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The Metagenome Analysis Software (MEGAN) (https://bio.tools/megan) is an in‐silico tool that allows analysis of a large set of metagenomic data on desktop/laptop. It provides a platform to use several interactive tools under a single application, such as NCBI taxonomy or a more customized taxonomy (e.g. SILVA) for the taxonomic analysis, InterPro2GO, SEED, eggNOG or KEGGforfunctional analysis. In addition to this, one can use bar charts, word count, vronoi tree maps and many other charts to analyze metagenomic dataset.