Add contacts

import molsysmt as msm
from molsysmt import pyunitwizard as puw
import nglview as nv
import numpy as np

molsys = msm.convert(msm.systems['chicken villin HP35']['chicken_villin_HP35.h5msm'])

view = msm.view(molsys, standard=True)

msm.thirds.nglview.add_contacts(view, selection='atom_name=="CA"', threshold='9 angstroms')

view

contacts = msm.structure.get_contacts(molsys, selection='atom_name=="CA"', threshold='9 angstroms',
                                      output_type='pairs', output_indices='atom')

view = msm.view(molsys, standard=True)
msm.thirds.nglview.add_contacts(view, contact_pairs=contacts[0])
view