This training session is organized by the Genotoul bioinfo platform. This course is dedicated to the analysis of prokaryotic shotgun metagenomic data from Illumina and Pacbio HiFi sequencing technology.

After an overview of metagenomics and the biases and limitations of analyses, we will look at the main steps involved in analysing metagenomic data and launch independent tools on the genobioinfo cluster.
Learners will then test a workflow to automate processing on a test dataset (metagWGS ).
On the third day, learners will choose which analysis strategy to start with according to their experimental design and launch the first stage of metagWGS on their own data.
By the end of the course, trainees will be familiar with the scope, advantages and limitations of shotgun sequencing data analysis and will have started the analysis on their own data.