MetaPhlAn/ MetaPhlAn v2

MetaPhlAn (METAgenomic PHyLogenetic ANalysis) is  a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data, produced by the Huttenhower lab at Harvard.

MetaPhlAn2 is v2 an update to MetaPhlAn which can identify specific strains and track strains across samples for all species.





The MetaPhlAn2 dataset is available on Bridges at /pylon5/datasets/community/genomics/metaphlan2.


To see what versions of MetaPhlAn and MetaPhlAn v2 are available type

module avail metaphlan

To see what other modules are needed, what commands are available and how to get additional help type

module help metaphlan

To use MetaPhlAn or MetaPhlAn v2, include a command like these in your batch script or interactive session to load the correct module:

module load metaphlan
module load metaphlan2


Be sure you also load any other modules needed, as listed by the module help metaphlan or module help metaphlan2 command.