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Hi all,
First off, thank you for your work on this package 👍
I've been trying to run nextclade on the command line, preferably via docker.
```
>docker run -it --rm --volume="C:\Users\Marc\D…
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Hi, thank you very much for providing such a useful tool.
Here are two problems I encountered when running treetime:
1. The following error occurs when I run treetime using a tree built by Raxml.
…
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@ivan-aksamentov here's my progress so far
OS: MacOS version 11.1
Bash: GNU bash, version 5.1.4(1)-release (x86_64-apple-darwin20.2.0)
Conda 4.9.2
```sh
conda activate nextalign # empty conda…
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Thank you for making available `treetime`. Wondering how to **get probability values for ancestral states** and if less optimal reconstructions can be outputted somehow.
Thanks again,
Sergios
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How do I preserve the old behavior from version 3? The PR #62 introduced new options, but I tried various combinations of the flags and none gave the old effect. Is this even possible? Maybe the curre…
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Dear Colleague,
I encountered an error while trying to run the command on my local PC:
treetime --aln aligned_pseudogenome.fas --tree Kleb_pneumo_tree_with_tip_labels.nwk --dates tree_date_for_R…
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# 🐛 Bug Report
We are missing the bold pink line with Patients in hospital (data) in the results. It seems that was accidentally removed since last update!
look at ChartCommons.ts (lines 30…
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I made a terrible mess there, @rneher could you please clean this up and prepare for the end-user's eyes:
https://github.com/neherlab/webclades/blob/feat/landing/packages/web/src/components/About/Abo…
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Hello,
Nextclade is a fantastic tool and has saved me tons of time.
One small request, the "Export to CSV" output seems to be using semicolons as the field separator instead of commas. This for…
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Is it possible to run augur refine with multiple threads? If not, it would be very useful, as this step seems to be a bottleneck in the nexstrain pipeline.