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AllBonds
AmberInpcrdFile
AmberPrmtopFile
AMDForceGroupIntegrator
AMDIntegrator
AmoebaAngleForce
AmoebaBondForce
AmoebaGeneralizedKirkwoodForce
AmoebaInPlaneAngleForce
AmoebaMultipoleForce
AmoebaOutOfPlaneBendForce
AmoebaPiTorsionForce
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AmoebaTorsionTorsionForce
AmoebaVdwForce
AmoebaWcaDispersionForce
AndersenThermostat
Atom
BrownianIntegrator
Chain
CharmmCrdFile
CharmmParameterSet
CharmmPsfFile
CharmmRstFile
CheckpointReporter
CMAPTorsionForce
CMMotionRemover
CompoundIntegrator
Context
Continuous1DFunction
Continuous2DFunction
Continuous3DFunction
CustomAngleForce
CustomBondForce
CustomCentroidBondForce
CustomCompoundBondForce
CustomExternalForce
CustomGBForce
CustomHbondForce
CustomIntegrator
CustomManyParticleForce
CustomNonbondedForce
CustomTorsionForce
CutoffNonPeriodic
CutoffPeriodic
DCDFile
DCDReporter
DesmondDMSFile
Discrete1DFunction
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Discrete3DFunction
DrudeForce
DrudeLangevinIntegrator
DrudeSCFIntegrator
DualAMDIntegrator
Element
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GromacsGroFile
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HAngles
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MTSIntegrator
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OpenMMException
OutOfPlaneSite
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RPMDIntegrator
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Simulation
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ThreeParticleAverageSite
Topology
__init__
__repr__
addAtom
addBond
addChain
addResidue
atoms
bonds
chains
createDisulfideBonds
createStandardBonds
getNumAtoms
getNumChains
getNumResidues
getPeriodicBoxVectors
getUnitCellDimensions
loadBondDefinitions
residues
setPeriodicBoxVectors
setUnitCellDimensions
TwoParticleAverageSite
VariableLangevinIntegrator
VariableVerletIntegrator
Vec3
VerletIntegrator
VirtualSite
XmlSerializer
Class Index
Class Hierarchy
Class Members
Topology Member List
This is the complete list of members for
Topology
, including all inherited members.
__init__
Topology
__repr__
Topology
addAtom
Topology
addBond
Topology
addChain
Topology
addResidue
Topology
atoms
Topology
bonds
Topology
chains
Topology
createDisulfideBonds
Topology
createStandardBonds
Topology
getNumAtoms
Topology
getNumChains
Topology
getNumResidues
Topology
getPeriodicBoxVectors
Topology
getUnitCellDimensions
Topology
loadBondDefinitions
Topology
[static]
residues
Topology
setPeriodicBoxVectors
Topology
setUnitCellDimensions
Topology
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