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OBITools: a Unix-inspired software package for DNA metabarcoding

Frédéric Boyer 1 Céline Mercier 2 Aurélie Bonin 1 Yvan Le Bras 3 Pierre Taberlet 1 Eric Coissac 1
3 Plateforme bioinformatique GenOuest [Rennes]
UR1 - Université de Rennes 1, Plateforme Génomique Santé Biogenouest®, Inria Rennes – Bretagne Atlantique , IRISA-D7 - GESTION DES DONNÉES ET DE LA CONNAISSANCE
Abstract : DNA metabarcoding offers new perspectives in biodiversity research. This recently developed approach to ecosystem study relies heavily on the use of next-generation sequencing (NGS) and thus calls upon the ability to deal with huge sequence data sets. The obitools package satisfies this requirement thanks to a set of programs specifically designed for analysing NGS data in a DNA metabarcoding context. Their capacity to filter and edit sequences while taking into account taxonomic annotation helps to set up tailor-made analysis pipelines for a broad range of DNA metabarcoding applications, including biodiversity surveys or diet analyses. The obitools package is distributed as an open source software available on the following website: http://metabarcoding.org/obitools. A Galaxy wrapper is available on the GenOuest core facility toolshed: http://toolshed.genouest.org.
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https://hal.archives-ouvertes.fr/hal-01183582
Contributor : Yvan Le Bras <>
Submitted on : Monday, August 10, 2015 - 11:19:40 AM
Last modification on : Saturday, July 11, 2020 - 3:15:55 AM

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Frédéric Boyer, Céline Mercier, Aurélie Bonin, Yvan Le Bras, Pierre Taberlet, et al.. OBITools: a Unix-inspired software package for DNA metabarcoding. Molecular Ecology Resources, Wiley/Blackwell, 2015, pp.10.1111/1755-0998.12428. ⟨10.1111/1755-0998.12428⟩. ⟨hal-01183582⟩

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