Here is a list of all class members with links to the classes they belong to:

### - s -

- serialize() : XmlSerializer
- setAcceptorParameters() : CustomHbondForce
- setAEwald() : AmoebaMultipoleForce
- setAmoebaGlobalAngleCubic() : AmoebaAngleForce
- setAmoebaGlobalAnglePentic() : AmoebaAngleForce
- setAmoebaGlobalAngleQuartic() : AmoebaAngleForce
- setAmoebaGlobalAngleSextic() : AmoebaAngleForce
- setAmoebaGlobalBondCubic() : AmoebaBondForce
- setAmoebaGlobalBondQuartic() : AmoebaBondForce
- setAmoebaGlobalInPlaneAngleCubic() : AmoebaInPlaneAngleForce
- setAmoebaGlobalInPlaneAnglePentic() : AmoebaInPlaneAngleForce
- setAmoebaGlobalInPlaneAngleQuartic() : AmoebaInPlaneAngleForce
- setAmoebaGlobalInPlaneAngleSextic() : AmoebaInPlaneAngleForce
- setAmoebaGlobalOutOfPlaneBendCubic() : AmoebaOutOfPlaneBendForce
- setAmoebaGlobalOutOfPlaneBendPentic() : AmoebaOutOfPlaneBendForce
- setAmoebaGlobalOutOfPlaneBendQuartic() : AmoebaOutOfPlaneBendForce
- setAmoebaGlobalOutOfPlaneBendSextic() : AmoebaOutOfPlaneBendForce
- setAngleParameters() : CustomAngleForce , HarmonicAngleForce , AmoebaAngleForce , AmoebaInPlaneAngleForce
- setApplyThermostat() : RPMDIntegrator
- setAwater() : AmoebaWcaDispersionForce
- setBondParameters() : CustomBondForce , CustomCompoundBondForce , GBVIForce , HarmonicBondForce , AmoebaBondForce
- setBornRadiusScalingMethod() : GBVIForce
- setComputedValueParameters() : CustomGBForce
- setConstraintParameters() : System
- setConstraintTolerance() : Integrator
- setCovalentMap() : AmoebaMultipoleForce
- setCutoff() : AmoebaVdwForce
- setCutoffDistance() : CustomGBForce , CustomHbondForce , CustomManyParticleForce , CustomNonbondedForce , GBSAOBCForce , GBVIForce , NonbondedForce , AmoebaMultipoleForce
- setDefaultCollisionFrequency() : AndersenThermostat
- setDefaultPeriodicBoxVectors() : System
- setDefaultPressure() : MonteCarloAnisotropicBarostat , MonteCarloBarostat , MonteCarloMembraneBarostat
- setDefaultSurfaceTension() : MonteCarloMembraneBarostat
- setDefaultTemperature() : AndersenThermostat
- setDispoff() : AmoebaWcaDispersionForce
- setDonorParameters() : CustomHbondForce
- setDrudeFriction() : DrudeLangevinIntegrator
- setDrudeTemperature() : DrudeLangevinIntegrator
- setEnergy() : State
- setEnergyFunction() : CustomAngleForce , CustomBondForce , CustomCompoundBondForce , CustomExternalForce , CustomHbondForce , CustomManyParticleForce , CustomNonbondedForce , CustomTorsionForce
- setEnergyTermParameters() : CustomGBForce
- setEpsh() : AmoebaWcaDispersionForce
- setEpsilonCombiningRule() : AmoebaVdwForce
- setEpso() : AmoebaWcaDispersionForce
- setErrorTolerance() : VariableLangevinIntegrator , VariableVerletIntegrator
- setEwaldErrorTolerance() : NonbondedForce , AmoebaMultipoleForce
- setExceptionParameters() : NonbondedForce
- setExclusionParticles() : CustomGBForce , CustomHbondForce , CustomManyParticleForce , CustomNonbondedForce
- setForceGroup() : Force
- setForces() : State
- setFrequency() : CMMotionRemover , MonteCarloAnisotropicBarostat , MonteCarloBarostat , MonteCarloMembraneBarostat
- setFriction() : BrownianIntegrator , LangevinIntegrator , VariableLangevinIntegrator , DrudeLangevinIntegrator , RPMDIntegrator
- setFunctionParameters() : CustomCompoundBondForce , CustomGBForce , CustomHbondForce , CustomNonbondedForce , Continuous1DFunction , Continuous2DFunction , Continuous3DFunction , Discrete1DFunction , Discrete2DFunction , Discrete3DFunction
- setGlobalParameterDefaultValue() : CustomAngleForce , CustomBondForce , CustomCompoundBondForce , CustomExternalForce , CustomGBForce , CustomHbondForce , CustomManyParticleForce , CustomNonbondedForce , CustomTorsionForce
- setGlobalParameterName() : CustomAngleForce , CustomBondForce , CustomCompoundBondForce , CustomExternalForce , CustomGBForce , CustomHbondForce , CustomManyParticleForce , CustomNonbondedForce , CustomTorsionForce
- setGlobalVariable() : CustomIntegrator
- setGlobalVariableByName() : CustomIntegrator
- setIncludeCavityTerm() : AmoebaGeneralizedKirkwoodForce
- setInteractionGroupParameters() : CustomNonbondedForce
- setKineticEnergyExpression() : CustomIntegrator
- setMapParameters() : CMAPTorsionForce
- setMinimizationErrorTolerance() : DrudeSCFIntegrator
- setMultipoleParameters() : AmoebaMultipoleForce
- setMutualInducedMaxIterations() : AmoebaMultipoleForce
- setMutualInducedTargetEpsilon() : AmoebaMultipoleForce
