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@emmahodcroft ---
I was just working through the tb tutorial here at https://nextstrain.org/docs/getting-started/tb-tutorial. With my local version of augur (on `master`) and with the lastest versi…
trvrb updated
5 years ago
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David and I just created trees based on Duncan's analysis of the sequences I gained recently. It would be really great if there was a way to reconstruct the sequences at internal nodes of the trees. …
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When cloning the repo it seems the example data is not pulled.
My (maybe stupid) question:
- Is there any example data meant to be distributed? (I read some references to it in the tutorials)
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Hi Richard, Dear colleagues,
I am using the treetime mugration tool and it works fine for most of my data but I am having this kind of error message on my latest dataset
I wonder if there is a limit…
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As far as I can tell from reading the PanX docs, there's currently not much information describing the data in the output files, nor how to use the visualization tool beyond a few short animations. Fo…
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I installed treetime but when I tried running it I encountered an error which can be found below:
```
0.00 -TreeAnc: set-up
0.06 -TreeAnc: loading alignment failed...
0.06 -Tre…
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When working on a tree with a lot of polytomies and large number of states in real space the marginal subtree likelihood profile (`node.marginal_subtree_LH`) underflows mid-loop. Perhaps computations …
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https://github.com/neherlab/treetime/blob/ced94a7f6651971d3b56ed1113d8979aa48d6ba5/mugration.py#L127
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Hi, trying to run Treetime, i get the following error:
Traceback (most recent call last):
File "/home/bio/treetime/ancestral_reconstruction.py", line 4, in
from treetime import TreeAnc, GT…
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Hi,
I'm writing you on behalf of the Debian Med team which is a group inside Debian with the objective to package free software in life sciences and medicine for official Debian. It would be interes…