Python MPI program using LASSO regression to find associations between host genetics and microbiome.

lime is a Python 2.7 MPI program intended to run on a cluster but it will run anywhere with a working MPI implementation and mpi4py installed.

• mpi4py
• numpy
• pandas
• SciPy
• scikit-learn
• scikits.bootstrap

See the wiki pages for instructions on how to run the software, and the example directory for sample bash scripts and input data files.

The software for the Lasso analysis pipeline is in the lime directory.