`ete` has `NCBITaxa` which uses an sqlite database that gives occasional concurrent access errors. Supposedly it's possible to fetch the taxonomy using `blastn` on its own if you run it in the correct directory or something.@mousepixels See: https://github.com/lskatz/taxdb https://github.com/jrjhealey/PYlogeny https://github.com/onecodex/taxonomy https://github.com/pvanheus/ncbitaxonomy https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/taxonomy-guide/ https://bioinf.shenwei.me/taxonkit/
etehasNCBITaxawhich uses an sqlite database that gives occasional concurrent access errors.Supposedly it's possible to fetch the taxonomy using
blastnon its own if you run it in the correct directory or something.@mousepixelsSee:
https://github.com/lskatz/taxdb
https://github.com/jrjhealey/PYlogeny
https://github.com/onecodex/taxonomy
https://github.com/pvanheus/ncbitaxonomy
https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/taxonomy-guide/
https://bioinf.shenwei.me/taxonkit/