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Installing QIIME 2

QIIME 2 can be installed natively or using virtual machines. The following pages describe how to install the QIIME 2 Core 2017.10 distribution in either scenario.

QIIME 2 Core 2017.10 distribution

The QIIME 2 Core 2017.10 distribution includes the QIIME 2 framework, q2cli (a QIIME 2 command-line interface) and the following plugins:

  • q2-alignment
  • q2-composition
  • q2-dada2
  • q2-deblur
  • q2-demux
  • q2-diversity
  • q2-emperor
  • q2-feature-classifier
  • q2-feature-table
  • q2-gneiss
  • q2-longitudinal
  • q2-metadata
  • q2-phylogeny
  • q2-quality-control
  • q2-quality-filter
  • q2-sample-classifier
  • q2-taxa
  • q2-types
  • q2-vsearch


The QIIME 2 Core 2017.10 distribution includes plugins and interfaces that are developed, maintained, tested, and distributed by the QIIME 2 development team. The Core distribution is necessary to run the commands in the QIIME 2 tutorials. If there are additional QIIME 2 plugins or interfaces you would like to install, please consult the relevant package(s) documentation. Other types of distributions may be made available in the future in addition to Core.