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  • Title: CONSTAX2: improved taxonomic classification of environmental DNA markers.
    Author: Liber JA, Bonito G, Benucci GMN.
    Journal: Bioinformatics; 2021 Nov 05; 37(21):3941-3943. PubMed ID: 33961008.
    Abstract:
    SUMMARY: 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. AVAILABILITY AND IMPLEMENTATION: 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/. Data and scripts associated with the manuscript are available at https://github.com/liberjul/CONSTAXv2_ms_code. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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