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Form

  • 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
  • mdtraj.Trajectory

mdtraj.Trajectory#

add(to_item, item[, atom_indices, ...])

append_structures(item[, structure_id, ...])

copy(item[, skip_digestion])

extract(item[, atom_indices, ...])

has_attribute(molecular_system, attribute[, ...])

is_form(item)

StructuresIterator(molecular_system[, ...])

TopologyIterator(molecular_system)

merge(items[, atom_indices, ...])

set

to_biopython_Seq

to_biopython_SeqRecord

to_file_pdb

to_file_xtc

to_mdtraj_Topology

to_molsysmt_MolSys

to_molsysmt_Structures

to_molsysmt_Topology

to_nglview_NGLWidget

to_openmm_Modeller

to_openmm_Topology

to_parmed_Structure

to_pdbfixer_PDBFixer

to_pytraj_Topology

to_pytraj_Trajectory

to_string_amino_acids_1

to_string_amino_acids_3

previous

molsysmt.form.mdtraj_Topology.to_string_amino_acids_3

next

molsysmt.form.mdtraj_Trajectory.add

© 2026, Liliana M. Moreno Vargas, Diego Prada Gracia and contributors | UIBCDF Lab at the Federico Gómez Children’s Hospital of Mexico
MolSysMT is an open source project shared under an MIT license

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