A QIB Workshop on popular tools part of the "BioBakery" suite
| Time | Event |
|---|---|
| 10:00 - 11:45 | Seminar |
| ~15m | Introduction |
| ~30m | MetaPhlAn & databases |
| ☕️ | Coffee break |
| ~15m | Humann |
| ~15m | Using Metaphlan and Humann on the QIB HPC |
| ~15m | Questions and discussions |
| 14:00 - 16:30 | Workshop |
The "BioBakery" suite is a comprehensive set of tools for analyzing microbial communities, including taxonomic, functional, and strain-level profiling (Beghini 2020. Two key components of this suite are MetaPhlAn and HUMAnN. MetaPhlAn is a tool for taxonomic profiling that uses clade-specific marker genes to assign reads to microbial clades (Segata 2012). HUMAnN, on the other hand, is a method for inferring the functional and metabolic potential of a microbial community metagenome (Abubucker 2012).
Both tools have been further developed and improved, with MetaPhlAn 4 integrating information from metagenome assemblies and microbial isolate genomes for more comprehensive taxonomic profiling (Blanco-Míguez 2022, 2023), and HUMAnN3 enabling fast, accurate, and species-resolved functional profiling (Franzosa 2018). These tools are available as part of the "BioBakery" suite, which is actively maintained and publicly available for local installation (McIver 2017).