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Hi @shenwei356, I just upgraded to 0.6.1 and I found some unexpected behavior when querying the lineage for taxid [446045](https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=446045) (Drosophi…
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See the readme: Example 2. Custom settings. The error is in the output:
`16:29:14.561 [WARN] taxid 2746931 not found`
`--SpeciesBL testspecies2exclude.txt` consist of
```
$ cat testspecies2…
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hello there!
Im sorry if this is a stupid question but I am trying to build a database comprising of both archaeal and bacterial sequences from GTDB and viral refseq sequences. I would also like to u…
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Hi,
I have >5000 genomes provided as a list of accession numbers and 11 genomes as genbank files. I would like to modify the labels for the genomes from accession numbers to custom labels using the `…
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Hi Nuno, tried to run installer. Worked for a while then..
```
[INFO] Installing blast...done.
[INFO] Installing metabinkit...
'R/lca.R' -> '/home/tutorial/R/lca.R'
'R/metabinkit.R' -> '/home/t…
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Adding the `--json` flag to the example included in the documentation for [taxonkit list](https://bioinf.shenwei.me/taxonkit/usage/#list) produces output that is not well-formed JSON.
```
$ taxonk…
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Hi!
The following command does not output the species, I'm not sure why. Is this a bug or related to the taxonomy of this species in NCBI?
```
echo '272799' | taxonkit lineage --data-dir $BLAST…
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## Expected Behavior
`mmseqs convertalis --format-mode 0 --format-output query,target,evalue,pident` writes out table of `mmseq search` hits in blast M8 format, but `pident` seems to be written as …
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Hello,
I am getting duplicate values from name2taxid when running
taxonkit name2taxid -i 2 filename
My input:
ESP_3 Bacteria
ESP_84 Bacteria
ESP_136 Bacteria
ESP_149 Bacteria
ESP_166…
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目前有实现类似tidyr::separate()的功能吗？
虽然有替代的方案，如下面命令，但是貌似每行必须有相同的列数，不能处理NA。
sed 's/;/\t/g' tax.txt | csvtk add-header -t -n taxid,kindom,phylum,class,order,family,genus,species