Open-Source Sequence Clustering Methods Improve the State Of the Art

• Published in: mSystems Vol. 1; no. 1
• Main Authors: Kopylova, Evguenia, Navas-Molina, Jose A., Mercier, Céline, Xu, Zhenjiang Zech, Mahé, Frédéric, He, Yan, Zhou, Hong-Wei, Rognes, Torbjørn, Caporaso, J. Gregory, Knight, Rob
• Format: Journal Article
• Language: English
• Published: United States American Society for Microbiology 01.01.2016; American Society of Microbiology
• Subjects: amplicon sequencing; microbial community analysis; operational taxonomic units; sequence clustering; sequence clustering; amplicon sequencing; microbial community analysis; operational taxonomic units

Massive collections of next-generation sequencing data call for fast, accurate, and easily accessible bioinformatics algorithms to perform sequence clustering. A comprehensive benchmark is presented, including open-source tools and the popular USEARCH suite. Simulated, mock, and environmental commun...