S:W64L as it could have a growth advantage. It's early to tell, but the mutation popped up in both South Africa and Denmark recently (one n…
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Auspice JSON configuration files support a `display_defaults.language` property to set the default language for the UI, [as documented here under the "Dataset (JSON) configurable defaults" section](ht…
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Hi Nextstrain team!
I was wondering if you could allow for submission of multiple files for the nextclade pipeline (clades.nextstrain.org). In my organization consensus sequences arrive as a batch …
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A lot of users seem to get the following type of error:
```
Job 3: Exporting data files for for auspice
augur export v2 --tree results/global/tree.nwk --metada…
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I noticed that nextclade works if I only give the S gene sequence as input instead of the full genome. The nextclade.tsv file does not show any errors as far as I can see and I get a clade classificat…
gbbio updated
2 years ago
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doesn't this pin require manual updates of the code whenever we add a new clade? @corneliusroemer
https://github.com/nextstrain/ncov-clades-schema/blob/master/src/generate_clades_json.py#L10