Helper functions
================

.. automodule:: prolif.utils
    :members: get_residues_near_ligand, select_over_trajectory, pandas_series_to_bv, to_dataframe, to_bitvectors

.. automodule:: prolif.io.molecule_standardizer
    :members: MoleculeStandardizer

.. automodule:: prolif.io.template_engine
    :members: TemplateEngine, RDKitMolTemplateEngine, CIFTemplateEngine, assign_bond_orders_from_template, strip_bonds, assign_intra_props

.. automodule:: prolif.io.cif
    :members: cif_template_reader