Educators:
Dr. Nils Kleinboelting (FZ Jülich), Sebastian Jünemann (FZ Jülich), Prof. Dr. Alex Sczyrba (Bielefeld University) (BiGi), Liren Huang (Bielefeld University, NFDI4Microbiota)
Location:
Bielefeld University, Universitätsstraße 25, 33615 Bielefeld, Room V6-116
Date:
November the 23th to 25th, 2022
Content:
The aim of this 3-day workshop will be to give students a brief overview of the tools and bioinformatics techniques available for the analysis of next generation sequence (NGS) data from microbial communities. The format will comprise a mixture of lectures and hands-on tutorials where students will process example data sets in real-time in the de.NBI cloud environment. A compact introduction into the Linux operating system and the usage of the command line interface will be given upstream to the introducing part to guarantee a consistent baseline for the following lectures. After covering general aspects of sequence based analysis (e.g. pre-processing, quality measurements, error handling) advantages and disadvantages of whole metagenome sequencing will be illustrated. As WGS metagenomics has the potential to address the full spectra of genome-based issues, the focus here will be on assembly, binning and taxonomic and functional analysis with the aid of different bioinformatic tools. For analyzing metagenomics assemblies the EMGB platform will be demonstrated. In a last part we will cover the submission process of metagenomes to European Nucleotide Archive using the demonstration dataset as an example.
Prerequisites:
- basic knowledge in microbiology and NGS-based analysis
- practical experience in a Linux/Unix derivatives, the command line interface and file system
Prerequisites for the workshop plus the optional Linux introduction:
- basic knowledge in microbiology and NGS-based analysis
Please not that participation to this course does not depend on the actual Linux experience of the applicant. Both, experienced as well as inexperienced Linux users are encouraged to submit an application. However, the Linux introducing session in the afternoon of the first day is optional only for applicants fulfilling the Linux prerequisite.
Application:
Please send your application to
Website:
For more information see: https://www.cebitec.uni-bielefeld.de/brf/training/upcoming-workshops/115-metagenomics-workshop-11-2022
Contact:
Name: Dr. Nils Kleinboelting
Email:
Phone: 0521/106-5166
Name: Sebastian Jünemann
Email:
Phone: 0521/106-4827
Name: Dr. Alexander Sczyrba
Email:
Phone: 0521/106-2910