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Hi together,
recently we sequenced 12 samples that could not be assigned a lineage via pangolin (None).
They all share many signature mutations with BA.2, especially 7 of them that were apparentl…
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Hi
I use gplearn.functions.make_function() to bulit an 'arctanh' function for SymbolicRegressor
```
from gplearn.fitness import make_fitness
from gplearn.functions import make_function
from gpl…
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Hello,
I've just noticed all the reported class probabilities are equal to 1.0 in my run for 220k genomes from GISAID. In earlier releases of pangolin, I was getting some probabilities other than 1…
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Tracking issue for the `bool::then_some` method, which abstract the following pattern:
```rust
if some_condition {
Some(t)
} else {
None
}
```
`bool:then` has previously been stabi…
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I've been trying to get this to run for awhile with no success and wondering if someone could offer any help. I have created the snp matrix and a phen vector with continuous variables that have been …
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Currently have a mode where if a lineage designations file is input, usher is expected to add these sequences somewhere even if there is more than one maximum-parsimony place for it. Want to force new…
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**Describe the bug**
When uploading a DIA-NN report.tsv file the following error is displayed in the terminal:
> param\parameterized.py:337: DtypeWarning: Columns (2) have mixed types.Specify dtype…
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Hi,
I am looking to run iqtree on a cluster and would like to be able to take advantage of `-nt AUTO`. However, by default, iqtree is detecting the total number of cores on the given compute node,…
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Suppose I split a data set into: XT/YT (training) & XH/YH (holdout)
I train a Lasso model w/ one HP: lambda in HP_Grid.
1. For each lambda, I train the model within subsets of XT/YT, using my favo…
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http://www.iqtree.org/doc/Command-Reference
```
-fast
Turn on the fast tree search mode, where IQ-TREE will just construct two starting trees:
maximum parsimony and BIONJ, which are then opti…