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This seems to be failing on `rppr` reroot. I'm not sure what the issue is because I've used this exact same command on other files for some compositions of Bacteria I can't get this command to work.
…
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Dear @4ureliek,
Thank you for all the available and resourceful scripts. I have been using parseRM and now I am playing around with TEorthology and it is making my life really easier. I would like …
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There may be a JN.1.5 (ORF1b:V1271T=NSP13:V348T; G17278A, T17279C), C5986T, and ORF1a:P1921S (NSP3:P1103S; C6026T) first detected in Ticino, Switzerland. This sublineage has a proposed parent https://…
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### Description of the bug
RIght now, only GTDB-Tk taxonomic classification is reported in the BIN_SUMMARY process.
But now that nf-core/mag can handle more than prokaryotic/archeal MAGs, it would b…
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Hi,
I am getting this error when I try to run pplacer. I think it has something to do with the tax table that taxtastic generated but I'm not sure.
```
pplacer -c 0.refpkg/ combo.sto
Running …
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Would it be possible to randomly/automatically select and exemplar in cases where the tips with the same mapping are monophyletic? A curator asked, and it seems like the curator doesn't have anything …
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Hello Roth,
python F100_Prok_Recombination/00d_Workflow_Scripts/01b_fastANI_scatter_pyGAM.py -i fastANI_clade_Ic -s SAR11_Clade_Ic -m True -o AF_ANI_clade_Ic.pdf -xmin 88.0 -z True -g True -p 15.0 …
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Any advice for how to remove contaminants identified by Omark?
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### Setup
I am reporting a problem with Biopython version, Python version, and operating
system as follows:
```
3.7.12 | packaged by conda-forge | (default, Oct 26 2021, 05:37:49) [MSC v.1916 …
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Hello, I'm new to de novo assembly, I ran the command with no additional flags:
./hifiasm -o snake -t 32 reads1.fastq.gz reads2.fastq.gz reads3.fastq.gz
The assembly stats were great, exactly as e…