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biopython.Seq
biopython.SeqRecord
file:bcif
file:bcif.gz
file:cif
file:crd
file:dcd
file:gro
file:h5
file:h5msm
file:inpcrd
file:mol2
file:pdb
file:prmtop
file:psf
file:trjpk
file:xtc
file:xyznpy
MDAnalysis.Topology
MDAnalysis.Universe
mdtraj.DCDTrajectoryFile
mdtraj.HDF5TrajectoryFile
mdtraj.Topology
mdtraj.Trajectory
mdtraj.XTCTrajectoryFile
mmcif.PdbxContainers.DataContainer
molsysmt.CIFFileHandler
molsysmt.GROFileHandler
molsysmt.H5MSMFileHandler
molsysmt.MolecularMechanics
molsysmt.MolecularMechanicsDict
molsysmt.MolSys
molsysmt.PDBFileHandler
molsysmt.Structures
molsysmt.Structures
molsysmt.Topology
networkx.Graph
nglview_NGLWidget
openmm.AmberInpcrdFile
openmm.AmberPrmtopFile
openmm.CharmmCrdFile
openmm.CharmmPsfFile
openmm.Context
openmm.GromacsGroFile
openmm.GromacsGroFile
openmm.Modeller
openmm.PDBFile
openmm.Simulation
openmm.State
openmm.System
openmm.Topology
parmed.Structure
pdbfixer.PDBFixer
pytraj.Topology
pytraj.Trajectory
strubg:alphafold_id
string:aminoacids1
string:aminoacids3
string:pdb_id
string:pdb_text
XYZ
API documentation
Form
file:h5
molsysmt.form.file_h5.to_mdtraj_Topology
molsysmt.form.file_h5.to_mdtraj_Topology
#
Functions
to_mdtraj_Topology
(item[, atom_indices, ...])
