Now I am working with MetaPhlAn4.
I successfully made profiling file but I have faced on problem with making phylogenetic tree.
I only have its relative abundance so when I just follow the tutorial of GraphlAn, it just generated Taxonomic tree, not phylogenetic tree which shows evolutionary distance of features.
I found that there is phylogenetic tree that contains all of the SGB information, but I have no idea how to use it fro making phylogenetic tree with my data.
Anyone can give me solution or direction to solve it?
Thank you.
Hi @Jilim97
Unfortunatelly, there is not an available script in metaphlan for that task. But you could try to export the profiles in the BIOM format and run the analyses in QIIME