-
see GO ticket go-ontology/issues/23135
-
Good day everyone.
9 new sequences of a BA.2 strain were detected. Samples were collected between September and November 2023 from Gauteng, Mpumalanga and Limpopo, South Africa. NextClade assigns …
-
`--output-csv` seems to be producing `;`-sep not `,`-sep
The `--output-tsv` is fine.
```
% cd dattaset-dir
% nextclade run --input-fasta seqiences.fasta ---dataset-dir . --output-csv out.csv
…
-
Hi, when I am running **plot_diff_cladogram**, an strange error occured.
"""
Select 50 significant features ...
Provided use_taxa_num: 200 >= total effective taxa number. Skip the selection ...
…
-
Hi, first of all I want to say thanks for developing such a cool tool for analyzing microbiome data! It is super helpful.
I am currently having issues with the top_taxa function. I have a phyloseq …
-
In https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=393765&lvl=3&lin=f&keep=1&srchmode=1&unlock
![image](https://github.com/globalbioticinteractions/nomer/assets/1084872/550ebec8…
-
Following on our discussion of the main pre-visualization problem, i.e. How can we define and build a richer tree, with arbitrary properties on its elements? In one sense, this is a solved problem in …
-
Sometimes, what's most interesting are the mutations that are new and different from the point of attachment, e.g. when looking for new SARS-CoV-2 lineages.
This would mean filtering out mutations …
-
Hello,
I am trying to run contrast-fel on HPC using this command:
hyphy fel --alignment nt.fasta --tree tree.nexus --branches --output nt.json
The tree is a tree rescaled in time with ancest…
-
In the output of `nextclade dataset list` it would be very helpful to have an indication of whether clades can be assigned using each dataset. For example, dataset nextstrain/flu/h3n2/ha/EPI1857216 c…