Metagenomic analysis: taxonomic and functional profiling from genomic data
In this 18-hour course, participants will be taken through the whole metagenomics analysis workflow; covering from the quality control of whole-genome shotgun (WGS) sequencing data, going through metagenome assembly, binning, taxonomic assignment, and functional annotation using publicly available reference databases.
Our course introduces the participants to the principles behind the different approaches for every step of the analysis. During the course, we will focus on assembly-based approaches applied to bacterial datasets, but we will also introduce read-based (assembly-free) methods and explore the main steps of the bioinformatic pipelines to work with eukaryotic and viral datasets.
By the end of the course, participants will be able to use publicly available resources and tools to manage, analyse, and interpret metagenomic data from different organismal groups.
The course will combine theory with hands-on exercises using real datasets. We will offer consultation on the participant’s own data and results during the course.
Number of places available: 18.
Instructors: Jaime Imaz, Alberto Lema, and Antón Vizcaíno.
Target audience and requirements
Master's students, early career researchers (pre-docs and post-docs), or senior researchers, either from Industry or Academia, interested in metagenomics. Please note that this is an introductory course and is not intended for researchers with experience in metagenomic data analysis.
Basic skills in DNA taxonomy and high-throughput sequencing are required. Researchers who are not familiar with high-throughput sequencing might want to consider signing up first to our introductory course.
Basic use of UNIX-based command line is desirable. Hands-on work will be performed in UNIX environments (Linux, Mac).
All participants should bring and use their own laptops. Software packages and datasets used during the course will be provided to the participants via a virtual machine, that will be installed before the beggining of the course.
An attendance certificate will be provided at the end of the course.