All modules for which code is available

• copy
• molsysmt.basic.add
• molsysmt.basic.append_structures
• molsysmt.basic.are_multiple_molecular_systems
• molsysmt.basic.compare
• molsysmt.basic.concatenate_structures
• molsysmt.basic.contains
• molsysmt.basic.convert
• molsysmt.basic.copy
• molsysmt.basic.extract
• molsysmt.basic.get
• molsysmt.basic.get_attributes
• molsysmt.basic.get_form
• molsysmt.basic.get_label
• molsysmt.basic.has_attribute
• molsysmt.basic.info
• molsysmt.basic.is_a_molecular_system
• molsysmt.basic.is_composed_of
• molsysmt.basic.merge
• molsysmt.basic.remove
• molsysmt.basic.select
• molsysmt.basic.set
• molsysmt.basic.view
• molsysmt.basic.where_is_attribute
• molsysmt.build.add_missing_bonds
• molsysmt.build.add_missing_heavy_atoms
• molsysmt.build.add_missing_hydrogens
• molsysmt.build.add_missing_terminal_cappings
• molsysmt.build.build_peptide
• molsysmt.build.get_disulfide_bonds
• molsysmt.build.get_missing_bonds
• molsysmt.build.get_missing_heavy_atoms
• molsysmt.build.get_missing_residues
• molsysmt.build.get_missing_terminal_cappings
• molsysmt.build.get_non_standard_residues
• molsysmt.build.has_hydrogens
• molsysmt.build.is_solvated
• molsysmt.build.make_bioassembly
• molsysmt.build.make_water_box
• molsysmt.build.mutate
• molsysmt.build.remove_overlapping_molecules
• molsysmt.build.solvate
• molsysmt.build.solve_atoms_with_alternate_location
• molsysmt.element.atom.get_atom_type_from_atom_name
• molsysmt.element.group.amino_acid.get_1_letter_code_from_name
• molsysmt.element.group.amino_acid.is_amino_acid
• molsysmt.element.group.get_group_type
• molsysmt.element.group.ion.is_ion
• molsysmt.element.group.lipid.is_lipid
• molsysmt.element.group.nucleotide.is_nucleotide
• molsysmt.element.group.saccharide.is_saccharide
• molsysmt.element.group.small_molecule.is_small_molecule
• molsysmt.element.group.terminal_capping.is_terminal_capping
• molsysmt.element.group.water.is_water
• molsysmt.form.MDAnalysis_Topology.add
• molsysmt.form.MDAnalysis_Topology.append_structures
• molsysmt.form.MDAnalysis_Topology.copy
• molsysmt.form.MDAnalysis_Topology.extract
• molsysmt.form.MDAnalysis_Topology.has_attribute
• molsysmt.form.MDAnalysis_Topology.is_form
• molsysmt.form.MDAnalysis_Topology.iterators
• molsysmt.form.MDAnalysis_Topology.merge
• molsysmt.form.MDAnalysis_Universe.add
• molsysmt.form.MDAnalysis_Universe.append_structures
• molsysmt.form.MDAnalysis_Universe.copy
• molsysmt.form.MDAnalysis_Universe.extract
• molsysmt.form.MDAnalysis_Universe.has_attribute
• molsysmt.form.MDAnalysis_Universe.is_form
• molsysmt.form.MDAnalysis_Universe.iterators
• molsysmt.form.MDAnalysis_Universe.merge
• molsysmt.form.XYZ.add
• molsysmt.form.XYZ.append_structures
• molsysmt.form.XYZ.copy
• molsysmt.form.XYZ.extract
• molsysmt.form.XYZ.has_attribute
• molsysmt.form.XYZ.is_form
• molsysmt.form.XYZ.iterators
• molsysmt.form.XYZ.merge
• molsysmt.form.biopython_Seq.add
• molsysmt.form.biopython_Seq.copy
• molsysmt.form.biopython_Seq.extract
• molsysmt.form.biopython_Seq.has_attribute
• molsysmt.form.biopython_Seq.is_form
• molsysmt.form.biopython_Seq.iterators
• molsysmt.form.biopython_Seq.merge
• molsysmt.form.biopython_SeqRecord.add
• molsysmt.form.biopython_SeqRecord.extract
• molsysmt.form.biopython_SeqRecord.has_attribute
