This course is intended to provide a guide to help you plan your metagenomic experiments by taking you through the entire pipeline from sample to answer. The course starts by introducing the field of metagenomics and how researchers around the world have taken advantage of Nanopore sequencing to identify species present within mixed microbial samples and thoroughly characterise their genomes. The course then progresses on to how to plan your metagenomics experiments by introducing the range of workflow options that are available and what to consider regarding sample extraction and QC. The preparation section of the course explains relevant library prep chemistries in depth, while the sequencing section shows you how to load a flow cell and setup and assess your sequencing runs. The analysis section of the course focuses on concepts and solutions for both metagenomic classification and assembly and includes a practical demonstration on how to use the EPI2ME platform.