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- W4286560065 abstract "Abstract The Genome Taxonomy Database (GTDB) and associated taxonomic classification toolkit (GTDB-Tk) have been widely adopted by the microbiology community. However, the growing size of the GTDB bacterial reference tree has resulted in GTDB-Tk requiring substantial amounts of memory (~320 GB) which limits its adoption and ease of use. Here we present an update to GTDB-Tk that uses a divide-and-conquer approach where user genomes are initially placed into a bacterial reference tree with family-level representatives followed by placement into an appropriate class-level subtree comprising species representatives. This substantially reduces the memory requirements of GTDB-Tk while having minimal impact on classification. Availability GTDB-Tk is implemented in Python and licenced under the GNU General Public Licence v3.0. Source code and documentation are available at: https://github.com/ecogenomics/gtdbtk . Contact p.chaumeil@uq.edu.au or donovan.parks@gmail.com" @default.
- W4286560065 created "2022-07-22" @default.
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- W4286560065 date "2022-07-22" @default.
- W4286560065 modified "2023-10-16" @default.
- W4286560065 title "GTDB-Tk v2: memory friendly classification with the Genome Taxonomy Database" @default.
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- W4286560065 doi "https://doi.org/10.1101/2022.07.11.499641" @default.
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