Ammonium
========

.. currentmodule:: mbuild_polybuild.aa_functional_groups.ammonium

mbuild_polybuild.aa_functional_groups.ammonium.Ammonium

.. autoclass:: Ammonium
   :members:
   :show-inheritance:

   
   
   
      .. autosummary::
         :toctree:
      
         Ammonium.box
         Ammonium.center
         Ammonium.charge
         Ammonium.element
         Ammonium.mass
         Ammonium.maxs
         Ammonium.mins
         Ammonium.n_bonds
         Ammonium.n_direct_bonds
         Ammonium.n_particles
         Ammonium.periodicity
         Ammonium.pos
         Ammonium.root
         Ammonium.xyz
         Ammonium.xyz_with_ports
   
   

   
      .. autosummary::
         :toctree:
      
         Ammonium.add
         Ammonium.add_bond
         Ammonium.all_ports
         Ammonium.ancestors
         Ammonium.available_ports
         Ammonium.bonds
         Ammonium.check_for_overlap
         Ammonium.condense
         Ammonium.direct_bonds
         Ammonium.energy_minimize
         Ammonium.flatten
         Ammonium.freud_generate_bonds
         Ammonium.from_gmso
         Ammonium.from_parmed
         Ammonium.from_pybel
         Ammonium.from_trajectory
         Ammonium.generate_bonds
         Ammonium.get_boundingbox
         Ammonium.get_smiles
         Ammonium.is_independent
         Ammonium.min_periodic_distance
         Ammonium.particles
         Ammonium.particles_by_element
         Ammonium.particles_by_name
         Ammonium.particles_in_range
         Ammonium.print_hierarchy
         Ammonium.referenced_ports
         Ammonium.remove
         Ammonium.remove_bond
         Ammonium.reset_labels
         Ammonium.rotate
         Ammonium.rotate_dihedral
         Ammonium.save
         Ammonium.spin
         Ammonium.successors
         Ammonium.to_freud
         Ammonium.to_gmso
         Ammonium.to_hoomdsnapshot
         Ammonium.to_intermol
         Ammonium.to_networkx
         Ammonium.to_parmed
         Ammonium.to_pybel
         Ammonium.to_rdkit
         Ammonium.to_smiles
         Ammonium.to_trajectory
         Ammonium.translate
         Ammonium.translate_to
         Ammonium.update_coordinates
         Ammonium.visualize