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Richard raised that it would be nice to add genome annotations to ENA submissions. We discussed on dev call, if we do this, we could potentially also make the annotations available from Loculus direct…
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I've noticed that the frequency panel is very laggy even on high-end hardware when there are 2000 possible colorings (as for Nextclade lineages) in the Europe build: https://nextstrain.org/groups/nehe…
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I have installed it as mentioned in the given link https://github.com/neherlab/pan-genome-analysis/blob/master/README.md
step 1
Installed:- git clone https://github.com/neherlab/pan-genome-analys…
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*Low severity*
**Current Behavior**
The build selector of nextstrain.org auspice does not show available groups and group types (`groups`/`community`) in contrast to how one would expect.
**How…
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Hi Andy @andywer ,
We are having a great success using your library and it unlocks all kinds of new possibilities for client-side compute, and, hopefully, will serve some COVID-19 researchers soon:…
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Hi. Hope you're all ok.
I'm using treetime on google colaboratory and installed just like the tutorial. I've tried de .tsv and .csv file but it ends the same way everytime:
"MissingDataError: ERR…
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Hi,
I've been generating the following error using an older version of TreeTime and the latest version:
```
/home/ajv37/miniconda3/envs/treetime/lib/python3.12/site-packages/treetime/clock_tree…
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nuc:7851T is not masked. What's going on here? Why is it not all on one branch? Is this a broader iqtree problem just showing up drastically like this or something else?
Build for example: https://…
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# 🙋 Feature Request
## 🔦 Context
Currently all the data (default scenarios, case counts, age and severity distributions)
https://github.com/neherlab/covid19_scenarios/tree/master/src/…
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search the node in the tree with the closest sequence. In general, this requires pairwise alignment. I implemented a banded pairwise alignment here:
https://github.com/neherlab/timetree_viewer/blob/ma…