 ANVIO is a comprehensive analysis and visualization platform for microbial genomes in metagenomic assemblies with interactive interfaces that link omics data from multiple sources into a single, intuitive display. It offers automated and human-guided characterization of microbial genomes and its extensible visualization approach distills multiple dimensions of information about each contig. ANVIO is an open-source platform that empowers researchers without extensive bioinformatics skills to perform and communicate in-depth analyses on large omics data sets. This article was authored by Amorat Aran, Askin C. Eason, Christopher Quince, and others.