Hi @fbeghini
I want to find out the core microbial species from the 7 groups of the samples that I have. How do I make venn diagramm from the metaphlan3 merged abundance table? Thera are tools but for that I need biom format table which I am not able to make.
There are plenty of packages for creating venn diagrams from vectors (e.g. R VennDiagram). If you are using a package that requires a BIOM file as input, MetaPhlAn can produce a BIOM output by using --biom_output_file