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obitools : a unix ‐inspired software package for DNA metabarcoding
Author(s) -
Boyer Frédéric,
Mercier Céline,
Bonin Aurélie,
Le Bras Yvan,
Taberlet Pierre,
Coissac Eric
Publication year - 2016
Publication title -
molecular ecology resources
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.96
H-Index - 136
eISSN - 1755-0998
pISSN - 1755-098X
DOI - 10.1111/1755-0998.12428
Subject(s) - biology , context (archaeology) , unix , dna sequencing , software , set (abstract data type) , annotation , computational biology , computer science , dna , bioinformatics , genetics , programming language , paleontology
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.