• molsysmt.form.biopython_SeqRecord.is_form
• molsysmt.form.biopython_SeqRecord.iterators
• molsysmt.form.biopython_SeqRecord.merge
• molsysmt.form.file_bcif.add
• molsysmt.form.file_bcif.append_structures
• molsysmt.form.file_bcif.copy
• molsysmt.form.file_bcif.download
• molsysmt.form.file_bcif.extract
• molsysmt.form.file_bcif.has_attribute
• molsysmt.form.file_bcif.is_form
• molsysmt.form.file_bcif.iterators
• molsysmt.form.file_bcif.merge
• molsysmt.form.file_bcif_gz.add
• molsysmt.form.file_bcif_gz.append_structures
• molsysmt.form.file_bcif_gz.copy
• molsysmt.form.file_bcif_gz.download
• molsysmt.form.file_bcif_gz.extract
• molsysmt.form.file_bcif_gz.has_attribute
• molsysmt.form.file_bcif_gz.is_form
• molsysmt.form.file_bcif_gz.iterators
• molsysmt.form.file_bcif_gz.merge
• molsysmt.form.file_cif.add
• molsysmt.form.file_cif.append_structures
• molsysmt.form.file_cif.copy
• molsysmt.form.file_cif.extract
• molsysmt.form.file_cif.has_attribute
• molsysmt.form.file_cif.is_form
• molsysmt.form.file_cif.iterators
• molsysmt.form.file_cif.merge
• molsysmt.form.file_crd.add
• molsysmt.form.file_crd.append_structures
• molsysmt.form.file_crd.copy
• molsysmt.form.file_crd.extract
• molsysmt.form.file_crd.has_attribute
• molsysmt.form.file_crd.is_form
• molsysmt.form.file_crd.iterators
• molsysmt.form.file_crd.merge
• molsysmt.form.file_dcd.add
• molsysmt.form.file_dcd.append_structures
• molsysmt.form.file_dcd.copy
• molsysmt.form.file_dcd.extract
• molsysmt.form.file_dcd.has_attribute
• molsysmt.form.file_dcd.is_form
• molsysmt.form.file_dcd.iterators
• molsysmt.form.file_dcd.merge
• molsysmt.form.file_gro.add
• molsysmt.form.file_gro.append_structures
• molsysmt.form.file_gro.copy
• molsysmt.form.file_gro.extract
• molsysmt.form.file_gro.has_attribute
• molsysmt.form.file_gro.is_form
• molsysmt.form.file_gro.iterators
• molsysmt.form.file_gro.merge
• molsysmt.form.file_h5.add
• molsysmt.form.file_h5.append_structures
• molsysmt.form.file_h5.copy
• molsysmt.form.file_h5.extract
• molsysmt.form.file_h5.has_attribute
• molsysmt.form.file_h5.is_form
• molsysmt.form.file_h5.iterators
• molsysmt.form.file_h5.merge
• molsysmt.form.file_h5msm.add
• molsysmt.form.file_h5msm.append_structures
• molsysmt.form.file_h5msm.copy
• molsysmt.form.file_h5msm.extract
• molsysmt.form.file_h5msm.has_attribute
• molsysmt.form.file_h5msm.is_form
• molsysmt.form.file_h5msm.iterators
• molsysmt.form.file_h5msm.merge
• molsysmt.form.file_inpcrd.add
• molsysmt.form.file_inpcrd.append_structures
• molsysmt.form.file_inpcrd.copy
• molsysmt.form.file_inpcrd.extract
• molsysmt.form.file_inpcrd.has_attribute
• molsysmt.form.file_inpcrd.is_form
• molsysmt.form.file_inpcrd.iterators
• molsysmt.form.file_inpcrd.merge
• molsysmt.form.file_mol2.add
• molsysmt.form.file_mol2.append_structures
• molsysmt.form.file_mol2.copy
• molsysmt.form.file_mol2.extract
• molsysmt.form.file_mol2.has_attribute
• molsysmt.form.file_mol2.is_form
• molsysmt.form.file_mol2.iterators
• molsysmt.form.file_mol2.merge
• molsysmt.form.file_pdb.add
• molsysmt.form.file_pdb.append_structures
• molsysmt.form.file_pdb.copy
• molsysmt.form.file_pdb.download
• molsysmt.form.file_pdb.extract
• molsysmt.form.file_pdb.has_atoms_with_alternate_locations
• molsysmt.form.file_pdb.has_attribute
