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

Frédéric Boyer1, Céline Mercier1, Aurélie Bonin1

  • 1Laboratoire d'Écologie Alpine (LECA), CNRS UMR 5553, Université Joseph Fourrier, BP 53, 38041, Grenoble Cedex-9, France.

Molecular Ecology Resources
|May 12, 2015
PubMed
Summary
This summary is machine-generated.

DNA metabarcoding uses next-generation sequencing (NGS) for biodiversity research. The obitools package efficiently analyzes large NGS datasets for ecological studies, offering custom pipelines for biodiversity and diet analyses.

Keywords:
PCR errorsbiodiversitynext-generation sequencingsequence analysistaxonomic annotation

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Area of Science:

  • Ecology and Evolutionary Biology
  • Bioinformatics
  • Genomics

Background:

  • DNA metabarcoding is an emerging technique for ecosystem study.
  • It relies on next-generation sequencing (NGS), generating massive datasets.
  • Analyzing these large datasets presents a significant computational challenge.

Purpose of the Study:

  • To introduce the obitools package, a software suite designed for DNA metabarcoding data analysis.
  • To address the need for efficient processing of large sequence datasets generated by NGS.
  • To provide tools for custom analysis pipelines in biodiversity and diet studies.

Main Methods:

  • Development and application of the obitools software package.
  • Utilizing a set of programs specifically designed for NGS data analysis in metabarcoding.
  • Implementing sequence filtering, editing, and taxonomic annotation functionalities.

Main Results:

  • The obitools package effectively handles large NGS datasets required for DNA metabarcoding.
  • It provides tools for sequence processing and taxonomic assignment.
  • Enables the creation of tailored analysis pipelines for diverse metabarcoding applications.

Conclusions:

  • obitools is a valuable open-source software for DNA metabarcoding research.
  • It facilitates robust biodiversity and diet analyses through efficient NGS data processing.
  • The package supports the advancement of ecological research by simplifying complex data analysis.