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biobakery-2024

A QIB Workshop on popular tools part of the "BioBakery" suite

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Programme

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).

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A QIB Workshop on popular tools part of the "BioBakery" suite (https://github.com/biobakery/biobakery)

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