Format

Send to

Choose Destination
Mol Ecol Resour. 2016 Jan;16(1):176-82. doi: 10.1111/1755-0998.12428. Epub 2015 May 26.

obitools: a unix-inspired software package for DNA metabarcoding.

Author information

1
Laboratoire d'Écologie Alpine (LECA), CNRS UMR 5553, Université Joseph Fourrier, BP 53, 38041, Grenoble Cedex-9, France.
2
GenOuest Core Facility, CNRS UMR 6074 IRISA-INRIA, Campus de Beaulieu, 35042, Rennes Cedex, France.

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.

KEYWORDS:

PCR errors; biodiversity; next-generation sequencing; sequence analysis; taxonomic annotation

PMID:
25959493
DOI:
10.1111/1755-0998.12428
[Indexed for MEDLINE]

Supplemental Content

Full text links

Icon for Wiley
Loading ...
Support Center