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Hi Shenwei,
We are exploring building a database where we can include bacteria and archaea (from GTDB) and viral database from NCBI, while using NCBI style taxonomy but grafting the GTDB taxonomy …
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Hi there,
I have MAGs is generated from my own samples and annotated using GTDB-Tk. They have been de-replicated leaving me with a unique set which are not genetically close to any reference genome…
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Hi! Everyone.
what's the format of gd_proteins_diamond_lineages_renamed.tsv? How to add lineages infomations to diamond result?
Thank for your reply!
--zcf
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### Prerequisites
- [x] make sure you're are using the latest version by `taxonkit version`
- [x] read the [usage](http://bioinf.shenwei.me/taxonkit/usage/)
### Describe your issue
* [x] des…
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In an early developmental version of hecatomb I merged the 'bigtable' (wasn't called that at the time!) to a list of phage taxonomies. This added a column called virus_type that allowed for simple par…
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### Operating System
macOS
### Other Linux
_No response_
### Workflow Version
v1.1.2
### Workflow Execution
EPI2ME Desktop (Local)
### Other workflow execution
_No response_
### EPI2ME Versi…
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Hi
Thanks for a great tool. Great to be able to process the output files of kraken without knowing all of the TAXIDs and how they are linked together.
Have you considered making extract_kraken_…
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right now it's not really specified anywhere 😆
```
ident,superkingdom,phylum,class,order,family,genus,species
GCF_014075335.1,d__Bacteria,p__Proteobacteria,c__Gammaproteobacteria,o__Enterobacteral…
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Hey there, @shenwei356 :)
Thanks again for not only additional wonderful software, but excellent documentation as usual!
I'm looking for a better way to taxonomically classify predicted coding …
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Hi,
currently, species genomes are not found by the biomartr package if I search for a species synonym. For example:
`is.genome.available("Kluyveromyces thermotolerans", db="refseq")` returns FALS…