ggmap is coded in Python 3.x
ggmap shall convert MetaPhlAn profiles into GreenGenes OTU based profiles.
conda install -c sjanssen2 ggmap
Open the jupyter notebook convert_profiles.ipynb and execute all cells. It will convert the six MetaPhlAn profiles from the "examples" directory and converts them into one OTU table with the 97% GreenGenes OTU clusters.