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CONSTAX2: Improved taxonomic classification of environmental DNA markers.

dc.contributor.author Liber, Julian A
dc.contributor.author Bonito, Gregory
dc.contributor.author Benucci, Gian Maria Niccolò
dc.date.accessioned 2022-01-14T15:40:35Z
dc.date.available 2022-01-14T15:40:35Z
dc.date.issued 2021-05-07
dc.identifier 6271412
dc.identifier.issn 1367-4803
dc.identifier.issn 1367-4811
dc.identifier.uri https://hdl.handle.net/10161/24215
dc.description.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.
dc.language eng
dc.publisher Oxford University Press (OUP)
dc.relation.ispartof Bioinformatics (Oxford, England)
dc.relation.isversionof 10.1093/bioinformatics/btab347
dc.title CONSTAX2: Improved taxonomic classification of environmental DNA markers.
dc.type Journal article
duke.contributor.id Liber, Julian A|0707293
dc.date.updated 2022-01-14T15:40:35Z
pubs.begin-page 3941
pubs.end-page 3943
pubs.issue 21
pubs.organisational-group Duke
pubs.organisational-group Trinity College of Arts & Sciences
pubs.organisational-group Student
pubs.organisational-group Biology
pubs.publication-status Published
pubs.volume 37
duke.contributor.orcid Liber, Julian A|0000-0002-9941-8268


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