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---layout: event-track redirect_from: - /events/tracks/gta2024-bacterial-micorbiome title: Microbiome analysis description: This track explains the capability to analyze microbiome data using Galaxy, covering essential tasks such as amplicon analysis and its visualization. It progresses to more advanced topics, including assembly and binning - the requirements for reconstructing Metagenome-Assembled Genomes (MAGs) from microbiome samples, and finally extends to complex analyses like metatranscriptome studies and pathogen detection. Start with the tutorial at your own pace. If you need support contact us via the Slack Channel [#gta_microbiome](https://gtnsmrgsbord.slack.com/archives/C07NA7FSGR4). Please note that the tutorials of this track where all tested successfully on useGalaxy.eu, therefore it is recommended to run all tools on this server ! slack_channel: gta_microbiome contributions: organisers: - paulzierep - bebatut instructors: - annasyme - bebatut - EngyNasr - GarethPrice-Aus - igormakunin - bernt-matthias - paulzierep - plushz - RZ9082 - pratikdjagtap program: - section: "Introduction" description: | Introduction to Microbiome Analysis. tutorials: - name: introduction topic: microbiome - section: "Metabarcoding" description: | Identify and analyze the diversity of species in environmental samples by amplifying and sequencing specific genetic markers tutorials: - name: dada-16S topic: microbiome - section: "Metagenomics" description: | Assemble, bin, and profile the taxonomic diversity using collective DNA from environmental samples tutorials: - name: metagenomics-assembly topic: microbiome - name: metagenomics-binning topic: microbiome - name: taxonomic-profiling topic: microbiome - name: diversity topic: microbiome - section: "Metatranscriptomics" description: | Profile the taxonomic diversity and the functional processes from collective RNA from environmental samples tutorials: - name: metatranscriptomics topic: microbiome - section: "Metaproteomics" description: | Generation and search of any metaproteomics database, verification and quantification of the proteins/peptides, statistical analysis of the quantified peptides tutorials: - name: clinical-mp-1-database-generation topic: proteomics - name: clinical-mp-2-discovery topic: proteomics - name: clinical-mp-3-verification topic: proteomics - name: clinical-mp-4-quantitation topic: proteomics - name: clinical-mp-5-data-interpretation topic: proteomics - section: "Pathogen detection" description: | Detect and track pathogens from metagenomic Nanopore sequencing tutorials: - name: pathogen-detection-from-nanopore-foodborne-data topic: microbiome
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