articleCurrent Protocols in BioinformaticsApr 28, 2020HYBRID OA

QIIME 2 Enables Comprehensive End‐to‐End Analysis of Diverse Microbiome Data and Comparative Studies with Publicly Available Data

MEMehrbod EstakiLJLingjing JiangNANicholas A. BokulichDMDaniel McDonaldAGAntonio González

University of California San Diego · Northern Arizona University · +4 more institutions

PubMed
Indexed incrossrefdatacitepubmed

Abstract

QIIME 2 is a completely re-engineered microbiome bioinformatics platform based on the popular QIIME platform, which it has replaced. QIIME 2 facilitates comprehensive and fully reproducible microbiome data science, improving accessibility to diverse users by adding multiple user interfaces. QIIME 2 can be combined with Qiita, an open-source web-based platform, to re-use available data for meta-analysis. The following basic protocol describes how to install QIIME 2 on a single computer and analyze microbiome sequence data, from processing of raw DNA sequence reads through generating publishable interactive figures. These interactive figures allow readers of a study to interact with data with the same ease as…

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Topics
Keywords
  • End-to-end principle
  • Computer science
  • Data science
  • Microbiome
  • Biology
  • Bioinformatics
  • Artificial intelligence
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