SMIRNOFF_simulation/ - simulation of a molecule in the gas phase with the SMIRNOFF forcefield format
SMIRNOFF_comparison/ - compare molecule energies from SMIRNOFF/OpenMM and AMBER
forcefield_modification/ - Jupyter notebook example of modifying a forcefield parameter and evaluating how it changes an energy
chemicalEnvironments/ - example and documentation of using chemical environment objects to manipulate environment being considered, generate example SMIRKS, etc. Also contains IPython notebook using the chemical environment for depiction.
mixedFF_structure - example of how to use SMIRNOFF forcefields for small molecules in combination with more conventional force fields for proteins and other components of your system.