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### Context
I run some nextstrain builds for the neherlab group on a cluster in a cronjob and they work reliably. The one thing that makes them fail is expiry of `nextstrain login` refresh tokens eve…
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Ao consultar a rota `https://api.coronaanalytic.com/brazil` agora há pouco, vejo que o último update foi `2020-03-18T20:00:00.000Z`... Qual a fonte de dados que vocês usam? O pessoal do [saude.gov.br]…
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only have 3 seqs on GISAID,from Canada and South Africa.Slow, so monitoring.
**EPI_ISL ID** :EPI_ISL_18125259, EPI_ISL_18164467, EPI_ISL_18168185
https://nextstrain.org/groups/neherlab/ncov/BA.2…
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hi, when i was running refine, an issue occurred. Details are as follows. Please help me for further analysis.Thanks!
```
augur refine \
--tree results/tree_raw.nwk \
--alignment results/al…
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Hello!
I have a simple example where midpoint rooting fails. The tree ([tree.zip](https://github.com/PierreBarrat/TreeTools.jl/files/12408225/tree.zip)) looks as follows:
![image](https://github.com…
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Hello TreeTime team,
I am getting a Newick formatting error when running TreeTime with a large dataset. The tree contains 195,351 SARS-CoV-2 sequences, was built using FastTree, and does contain …
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## New lineage proposal
by Michael K. Edwards
### Description
Sub-lineage of: B.1.1.317
Earliest sequence: collected 2020-11-17
Most recent sequence: common in Russia and Poland (as of mid-Apr…
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BA.2.86
Branches (more than 1seq only):
**1 = BA.2.86.1 = Orf1a:K1973R (A6183G), C12815T query :A6183G, C12815T**
1a : Orf1a:Y621C (A2127G) Query : A6183G, C12815T, A2127G
1a1: G2527A, ORF1a:P…
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I would like to ask you to use nextclade better.
I want to analyze new pathogens that do not correspond to the species provided by nextclade (covid, mpox, etc.) using nextclade. I understand that a…
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Left this on the associated PR without realizing it was PR.
https://github.com/neherlab/treetime/pull/205
[hcov-229e.zip](https://github.com/neherlab/treetime/files/11807773/hcov-229e.zip)
I…