Metagenome analysis with QIIME 2

Warning

Metagenomics analysis with QIIME 2 is in alpha release and this documentation is a work in progress. 🚜

This means that results you generate should be considered preliminary, and NOT PUBLICATION QUALITY. Additionally, interfaces are subject to change, and those changes may be backward incompatible (meaning that a command or file that works in one version of the QIIME 2 Metagenomics distribution may not work in the next version of that distribution).

Thanks for trying this out - we’re very interested in your feedback on what would make this functionality more useful for your workflows.

Alpha release tutorials

• Metagenomics with QIIME 2 - Spring 2024 Leiden & Zurich Tutorial

How-to guides

• Data access from SRA and other resources
• Reads Analysis
• Contig Analysis
• MAG analysis

References

• Tips for metagenome analysis with QIIME 2
• Diagram of QIIME 2 metagenomics workflow