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Bioinformatics. 2019 Nov 15. pii: btz848. doi: 10.1093/bioinformatics/btz848. [Epub ahead of print]

GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database.

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Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, QLD, Australia.



The GTDB Toolkit (GTDB-Tk) provides objective taxonomic assignments for bacterial and archaeal genomes based on the Genome Taxonomy Database (GTDB). GTDB-Tk is computationally efficient and able to classify thousands of draft genomes in parallel. Here we demonstrate the accuracy of the GTDB-Tk taxonomic assignments by evaluating its performance on a phylogenetically diverse set of 10,156 bacterial and archaeal metagenome-assembled genomes.


GTDB-Tk is implemented in Python and licensed under the GNU General Public License v3.0. Source code and documentation are available at:


Supplementary data are available at Bioinformatics online.

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