• molsysmt.form.file_pdb.is_form
• molsysmt.form.file_pdb.iterators
• molsysmt.form.file_pdb.merge
• molsysmt.form.file_pdb.replace_HETATM_by_ATOM_in_terminal_cappings
• molsysmt.form.file_prmtop.add
• molsysmt.form.file_prmtop.append_structures
• molsysmt.form.file_prmtop.copy
• molsysmt.form.file_prmtop.extract
• molsysmt.form.file_prmtop.has_attribute
• molsysmt.form.file_prmtop.is_form
• molsysmt.form.file_prmtop.iterators
• molsysmt.form.file_prmtop.merge
• molsysmt.form.file_psf.add
• molsysmt.form.file_psf.append_structures
• molsysmt.form.file_psf.copy
• molsysmt.form.file_psf.extract
• molsysmt.form.file_psf.has_attribute
• molsysmt.form.file_psf.is_form
• molsysmt.form.file_psf.iterators
• molsysmt.form.file_psf.merge
• molsysmt.form.file_trjpk.add
• molsysmt.form.file_trjpk.append_structures
• molsysmt.form.file_trjpk.copy
• molsysmt.form.file_trjpk.extract
• molsysmt.form.file_trjpk.has_attribute
• molsysmt.form.file_trjpk.is_form
• molsysmt.form.file_trjpk.iterators
• molsysmt.form.file_trjpk.merge
• molsysmt.form.file_xtc.add
• molsysmt.form.file_xtc.append_structures
• molsysmt.form.file_xtc.copy
• molsysmt.form.file_xtc.extract
• molsysmt.form.file_xtc.has_attribute
• molsysmt.form.file_xtc.is_form
• molsysmt.form.file_xtc.iterators
• molsysmt.form.file_xtc.merge
• molsysmt.form.file_xyznpy.add
• molsysmt.form.file_xyznpy.append_structures
• molsysmt.form.file_xyznpy.copy
• molsysmt.form.file_xyznpy.extract
• molsysmt.form.file_xyznpy.has_attribute
• molsysmt.form.file_xyznpy.is_form
• molsysmt.form.file_xyznpy.iterators
• molsysmt.form.file_xyznpy.merge
• molsysmt.form.get_attributes
• molsysmt.form.has_attribute
• molsysmt.form.mdtraj_DCDTrajectoryFile.add
• molsysmt.form.mdtraj_DCDTrajectoryFile.append_structures
• molsysmt.form.mdtraj_DCDTrajectoryFile.copy
• molsysmt.form.mdtraj_DCDTrajectoryFile.extract
• molsysmt.form.mdtraj_DCDTrajectoryFile.has_attribute
• molsysmt.form.mdtraj_DCDTrajectoryFile.is_form
• molsysmt.form.mdtraj_DCDTrajectoryFile.iterators
• molsysmt.form.mdtraj_DCDTrajectoryFile.merge
• molsysmt.form.mdtraj_HDF5TrajectoryFile.add
• molsysmt.form.mdtraj_HDF5TrajectoryFile.append_structures
• molsysmt.form.mdtraj_HDF5TrajectoryFile.copy
• molsysmt.form.mdtraj_HDF5TrajectoryFile.extract
• molsysmt.form.mdtraj_HDF5TrajectoryFile.has_attribute
• molsysmt.form.mdtraj_HDF5TrajectoryFile.is_form
• molsysmt.form.mdtraj_HDF5TrajectoryFile.iterators
• molsysmt.form.mdtraj_HDF5TrajectoryFile.merge
• molsysmt.form.mdtraj_Topology.add
• molsysmt.form.mdtraj_Topology.append_structures
• molsysmt.form.mdtraj_Topology.copy
• molsysmt.form.mdtraj_Topology.extract
• molsysmt.form.mdtraj_Topology.has_attribute
• molsysmt.form.mdtraj_Topology.is_form
• molsysmt.form.mdtraj_Topology.iterators
• molsysmt.form.mdtraj_Topology.merge
• molsysmt.form.mdtraj_Trajectory.add
• molsysmt.form.mdtraj_Trajectory.append_structures
• molsysmt.form.mdtraj_Trajectory.copy
• molsysmt.form.mdtraj_Trajectory.extract
• molsysmt.form.mdtraj_Trajectory.has_attribute
• molsysmt.form.mdtraj_Trajectory.is_form
• molsysmt.form.mdtraj_Trajectory.iterators
• molsysmt.form.mdtraj_Trajectory.merge
• molsysmt.form.mdtraj_XTCTrajectoryFile.add
• molsysmt.form.mdtraj_XTCTrajectoryFile.append_structures
• molsysmt.form.mdtraj_XTCTrajectoryFile.copy
