Educators:
Georg Zeller (HD-HuB), Clara Amid, Rob Finn, Alexandra Holinski, Alex Mitchell, Chris Quince, Jeena Rajan, Joao Matias Rodrigues, Aleksandra Ola Tarkowska, Darren Wilkinson
Date:
Tuesday 17 - Friday 20 July 2018
Location:
European Bioinformatics Institute (EMBL-EBI) - Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, United Kingdom
Contents:
This course will cover the use of publicly available resources to manage, share, analyse and interpret metagenomics data, including marker gene, whole gene shotgun (WGS) and assembly-based approaches. Delegates will gain hands-on experience using a range of data resources and tools, interspersed with lectures. Additionally, there will be the opportunity to discuss the challenges facing researchers in the field.
This course is aimed at life scientists who are working in the field of metagenomics, in the early stages of their data analysis, and who may already have some prior experience in using bioinformatics in their research.
Learning goals:
After this course you should be able to:
- Submit data to public resources for metagenomics
- Interpret results and compare with other metagenomics datasets
- Use a range of tools to perform some data analyses
- Discuss the pitfalls and challenges in the field
Prerequisites:
Some 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: http://www.ee.surrey.ac.uk/Teaching/Unix
- Basic R concept tutorials: http://www.r-tutor.com/r-introduction
Keywords:
metagenomics, bioinformatics, data analysis, course, training
Tools:
Data generation: Next Generation Sequencing, amplicon-based approaches (ribosomal RNA), WGS, assembly
Data analysis: The EBI Metagenomics Portal, HMMER, InterPro, GO, FASTQC, diversity, coverage, metabolic and pathway analyses, tools for comparative metagenomics
Data standards and submission: European Nucleotide Archive (ENA), Genomic Standards Consortium (GSC), SRA, Webin
Public resources for metagenomics
Contact:
Georg Zeller
https://www.hd-hub.de/training