Fast and sensitive taxonomic assignment to metagenomic contigs

MMseqs2 taxonomy is a new tool to assign taxonomic labels to metagenomic contigs. It extracts all possible protein fragments from each contig, quickly retains those that can contribute to taxonomic annotation, assigns them with robust labels and determines the contig's taxonomic identity by wei...

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Bibliographic Details
Published inBioinformatics (Oxford, England) Vol. 37; no. 18; pp. 3029 - 3031
Main Authors Mirdita, M, Steinegger, M, Breitwieser, F, Söding, J, Levy Karin, E
Format Journal Article
LanguageEnglish
Published England Oxford University Press 29.09.2021
Subjects
Applications Notes
Databases, Factual
Metagenome
Metagenomics
Software
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Summary:MMseqs2 taxonomy is a new tool to assign taxonomic labels to metagenomic contigs. It extracts all possible protein fragments from each contig, quickly retains those that can contribute to taxonomic annotation, assigns them with robust labels and determines the contig's taxonomic identity by weighted voting. Its fragment extraction step is suitable for the analysis of all domains of life. MMseqs2 taxonomy is 2-18× faster than state-of-the-art tools and also contains new modules for creating and manipulating taxonomic reference databases as well as reporting and visualizing taxonomic assignments. MMseqs2 taxonomy is part of the MMseqs2 free open-source software package available for Linux, macOS and Windows at https://mmseqs.com. Supplementary data are available at Bioinformatics online.
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ISSN:1367-4803
1367-4811
1367-4811
DOI:10.1093/bioinformatics/btab184