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GTDB-Tk classify
kb_gtdbtk

v.0.1.4

Launch

Obtain objective taxonomic assignments for bacterial and archaeal genomes based on the Genome Taxonomy Database (GTDB) ver 1.1.0

Description

GTDB-Tk v1.1.0 is a software toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes. It is designed to work with recent advances that allow hundreds or thousands of metagenome-assembled genomes (MAGs) to be obtained directly from environmental samples. It can also be applied to isolate and single-cell genomes.

Data

This app is using gtdbtk release 89 data https://data.ace.uq.edu.au/public/gtdb/data/releases/release89/89.0/gtdbtk_r89_data.tar.gz

Data Release Notes

About GTDB

The Genome Taxonomy Database (GTDB) is constructed from RefSeq and Genbank genomes, and releases are indexed to RefSeq releases. All genomes are quality controlled using CheckM and those statistics can be found on the GTDB website.

References

GTDB-Tk is described in:

The Genome Taxonomy Database (GTDB) is described in:

We also strongly encourage you to cite the following 3rd party dependencies:


Related Publications


App Specification:

https://github.com/kbaseapps/kb_gtdbtk/tree/586a7c3426ffc21304a5e7d42285083fc043f77a/ui/narrative/methods/run_kb_gtdbtk

Module Commit: 586a7c3426ffc21304a5e7d42285083fc043f77a