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EMBL-EBI Training course: Genome-resolved metagenomics bioinformatics

October 31 @ 9:00 am - November 4 @ 1:00 pm GMT

Learn about the tools, processes and analysis approaches used in the field of genome-resolved metagenomics.

This course will cover the use of publicly available resources to manage, share, analyse and interpret metagenomics data, focussing primarily on assembly-based approaches.

The virtually-delivered content will involve participants learning via pre-recorded lectures and live presentations, followed by live Q&As with the trainers. Practical experience will be developed in group activities and in computational exercises run using containerised tools on our virtual training infrastructure.

Who is this course for?
This course is aimed at life scientists who are working in the field of metagenomics and are currently in the early stages of data analysis. Participants should have some prior experience of using bioinformatics in their research.

The practical sessions in the course require a basic understanding of the Unix command line and the R statistics package. If you are not already familiar with these then please ensure that you complete these free tutorials before you attend the course:

Basic introduction to the Unix environment: www.ee.surrey.ac.uk/Teaching/Unix
Basic R concept tutorials: www.r-tutor.com/r-introduction
What will I learn?
Learning outcomes
After this course you should be able to:

Conduct appropriate quality control and decontamination of metagenomic data and run simple assembly pipelines on short-read data
Utilise public datasets and resources to identify relevant data for analysis
Apply relevant tools in the analysis of metagenomic data
Submit metagenomics data to online repositories for sharing and future analysis
Apply knowledge in the areas of strain resolution and additional functional analysis
Course content
During this course you will learn about:

Different types of metagenomic data (short-read and long-read)
Assembly and metagenome assembled genomes (MAGs)
Data analysis: MGnify, HMMER, InterPro, GO, FASTQC, and pathway analyses
Data standards and submission:
European Nucleotide Archive (ENA)
Genomic Standards Consortium (GSC)
SRA
Webin
Metagenomic data analysis workflows
Trainers
Vladimir Banes
EMBL
Josephine Burgin
EMBL-EBI
Juan Caballero Perez
EMBL-EBI
Tatiana Gurbich
EMBL-EBI
Maira Ihsan
EMBL-EBI
Varsha Kale
EMBL-EBI
Richard Leggett
Earlham Institute
Sebastien Raguideau
Warwick Medical School, UK
Lorna Richardson
EMBL-EBI
Alexander Rogers
EMBL-EBI
Chris Quince
Warwick Medical School, UK

Details

Start:
October 31 @ 9:00 am GMT
End:
November 4 @ 1:00 pm GMT
https://www.ebi.ac.uk/training/events/metagenomics-bioinformatics-2022/

Organiser

EMBL-EBI
Email:
courses@ebi.ac.uk
View Organiser Website

Other

Target Audience:
Microbiome Professionals
Public or Private Event:
Anyone Can Join
Type of Event:
Virtual Event

Venue

virtual
EMBL-EBI, Wellcome Genome Campus, Hinxton
Hinxton, Cambridgeshire CB10 1SD United Kingdom
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View Venue Website