• molsysmt.form.mdtraj_XTCTrajectoryFile.extract
• molsysmt.form.mdtraj_XTCTrajectoryFile.has_attribute
• molsysmt.form.mdtraj_XTCTrajectoryFile.is_form
• molsysmt.form.mdtraj_XTCTrajectoryFile.iterators
• molsysmt.form.mdtraj_XTCTrajectoryFile.merge
• molsysmt.form.mmcif_PdbxContainers_DataContainer.add
• molsysmt.form.mmcif_PdbxContainers_DataContainer.append_structures
• molsysmt.form.mmcif_PdbxContainers_DataContainer.copy
• molsysmt.form.mmcif_PdbxContainers_DataContainer.extract
• molsysmt.form.mmcif_PdbxContainers_DataContainer.has_attribute
• molsysmt.form.mmcif_PdbxContainers_DataContainer.is_form
• molsysmt.form.mmcif_PdbxContainers_DataContainer.iterators
• molsysmt.form.mmcif_PdbxContainers_DataContainer.merge
• molsysmt.form.molsysmt_CIFFileHandler.add
• molsysmt.form.molsysmt_CIFFileHandler.append_structures
• molsysmt.form.molsysmt_CIFFileHandler.copy
• molsysmt.form.molsysmt_CIFFileHandler.extract
• molsysmt.form.molsysmt_CIFFileHandler.has_attribute
• molsysmt.form.molsysmt_CIFFileHandler.is_form
• molsysmt.form.molsysmt_CIFFileHandler.iterators
• molsysmt.form.molsysmt_CIFFileHandler.merge
• molsysmt.form.molsysmt_GROFileHandler.add
• molsysmt.form.molsysmt_GROFileHandler.append_structures
• molsysmt.form.molsysmt_GROFileHandler.copy
• molsysmt.form.molsysmt_GROFileHandler.extract
• molsysmt.form.molsysmt_GROFileHandler.has_attribute
• molsysmt.form.molsysmt_GROFileHandler.is_form
• molsysmt.form.molsysmt_GROFileHandler.iterators
• molsysmt.form.molsysmt_GROFileHandler.merge
• molsysmt.form.molsysmt_H5MSMFileHandler
• molsysmt.form.molsysmt_H5MSMFileHandler.add
• molsysmt.form.molsysmt_H5MSMFileHandler.append_structures
• molsysmt.form.molsysmt_H5MSMFileHandler.copy
• molsysmt.form.molsysmt_H5MSMFileHandler.has_attribute
• molsysmt.form.molsysmt_H5MSMFileHandler.is_form
• molsysmt.form.molsysmt_H5MSMFileHandler.iterators
• molsysmt.form.molsysmt_H5MSMFileHandler.merge
• molsysmt.form.molsysmt_MolSys.add
• molsysmt.form.molsysmt_MolSys.add_bonds
• molsysmt.form.molsysmt_MolSys.append_structures
• molsysmt.form.molsysmt_MolSys.copy
• molsysmt.form.molsysmt_MolSys.extract
• molsysmt.form.molsysmt_MolSys.has_attribute
• molsysmt.form.molsysmt_MolSys.is_form
• molsysmt.form.molsysmt_MolSys.iterators
• molsysmt.form.molsysmt_MolSys.merge
• molsysmt.form.molsysmt_MolecularMechanics.add
• molsysmt.form.molsysmt_MolecularMechanics.append_structures
• molsysmt.form.molsysmt_MolecularMechanics.copy
• molsysmt.form.molsysmt_MolecularMechanics.extract
• molsysmt.form.molsysmt_MolecularMechanics.has_attribute
• molsysmt.form.molsysmt_MolecularMechanics.is_form
• molsysmt.form.molsysmt_MolecularMechanics.merge
• molsysmt.form.molsysmt_MolecularMechanicsDict.add
• molsysmt.form.molsysmt_MolecularMechanicsDict.append_structures
• molsysmt.form.molsysmt_MolecularMechanicsDict.copy
• molsysmt.form.molsysmt_MolecularMechanicsDict.extract
• molsysmt.form.molsysmt_MolecularMechanicsDict.has_attribute
• molsysmt.form.molsysmt_MolecularMechanicsDict.is_form
• molsysmt.form.molsysmt_MolecularMechanicsDict.merge
• molsysmt.form.molsysmt_PDBFileHandler
• molsysmt.form.molsysmt_PDBFileHandler.add
• molsysmt.form.molsysmt_PDBFileHandler.append_structures
• molsysmt.form.molsysmt_PDBFileHandler.copy
• molsysmt.form.molsysmt_PDBFileHandler.has_attribute
