CONSTAX2: Improved taxonomic classification of environmental DNA markers.
Abstract
<h4>Summary</h4>CONSTAX - the CONSensus TAXonomy classifier - was developed for accurate
and reproducible taxonomic annotation of fungal rDNA amplicon sequences and is based
upon a consensus approach of RDP, SINTAX, and UTAX algorithms. CONSTAX2 extends these
features to classify prokaryotes as well as eukaryotes and incorporates BLAST-based
classifiers to reduce classification errors. Additionally, CONSTAX2 implements a conda-installable
command line tool with improved classification metrics, faster training, multithreading
support, capacity to incorporate external taxonomic databases, and new isolate matching
and high-level taxonomy tools, replete with documentation and example tutorials.<h4>Availability</h4>CONSTAX2
is available at https://github.com/liberjul/CONSTAXv2, and is packaged for Linux and
MacOS from Bioconda with use under the MIT License. A tutorial and documentation are
available at https://constax.readthedocs.io/en/latest/.<h4>Supplementary information</h4>Supplementary
data are available at Bioinformatics online.
Type
Journal articlePermalink
https://hdl.handle.net/10161/24215Published Version (Please cite this version)
10.1093/bioinformatics/btab347Publication Info
Liber, Julian A; Bonito, Gregory; & Benucci, Gian Maria Niccolò (2021). CONSTAX2: Improved taxonomic classification of environmental DNA markers. Bioinformatics (Oxford, England), 37(21). pp. 3941-3943. 10.1093/bioinformatics/btab347. Retrieved from https://hdl.handle.net/10161/24215.This is constructed from limited available data and may be imprecise. To cite this
article, please review & use the official citation provided by the journal.
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Julian Liber
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