Joint NFDI & de.NBI Metagenomic Training Course 2025

→ Europe/Berlin
Room 045 Ground Floor (BRICS Braunschweig)

Room 045 Ground Floor

BRICS Braunschweig

Braunschweig Integrated Centre of Systems Biology (BRICS) Rebenring 56 38106 Braunschweig
Liren Huang (Bielefeld University), Mattea Mueller (BIFO), Nils Kleinboelting (FZ Jülich), Sebastian Juenemann (Research Center Jülich, IBG-5, Bielefeld University), Zhiluo Deng (Helmholtz Centre for Infection Research)
Description
 

Joint NFDI & de.NBI Metagenomic Training Course 2025

 

This 3-day training workshop, held from 1st to 3rd April 2025, offers a comprehensive introduction to metagenomics, focusing on the analysis of next-generation sequencing (NGS) data from microbial communities. The program is designed for beginners and combines interactive lectures with hands-on tutorials using the de.NBI cloud environment.

What You Will Learn

Day 1: Basics

  • Linux Basics: A short step-by-step guide to navigating the command-line interface, ensuring all participants are ready for the computational aspects of the workshop.
  • Introduction to Metagenomics: Overview of metagenomics workflows, including pre-processing, quality checks, and error handling for sequencing data.
  • Basics of Nextflow: Learn the fundamentals of Nextflow scripting to create scalable and reproducible bioinformatics workflows.

 

Day 2: Metagenomic Workflows

  • nf-core Pipelines: An introduction to the nf-core community and how its workflows can simplify metagenomic data analysis.
  • Taxonomy Profiling: Explore methods and tools for identifying and classifying microbial species in sequencing datasets.
  • Hands-On Practical: Taxonomy Profiling with Nextflow: Apply what you’ve learned in a guided session on running taxonomy profiling workflows using nf-core.
  • Assembly and Binning: Learn how to reconstruct genomes from metagenomic data using assembly and binning techniques.
  • Classification and Annotation: Discover methods to classify and annotate metagenomic reads, contigs, and bins for functional analysis.
  • Practical Session: MG-tk and MAG Pipelines: Work on real data using MG-tk and MAG tools, focusing on best practices for metagenome data pre-processing, assembly, and binning.

 

Day 3: Workflow Automation and Closing Remarks

  • Cloud Workflow Management (CLOWM): Introduction to managing metagenomic workflows in a cloud environment, enabling efficient data processing.
  • Running Workflows in CLOWM: Hands-on practice executing workflows on the de.NBI cloud.
  • Open Discussion: Wrap up the course with a Q&A and feedback session to address specific challenges and share ideas for future directions.

 

Who should attend?

This course is for beginners with some knowledge of microbiology or NGS data but no prior experience in computational analysis. There will be no participation fee, yet travel and accommodation expenses need to be paid by the participants. Please bring your own device! 

 

Registration and Deadline :

 

To apply for the Joint NFDI & de.NBI Metagenomic Training Course 2025, please complete the registration form, which includes questions about your academic and professional background, motivation, and previous experience in relevant fields. These responses will help us assess your suitability for the course and make selections if the number of applications exceeds the available spots.

Registration Deadline: Please submit your application by  March 03 2025.
Early registration is encouraged, as spaces may be limited. 

 

 

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