• molsysmt.form.molsysmt_PDBFileHandler.is_form
• molsysmt.form.molsysmt_PDBFileHandler.merge
• molsysmt.form.molsysmt_Structures.add
• molsysmt.form.molsysmt_Structures.append_structures
• molsysmt.form.molsysmt_Structures.copy
• molsysmt.form.molsysmt_Structures.extract
• molsysmt.form.molsysmt_Structures.has_attribute
• molsysmt.form.molsysmt_Structures.is_form
• molsysmt.form.molsysmt_Structures.iterators
• molsysmt.form.molsysmt_Structures.merge
• molsysmt.form.molsysmt_StructuresDict.add
• molsysmt.form.molsysmt_StructuresDict.append_structures
• molsysmt.form.molsysmt_StructuresDict.copy
• molsysmt.form.molsysmt_StructuresDict.extract
• molsysmt.form.molsysmt_StructuresDict.has_attribute
• molsysmt.form.molsysmt_StructuresDict.is_form
• molsysmt.form.molsysmt_StructuresDict.iterators
• molsysmt.form.molsysmt_StructuresDict.merge
• molsysmt.form.molsysmt_Topology.add
• molsysmt.form.molsysmt_Topology.append_structures
• molsysmt.form.molsysmt_Topology.copy
• molsysmt.form.molsysmt_Topology.extract
• molsysmt.form.molsysmt_Topology.has_attribute
• molsysmt.form.molsysmt_Topology.is_form
• molsysmt.form.molsysmt_Topology.iterators
• molsysmt.form.molsysmt_Topology.merge
• molsysmt.form.networkx_Graph.add
• molsysmt.form.networkx_Graph.append_structures
• molsysmt.form.networkx_Graph.copy
• molsysmt.form.networkx_Graph.extract
• molsysmt.form.networkx_Graph.has_attribute
• molsysmt.form.networkx_Graph.is_form
• molsysmt.form.networkx_Graph.iterators
• molsysmt.form.networkx_Graph.merge
• molsysmt.form.nglview_NGLWidget
• molsysmt.form.nglview_NGLWidget.add
• molsysmt.form.nglview_NGLWidget.append_structures
• molsysmt.form.nglview_NGLWidget.extract
• molsysmt.form.nglview_NGLWidget.has_attribute
• molsysmt.form.nglview_NGLWidget.is_form
• molsysmt.form.nglview_NGLWidget.iterators
• molsysmt.form.nglview_NGLWidget.merge
• molsysmt.form.openmm_AmberInpcrdFile.add
• molsysmt.form.openmm_AmberInpcrdFile.append_structures
• molsysmt.form.openmm_AmberInpcrdFile.copy
• molsysmt.form.openmm_AmberInpcrdFile.extract
• molsysmt.form.openmm_AmberInpcrdFile.has_attribute
• molsysmt.form.openmm_AmberInpcrdFile.is_form
• molsysmt.form.openmm_AmberInpcrdFile.iterators
• molsysmt.form.openmm_AmberInpcrdFile.merge
• molsysmt.form.openmm_AmberPrmtopFile.add
• molsysmt.form.openmm_AmberPrmtopFile.append_structures
• molsysmt.form.openmm_AmberPrmtopFile.copy
• molsysmt.form.openmm_AmberPrmtopFile.extract
• molsysmt.form.openmm_AmberPrmtopFile.has_attribute
• molsysmt.form.openmm_AmberPrmtopFile.is_form
• molsysmt.form.openmm_AmberPrmtopFile.iterators
• molsysmt.form.openmm_AmberPrmtopFile.merge
• molsysmt.form.openmm_CharmmCrdFile.add
• molsysmt.form.openmm_CharmmCrdFile.append_structures
• molsysmt.form.openmm_CharmmCrdFile.copy
• molsysmt.form.openmm_CharmmCrdFile.extract
• molsysmt.form.openmm_CharmmCrdFile.has_attribute
• molsysmt.form.openmm_CharmmCrdFile.is_form
• molsysmt.form.openmm_CharmmCrdFile.iterators
• molsysmt.form.openmm_CharmmCrdFile.merge
• molsysmt.form.openmm_CharmmPsfFile.add
• molsysmt.form.openmm_CharmmPsfFile.append_structures
• molsysmt.form.openmm_CharmmPsfFile.copy
• molsysmt.form.openmm_CharmmPsfFile.extract
• molsysmt.form.openmm_CharmmPsfFile.has_attribute
• molsysmt.form.openmm_CharmmPsfFile.is_form
• molsysmt.form.openmm_CharmmPsfFile.iterators