- setNonbondedMethod() : CustomNonbondedForce , GBSAOBCForce , GBVIForce , NonbondedForce , AmoebaMultipoleForce , AmoebaVdwForce , CustomGBForce , CustomHbondForce , CustomManyParticleForce
- setOutOfPlaneBendParameters() : AmoebaOutOfPlaneBendForce
- setParameter() : Context , ContextImpl
- setParameters() : State
- setParticleExclusions() : AmoebaVdwForce
- setParticleMass() : System
- setParticleParameters() : CustomNonbondedForce , CustomExternalForce , CustomGBForce , CustomManyParticleForce , GBSAOBCForce , GBVIForce , NonbondedForce , DrudeForce , AmoebaGeneralizedKirkwoodForce , AmoebaVdwForce , AmoebaWcaDispersionForce
- setParticles() : VirtualSite
- setPerAcceptorParameterName() : CustomHbondForce
- setPerAngleParameterName() : CustomAngleForce
- setPerBondParameterName() : CustomBondForce , CustomCompoundBondForce
- setPerDofVariable() : CustomIntegrator
- setPerDofVariableByName() : CustomIntegrator
- setPerDonorParameterName() : CustomHbondForce
- setPeriodicBoxVectors() : ContextImpl , State , Context
- setPermutationMode() : CustomManyParticleForce
- setPerParticleParameterName() : CustomExternalForce , CustomGBForce , CustomManyParticleForce , CustomNonbondedForce
- setPerTorsionParameterName() : CustomTorsionForce
- setPiTorsionParameters() : AmoebaPiTorsionForce
- setPlatformData() : ContextImpl
- setPmeGridDimensions() : AmoebaMultipoleForce
- setPMEParameters() : NonbondedForce
- setPolarizationType() : AmoebaMultipoleForce
- setPositions() : Context , ContextImpl , RPMDIntegrator , State
- setProbeRadius() : AmoebaGeneralizedKirkwoodForce
- setPropertyDefaultValue() : Platform
- setPropertyValue() : Platform
- setQuinticLowerLimitFactor() : GBVIForce
- setQuinticUpperBornRadiusLimit() : GBVIForce
- setRandomNumberSeed() : BrownianIntegrator , DrudeLangevinIntegrator , MonteCarloMembraneBarostat , AndersenThermostat , VariableLangevinIntegrator , CustomIntegrator , LangevinIntegrator , MonteCarloAnisotropicBarostat , MonteCarloBarostat , RPMDIntegrator
- setReactionFieldDielectric() : NonbondedForce
- setReciprocalSpaceForceGroup() : NonbondedForce
- setRminh() : AmoebaWcaDispersionForce
- setRmino() : AmoebaWcaDispersionForce
- setScreenedPairParameters() : DrudeForce
- setShctd() : AmoebaWcaDispersionForce
- setSigmaCombiningRule() : AmoebaVdwForce
- setSlevy() : AmoebaWcaDispersionForce
- setSoluteDielectric() : GBSAOBCForce , AmoebaGeneralizedKirkwoodForce , GBVIForce
- setSolventDielectric() : AmoebaGeneralizedKirkwoodForce , GBVIForce , GBSAOBCForce
- setState() : Context
- setStepSize() : Integrator
- setStretchBendParameters() : AmoebaStretchBendForce
- setSurfaceAreaEnergy() : GBSAOBCForce
- setSurfaceAreaFactor() : AmoebaGeneralizedKirkwoodForce
- setSwitchingDistance() : CustomNonbondedForce , NonbondedForce
- setTemperature() : LangevinIntegrator , BrownianIntegrator , MonteCarloAnisotropicBarostat , MonteCarloBarostat , VariableLangevinIntegrator , RPMDIntegrator , MonteCarloMembraneBarostat , DrudeLangevinIntegrator
- setTime() : Context , ContextImpl
- setTorsionParameters() : PeriodicTorsionForce , CustomTorsionForce , RBTorsionForce , CMAPTorsionForce
- setTorsionTorsionGrid() : AmoebaTorsionTorsionForce
- setTorsionTorsionParameters() : AmoebaTorsionTorsionForce
- setTypeFilter() : CustomManyParticleForce
- setUseDispersionCorrection() : NonbondedForce , AmoebaVdwForce
- setUseLongRangeCorrection() : CustomNonbondedForce
- setUseSwitchingFunction() : CustomNonbondedForce , NonbondedForce
- setVelocities() : State , RPMDIntegrator , ContextImpl , Context
- setVelocitiesToTemperature() : Context
- setVirtualSite() : System
- setXYMode() : MonteCarloMembraneBarostat
- setZMode() : MonteCarloMembraneBarostat
- SingleParticle : CustomGBForce
- SinglePermutation : CustomManyParticleForce
- State() : State
- StateBuilder() : State
- stateChanged() : DrudeLangevinIntegrator , RPMDIntegrator , DrudeSCFIntegrator , CustomIntegrator , Integrator
- step() : RPMDIntegrator , CustomIntegrator , Integrator , DrudeLangevinIntegrator , LangevinIntegrator , BrownianIntegrator , VariableVerletIntegrator , VariableLangevinIntegrator , VerletIntegrator , DrudeSCFIntegrator
- stepTo() : VariableVerletIntegrator , VariableLangevinIntegrator
- store() : ivec4 , fvec4 , ivec4 , fvec4 , ivec8 , fvec8
- supportsDoublePrecision() : Platform
- supportsKernels() : Platform
- SurfaceTension() : MonteCarloMembraneBarostat
- syncThreads() : ThreadPool
- System() : System