About
This document describes how to use a shotgun metagenomics workflow on Galaxy Australia. The aim of this workflow is to handle the routine part of shotgun metagenomics data processing. The workflow is using the tools MetaPhlAn2 for taxonomy classification and HUMAnN2 for functional profiling of the metagenomes.
This workflow represents just one way of processing data for a ‘typical’ shotgun metagenomics experiment – there are many other options!
Please cite this guide as follows
Murigneux, V., Thang, M., Hiltemann, S., & Batut, B. (2024). Analyses of shotgun metagenomics data with MetaPhlAn2. WorkflowHub. https://doi.org/10.48546/WORKFLOWHUB.WORKFLOW.624.1
Acknowledgements
The workflow is based on the Galaxy Training tutorial Analyses of metagenomics data developed by Saskia Hiltemann and Berenice Batut.
This guide makes use of the ELIXIR toolkit theme:
References
This workflow depends on the following tools and resources:
- MetaPhlAn2: doc, publication
- HUMAnN2: doc, publication
- Krona: publication
- Galaxy: Galaxy project
- Galaxy Australia: Galaxy Australia service