• molsysmt.form.openmm_CharmmPsfFile.merge
• molsysmt.form.openmm_Context.add
• molsysmt.form.openmm_Context.append_structures
• molsysmt.form.openmm_Context.copy
• molsysmt.form.openmm_Context.extract
• molsysmt.form.openmm_Context.has_attribute
• molsysmt.form.openmm_Context.is_form
• molsysmt.form.openmm_Context.iterators
• molsysmt.form.openmm_Context.merge
• molsysmt.form.openmm_GromacsGroFile.add
• molsysmt.form.openmm_GromacsGroFile.append_structures
• molsysmt.form.openmm_GromacsGroFile.copy
• molsysmt.form.openmm_GromacsGroFile.extract
• molsysmt.form.openmm_GromacsGroFile.has_attribute
• molsysmt.form.openmm_GromacsGroFile.is_form
• molsysmt.form.openmm_GromacsGroFile.iterators
• molsysmt.form.openmm_GromacsGroFile.merge
• molsysmt.form.openmm_GromacsTopFile.add
• molsysmt.form.openmm_GromacsTopFile.append_structures
• molsysmt.form.openmm_GromacsTopFile.copy
• molsysmt.form.openmm_GromacsTopFile.extract
• molsysmt.form.openmm_GromacsTopFile.has_attribute
• molsysmt.form.openmm_GromacsTopFile.is_form
• molsysmt.form.openmm_GromacsTopFile.iterators
• molsysmt.form.openmm_GromacsTopFile.merge
• molsysmt.form.openmm_Modeller.add
• molsysmt.form.openmm_Modeller.append_structures
• molsysmt.form.openmm_Modeller.copy
• molsysmt.form.openmm_Modeller.extract
• molsysmt.form.openmm_Modeller.has_attribute
• molsysmt.form.openmm_Modeller.is_form
• molsysmt.form.openmm_Modeller.iterators
• molsysmt.form.openmm_Modeller.merge
• molsysmt.form.openmm_PDBFile.add
• molsysmt.form.openmm_PDBFile.append_structures
• molsysmt.form.openmm_PDBFile.copy
• molsysmt.form.openmm_PDBFile.extract
• molsysmt.form.openmm_PDBFile.has_attribute
• molsysmt.form.openmm_PDBFile.is_form
• molsysmt.form.openmm_PDBFile.iterators
• molsysmt.form.openmm_PDBFile.merge
• molsysmt.form.openmm_Simulation.add
• molsysmt.form.openmm_Simulation.append_structures
• molsysmt.form.openmm_Simulation.copy
• molsysmt.form.openmm_Simulation.extract
• molsysmt.form.openmm_Simulation.has_attribute
• molsysmt.form.openmm_Simulation.is_form
• molsysmt.form.openmm_Simulation.iterators
• molsysmt.form.openmm_Simulation.merge
• molsysmt.form.openmm_State.add
• molsysmt.form.openmm_State.append_structures
• molsysmt.form.openmm_State.copy
• molsysmt.form.openmm_State.extract
• molsysmt.form.openmm_State.has_attribute
• molsysmt.form.openmm_State.is_form
• molsysmt.form.openmm_State.iterators
• molsysmt.form.openmm_State.merge
• molsysmt.form.openmm_System.add
• molsysmt.form.openmm_System.append_structures
• molsysmt.form.openmm_System.copy
• molsysmt.form.openmm_System.extract
• molsysmt.form.openmm_System.has_attribute
• molsysmt.form.openmm_System.is_form
• molsysmt.form.openmm_System.iterators
• molsysmt.form.openmm_System.merge
• molsysmt.form.openmm_Topology.add
• molsysmt.form.openmm_Topology.append_structures
• molsysmt.form.openmm_Topology.copy
• molsysmt.form.openmm_Topology.extract
• molsysmt.form.openmm_Topology.has_attribute
• molsysmt.form.openmm_Topology.is_form
• molsysmt.form.openmm_Topology.iterators
• molsysmt.form.openmm_Topology.merge
• molsysmt.form.openmm_Topology.write_topology_in_h5msm
• molsysmt.form.parmed_Structure.add
• molsysmt.form.parmed_Structure.append_structures
• molsysmt.form.parmed_Structure.copy
• molsysmt.form.parmed_Structure.extract
• molsysmt.form.parmed_Structure.has_attribute
• molsysmt.form.parmed_Structure.is_form
• molsysmt.form.parmed_Structure.iterators
• molsysmt.form.parmed_Structure.merge
• molsysmt.form.pdbfixer_PDBFixer.add
• molsysmt.form.pdbfixer_PDBFixer.append_structures
• molsysmt.form.pdbfixer_PDBFixer.copy
• molsysmt.form.pdbfixer_PDBFixer.extract
• molsysmt.form.pdbfixer_PDBFixer.has_attribute
• molsysmt.form.pdbfixer_PDBFixer.is_form
• molsysmt.form.pdbfixer_PDBFixer.iterators
• molsysmt.form.pdbfixer_PDBFixer.merge
• molsysmt.form.pytraj_Topology.add
• molsysmt.form.pytraj_Topology.append_structures
• molsysmt.form.pytraj_Topology.copy
• molsysmt.form.pytraj_Topology.extract
• molsysmt.form.pytraj_Topology.has_attribute
• molsysmt.form.pytraj_Topology.is_form
• molsysmt.form.pytraj_Topology.iterators
• molsysmt.form.pytraj_Topology.merge
• molsysmt.form.pytraj_Trajectory.add
• molsysmt.form.pytraj_Trajectory.append_structures
• molsysmt.form.pytraj_Trajectory.copy
• molsysmt.form.pytraj_Trajectory.extract
• molsysmt.form.pytraj_Trajectory.has_attribute
• molsysmt.form.pytraj_Trajectory.is_form
• molsysmt.form.pytraj_Trajectory.iterators
• molsysmt.form.pytraj_Trajectory.merge
• molsysmt.form.string_alphafold_id.add
• molsysmt.form.string_alphafold_id.append_structures
• molsysmt.form.string_alphafold_id.copy
• molsysmt.form.string_alphafold_id.extract
• molsysmt.form.string_alphafold_id.has_attribute
• molsysmt.form.string_alphafold_id.is_form
• molsysmt.form.string_alphafold_id.iterators
• molsysmt.form.string_alphafold_id.merge
• molsysmt.form.string_amino_acids_1.add
• molsysmt.form.string_amino_acids_1.append_structures
• molsysmt.form.string_amino_acids_1.extract
• molsysmt.form.string_amino_acids_1.has_attribute
• molsysmt.form.string_amino_acids_1.is_form
• molsysmt.form.string_amino_acids_1.iterators
• molsysmt.form.string_amino_acids_1.merge
• molsysmt.form.string_amino_acids_3.add
• molsysmt.form.string_amino_acids_3.append_structures
• molsysmt.form.string_amino_acids_3.copy
• molsysmt.form.string_amino_acids_3.extract
• molsysmt.form.string_amino_acids_3.has_attribute
• molsysmt.form.string_amino_acids_3.is_form
• molsysmt.form.string_amino_acids_3.iterators
• molsysmt.form.string_amino_acids_3.merge
• molsysmt.form.string_pdb_id.add
• molsysmt.form.string_pdb_id.append_structures
• molsysmt.form.string_pdb_id.copy
• molsysmt.form.string_pdb_id.extract
• molsysmt.form.string_pdb_id.has_attribute
• molsysmt.form.string_pdb_id.is_form
• molsysmt.form.string_pdb_id.iterators
• molsysmt.form.string_pdb_id.merge
• molsysmt.form.string_pdb_text.add
• molsysmt.form.string_pdb_text.append_structures
• molsysmt.form.string_pdb_text.copy
• molsysmt.form.string_pdb_text.extract
• molsysmt.form.string_pdb_text.has_attribute
• molsysmt.form.string_pdb_text.is_form
• molsysmt.form.string_pdb_text.iterators
• molsysmt.form.string_pdb_text.merge
• molsysmt.hbonds.get_acceptor_atoms
• molsysmt.hbonds.get_buch_hbonds
• molsysmt.hbonds.get_donor_atoms
• molsysmt.hbonds.get_luzard_chandler_hbonds
• molsysmt.molecular_mechanics.get_engine_forcefield
• molsysmt.molecular_mechanics.get_forces
• molsysmt.molecular_mechanics.get_non_bonded_potential_energy
• molsysmt.molecular_mechanics.get_potential_energy
• molsysmt.molecular_mechanics.potential_energy_minimization
• molsysmt.pbc.get_angles_from_box
• molsysmt.pbc.get_box_from_lengths_and_angles
• molsysmt.pbc.get_box_with_shape
• molsysmt.pbc.get_lengths_and_angles_from_box
• molsysmt.pbc.get_lengths_from_box
• molsysmt.pbc.get_shape_from_angles
• molsysmt.pbc.get_shape_from_box
• molsysmt.pbc.get_volume_from_box
• molsysmt.pbc.get_volume_from_lengths_and_angles
• molsysmt.pbc.has_pbc
• molsysmt.pbc.unwrap
• molsysmt.pbc.wrap_to_mic
• molsysmt.pbc.wrap_to_pbc
• molsysmt.physchem.get_area_buried
• molsysmt.physchem.get_atomic_radius
• molsysmt.physchem.get_buried_fraction
• molsysmt.physchem.get_charge
• molsysmt.physchem.get_hydrophobicity
• molsysmt.physchem.get_mass
• molsysmt.physchem.get_polarity
• molsysmt.physchem.get_sasa
• molsysmt.physchem.get_surface_area
• molsysmt.physchem.get_transmembrane_tendency
• molsysmt.physchem.get_volume
• molsysmt.structure.align_principal_axes
• molsysmt.structure.center
• molsysmt.structure.flip
• molsysmt.structure.get_angles
• molsysmt.structure.get_center
• molsysmt.structure.get_contacts
• molsysmt.structure.get_dihedral_angles
• molsysmt.structure.get_distances
• molsysmt.structure.get_least_rmsd
• molsysmt.structure.get_maximum_distances
• molsysmt.structure.get_minimum_distances
• molsysmt.structure.get_neighbors
• molsysmt.structure.get_principal_axes
• molsysmt.structure.get_radius_of_gyration
• molsysmt.structure.get_rmsd
• molsysmt.structure.least_rmsd_align
• molsysmt.structure.least_rmsd_fit
• molsysmt.structure.move_away
• molsysmt.structure.principal_component_analysis
• molsysmt.structure.rotate
• molsysmt.structure.set_dihedral_angles
• molsysmt.structure.shift_dihedral_angles
• molsysmt.structure.show_contacts
• molsysmt.structure.translate
• molsysmt.third_party.nglview.add_arrows
• molsysmt.third_party.nglview.add_contacts
• molsysmt.third_party.nglview.add_cylinders
• molsysmt.third_party.nglview.add_hbonds
• molsysmt.third_party.nglview.clear
• molsysmt.third_party.nglview.set_color
• molsysmt.third_party.nglview.set_color_by_value
• molsysmt.third_party.nglview.show_as_balls_and_sticks
• molsysmt.third_party.nglview.show_as_cartoon
• molsysmt.third_party.nglview.show_as_licorice
• molsysmt.third_party.nglview.show_as_surface
• molsysmt.third_party.nglview.show_gui
• molsysmt.third_party.nglview.standardize_view
• molsysmt.third_party.nglview.write_html
• molsysmt.third_party.openmm.forces.add_allowed_plane_region
• molsysmt.third_party.openmm.forces.add_allowed_z_region
• molsysmt.third_party.openmm.forces.add_constant_force
• molsysmt.third_party.openmm.forces.add_forbidden_plane_region
• molsysmt.third_party.openmm.forces.add_forbidden_z_region
• molsysmt.third_party.openmm.forces.add_harmonic_bond_force
• molsysmt.third_party.openmm.forces.add_plane_harmonic_restraint
• molsysmt.third_party.openmm.forces.add_point_harmonic_restraint
• molsysmt.third_party.openmm.forces.pin_atoms
• molsysmt.third_party.openmm.platforms.platforms
• molsysmt.third_party.openmm.reporters.StructuresDict
• molsysmt.third_party.openmm.reporters.h5msm
• molsysmt.third_party.openmm.reporters.tqdm
• molsysmt.topology.get_bondgraph
• molsysmt.topology.get_covalent_blocks
• molsysmt.topology.get_dihedral_quartets
• molsysmt.topology.get_sequence_alignment
• molsysmt.topology.get_sequence_identity