Here is a list of all documented class members with links to the class documentation for each member:

- s -

• S1S2Stimulus() : S1S2Stimulus
• save() : AbstractCardiacCellWithModifiers< CARDIAC_CELL > , AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM > , AbstractCvodeSystem , AbstractDynamicallyLoadableEntity , AbstractOdeSystem , AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , BidomainProblem< DIM > , BoundaryConditionsContainer< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• Save() : CardiacSimulationArchiver< PROBLEM_CLASS > , CellBasedSimulationArchiver< ELEMENT_DIM, SIM, SPACE_DIM >
• save() : Electrodes< DIM > , ExtendedBidomainProblem< DIM > , HeartConfig , MutableMesh< ELEMENT_DIM, SPACE_DIM > , PottsMesh< DIM > , RandomNumberGenerator , SerializableSingleton< SINGLETON_CLASS > , VertexMesh< ELEMENT_DIM, SPACE_DIM >
• SaveBoundaryConditions() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SaveCardiacCells() : AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM >
• SaveExtendedBidomainCells() : ExtendedBidomainTissue< SPACE_DIM >
• SaveExtracellularStimulus() : ExtendedBidomainTissue< SPACE_DIM >
• sCa : CorriasBuistSMCModified
• Scale() : AbstractMesh< ELEMENT_DIM, SPACE_DIM > , Cylindrical2dVertexMesh , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , PetscVecTools
• ScaleMaterialParameters() : AbstractMaterialLaw< DIM > , CompressibleMooneyRivlinMaterialLaw< DIM > , MooneyRivlinMaterialLaw< DIM > , PoleZeroMaterialLaw< DIM >
• ScheduleForDeletion() : DynamicModelLoaderRegistry
• SchemaLocationsMap : HeartConfig
• SchmidCostaExponentialLaw2d() : SchmidCostaExponentialLaw2d
• SendCellsToNeighbourProcesses() : NodeBasedCellPopulation< DIM >
• SendObject() : ObjectCommunicator< CLASS >
• SendRecvObject() : ObjectCommunicator< CLASS >
• serialize() : AbstractBackwardEulerCardiacCell< SIZE > , AbstractBackwardEulerCardiacCell< 0u > , AbstractBoundaryCondition< SPACE_DIM > , AbstractCaBasedDivisionRule< DIM > , AbstractCardiacCell , AbstractCardiacCellInterface , AbstractCaSwitchingUpdateRule< DIM > , AbstractCaUpdateRule< DIM > , AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM > , AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM > , AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM > , AbstractCellCycleModel , AbstractCellCycleModelOdeSolver , AbstractCellKiller< SPACE_DIM > , AbstractCellMutationState , AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > , AbstractCellPopulationBoundaryCondition< ELEMENT_DIM, SPACE_DIM > , AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM > , AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM > , AbstractCellProliferativeType , AbstractCellProperty , AbstractCellWriter< ELEMENT_DIM, SPACE_DIM > , AbstractCentreBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > , AbstractChasteRegion< SPACE_DIM > , AbstractCvodeCell , AbstractCvodeCellWithDataClamp , AbstractForce< ELEMENT_DIM, SPACE_DIM > , AbstractGeneralizedRushLarsenCardiacCell , AbstractIvpOdeSolver , AbstractLinearEllipticPde< ELEMENT_DIM, SPACE_DIM > , AbstractLinearParabolicPde< ELEMENT_DIM, SPACE_DIM > , AbstractMesh< ELEMENT_DIM, SPACE_DIM > , AbstractModifier , AbstractOdeBasedCellCycleModel , AbstractOdeSrnModel , AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > , AbstractOneStepIvpOdeSolver , AbstractOnLatticeCellPopulation< DIM > , AbstractOutputModifier , AbstractPottsUpdateRule< DIM > , AbstractRushLarsenCardiacCell , AbstractSimpleCellCycleModel , AbstractSimpleGenerationBasedCellCycleModel , AbstractSrnModel , AbstractStimulusFunction , AbstractTargetAreaModifier< DIM > , AbstractTwoBodyInteractionForce< ELEMENT_DIM, SPACE_DIM > , AbstractVanLeeuwen2009WntSwatCellCycleModel , AbstractVertexBasedDivisionRule< SPACE_DIM > , AbstractWntOdeBasedCellCycleModel , AdhesionPottsUpdateRule< DIM > , Alarcon2004OxygenBasedCellCycleModel , Alarcon2004OxygenBasedCellCycleOdeSystem , ApcOneHitCellMutationState , ApcTwoHitCellMutationState , ApoptoticCellKiller< SPACE_DIM > , ApoptoticCellProperty , AveragedSourcePde< DIM > , BackwardEulerIvpOdeSolver , BetaCateninOneHitCellMutationState , BidomainTissue< SPACE_DIM > , BidomainWithBathProblem< DIM > , BoundaryNodeWriter< ELEMENT_DIM, SPACE_DIM > , BuskeAdhesiveForce< DIM > , BuskeCompressionForce< DIM > , BuskeElasticForce< DIM > , CaBasedCellPopulation< DIM > , Cell , CellAgesWriter< ELEMENT_DIM, SPACE_DIM > , CellAncestor , CellAncestorWriter< ELEMENT_DIM, SPACE_DIM > , CellBasedPdeHandler< DIM > , CellBasedPdeHandlerOnCuboid< DIM > , CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM > , CellCycleModelOdeHandler , CellCycleModelOdeSolver< CELL_CYCLE_MODEL, ODE_SOLVER > , CellCycleModelOdeSolver< CELL_CYCLE_MODEL, BackwardEulerIvpOdeSolver > , CellCycleModelProteinConcentrationsWriter< ELEMENT_DIM, SPACE_DIM > , CellData , CellDeltaNotchWriter< ELEMENT_DIM, SPACE_DIM > , CellId , CellIdWriter< ELEMENT_DIM, SPACE_DIM > , CellLabel , CellLabelWriter< ELEMENT_DIM, SPACE_DIM > , CellLocationIndexWriter< ELEMENT_DIM, SPACE_DIM > , CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM > , CellMutationStatesWriter< ELEMENT_DIM, SPACE_DIM > , CellPopulationAdjacencyMatrixWriter< ELEMENT_DIM, SPACE_DIM > , CellPopulationAreaWriter< ELEMENT_DIM, SPACE_DIM > , CellPopulationElementWriter< ELEMENT_DIM, SPACE_DIM > , CellProliferativePhasesCountWriter< ELEMENT_DIM, SPACE_DIM > , CellProliferativePhasesWriter< ELEMENT_DIM, SPACE_DIM > , CellProliferativeTypesCountWriter< ELEMENT_DIM, SPACE_DIM > , CellProliferativeTypesWriter< ELEMENT_DIM, SPACE_DIM > , CellPropertyCollection , CellPropertyRegistry , CellRadiusWriter< ELEMENT_DIM, SPACE_DIM > , CellRosetteRankWriter< ELEMENT_DIM, SPACE_DIM > , CellVecData , CellVolumesWriter< ELEMENT_DIM, SPACE_DIM > , CellwiseSourcePde< DIM > , ChasteCuboid< SPACE_DIM > , ChasteEllipsoid< SPACE_DIM > , ChasteNodesList< SPACE_DIM > , ChastePoint< DIM > , ChemotacticForce< DIM > , ChemotaxisPottsUpdateRule< DIM > , CML_noble_varghese_kohl_noble_1998_basic_with_sac , ConstBoundaryCondition< SPACE_DIM > , ContactInhibitionCellCycleModel , CorriasBuistICCModified , CorriasBuistSMCModified , CryptProjectionForce , CryptSimulation1d , CryptSimulation2d , CryptSimulationBoundaryCondition< DIM > , CvodeAdaptor , Cylindrical2dMesh , Cylindrical2dNodesOnlyMesh , Cylindrical2dVertexMesh , DefaultCellProliferativeType , DeltaNotchOdeSystem , DeltaNotchSrnModel , DeltaNotchTrackingModifier< DIM > , DiagonalVertexBasedDivisionRule< SPACE_DIM > , DifferentialAdhesionGeneralisedLinearSpringForce< ELEMENT_DIM, SPACE_DIM > , DifferentialAdhesionPottsUpdateRule< DIM > , DifferentiatedCellProliferativeType , DiffusionCaUpdateRule< DIM > , DiffusionForce< DIM > , DistributedBoxCollection< DIM > , DistributedQuadraticMesh< DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , DistributedVectorFactory , DummyModifier , ElementAttributes< ELEMENT_DIM, SPACE_DIM > , EulerIvpOdeSolver , ExclusionCaBasedDivisionRule< SPACE_DIM > , ExponentiallyDistributedStochasticDurationGenerationBasedCellCycleModel , ExtendedBidomainTissue< SPACE_DIM > , FactorModifier , FakeBathCell , FarhadifarForce< DIM > , FarhadifarTypeModifier< DIM > , FixedDurationGenerationBasedCellCycleModel , FixedModifier , GammaDistributedStochasticDurationCellCycleModel , GeneralisedLinearSpringForce< ELEMENT_DIM, SPACE_DIM > , Goldbeter1991OdeSystem , Goldbeter1991SrnModel , GRL1IvpOdeSolver , GRL2IvpOdeSolver , HeterotypicBoundaryLengthWriter< ELEMENT_DIM, SPACE_DIM > , HeunIvpOdeSolver , IsolatedLabelledCellKiller< DIM > , LinearSpringWithVariableSpringConstantsForce< DIM > , LinearSystem , MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > , MeshBasedCellPopulationWithGhostNodes< DIM > , Mirams2010WntOdeSystem , MixedDimensionMesh< ELEMENT_DIM, SPACE_DIM > , MockEulerIvpOdeSolver , MonodomainProblem< ELEMENT_DIM, SPACE_DIM > , MonodomainTissue< ELEMENT_DIM, SPACE_DIM > , MultiStimulus , MutableElement< ELEMENT_DIM, SPACE_DIM > , MutableVertexMesh< ELEMENT_DIM, SPACE_DIM > , NagaiHondaDifferentialAdhesionForce< DIM > , NagaiHondaForce< DIM > , Node< SPACE_DIM > , NodeAttributes< SPACE_DIM > , NodeBasedCellPopulation< DIM > , NodeBasedCellPopulationWithBuskeUpdate< DIM > , NodeBasedCellPopulationWithParticles< DIM > , NodeLocationWriter< ELEMENT_DIM, SPACE_DIM > , NodesOnlyMesh< SPACE_DIM > , NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM > , NonCachedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , NullSrnModel , OffLatticeSimulation< ELEMENT_DIM, SPACE_DIM > , OnLatticeSimulation< DIM > , PdeAndBoundaryConditions< DIM > , PlaneBasedCellKiller< DIM > , PlaneBoundaryCondition< ELEMENT_DIM, SPACE_DIM > , PottsBasedCellPopulation< DIM > , PottsElement< DIM > , QuadraticMesh< DIM > , RadialSloughingCellKiller , RandomCaSwitchingUpdateRule< DIM > , RandomCellKiller< DIM > , RandomDirectionVertexBasedDivisionRule< SPACE_DIM > , RegularStimulus , RegularStimulusZeroNetCharge , RepulsionForce< DIM > , RungeKutta2IvpOdeSolver , RungeKutta4IvpOdeSolver , RungeKuttaFehlbergIvpOdeSolver , S1S2Stimulus , ShortAxisVertexBasedDivisionRule< SPACE_DIM > , SimpleOxygenBasedCellCycleModel , SimpleStimulus , SimpleTargetAreaModifier< DIM > , SimpleUniformSourcePde< DIM > , SimpleWntCellCycleModel , SimulationTime , SingleOdeWntCellCycleModel , SingleTraceOutputModifier , SloughingCellKiller< DIM > , SphereGeometryBoundaryCondition< DIM > , SteadyStateRestitutionStimulus , StemCellProliferativeType , StochasticDurationCellCycleModel , StochasticDurationGenerationBasedCellCycleModel , StochasticOxygenBasedCellCycleModel , StochasticWntCellCycleModel , SurfaceAreaConstraintPottsUpdateRule< DIM > , T2SwapCellKiller< DIM > , TargetedCellKiller< DIM > , TetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , TimeModifier , TimeStepper , Toroidal2dVertexMesh , TransitCellProliferativeType , TysonNovak2001OdeSystem , TysonNovakCellCycleModel , VanLeeuwen2009WntSwatCellCycleModelHypothesisOne , VanLeeuwen2009WntSwatCellCycleModelHypothesisTwo , VanLeeuwen2009WntSwatCellCycleOdeSystem , VertexBasedCellPopulation< SPACE_DIM > , VertexCryptBoundaryForce< DIM > , VertexElement< ELEMENT_DIM, SPACE_DIM > , VertexT1SwapLocationsWriter< ELEMENT_DIM, SPACE_DIM > , VertexT2SwapLocationsWriter< ELEMENT_DIM, SPACE_DIM > , VertexT3SwapLocationsWriter< ELEMENT_DIM, SPACE_DIM > , VolumeConstraintPottsUpdateRule< DIM > , VolumeDependentAveragedSourcePde< DIM > , VolumeTrackingModifier< DIM > , VoronoiDataWriter< ELEMENT_DIM, SPACE_DIM > , WelikyOsterForce< DIM > , WildTypeCellMutationState , WntCellCycleModel , WntCellCycleOdeSystem , WntConcentration< DIM > , ZeroStimulus
• Set() : LogFile , ProcessSpecificArchive< Archive >
• SetAbsoluteMovementThreshold() : AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetAbsoluteTemperature() : DiffusionForce< DIM >
• SetAbsoluteTolerance() : LinearSystem
• SetActiveTensionValue() : ConstantActiveTension
• SetAdditionalFieldNames() : CmguiMeshWriter< ELEMENT_DIM, SPACE_DIM >
• SetAdhesionEnergyParameter() : BuskeAdhesiveForce< DIM >
• SetAmFirstCell() : ExtendedBidomainTissue< SPACE_DIM >
• SetAmGap() : ExtendedBidomainTissue< SPACE_DIM >
• SetAmSecondCell() : ExtendedBidomainTissue< SPACE_DIM >
• SetAncestor() : Cell
• SetAnyVariable() : AbstractParameterisedSystem< VECTOR >
• SetApdMaps() : HeartConfig
• SetApexToBase() : StreeterFibreGenerator< SPACE_DIM >
• SetApoptosisTime() : Cell
• SetApoptoticSpringCompressionStiffness() : LinearSpringWithVariableSpringConstantsForce< DIM >
• SetApoptoticSprings() : LinearSpringWithVariableSpringConstantsForce< DIM >
• SetApoptoticSpringTensionStiffness() : LinearSpringWithVariableSpringConstantsForce< DIM >
• SetAppliedToPurkinjeCellModel() : PurkinjeVentricularJunctionStimulus
• SetApplyAnisotropicCrossFibreTension() : ElectroMechanicsProblemDefinition< DIM >
• SetApplyIsotropicCrossFibreTension() : ElectroMechanicsProblemDefinition< DIM >
• SetApplyNormalPressureOnDeformedSurface() : ContinuumMechanicsProblemDefinition< DIM >
• SetArchiveDirectory() : ArchiveLocationInfo , OutputFileHandler
• SetAreaBasedDampingConstant() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetAreaBasedDampingConstantParameter() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetAreaElasticityParameter() : FarhadifarForce< DIM >
• SetAsBoundaryNode() : Node< SPACE_DIM >
• SetAsContractionOnFirstDimension() : FourthOrderTensor< DIM1, DIM2, DIM3, DIM4 >
• SetAsContractionOnFourthDimension() : FourthOrderTensor< DIM1, DIM2, DIM3, DIM4 >
• SetAsContractionOnSecondDimension() : FourthOrderTensor< DIM1, DIM2, DIM3, DIM4 >
• SetAsContractionOnThirdDimension() : FourthOrderTensor< DIM1, DIM2, DIM3, DIM4 >
• SetAttribute() : AbstractElement< ELEMENT_DIM, SPACE_DIM >
• SetBathConductivity() : HeartConfig
• SetBathMultipleConductivities() : HeartConfig
• SetBetaCateninDivisionThreshold() : SingleOdeWntCellCycleModel
• SetBetaCateninSprings() : LinearSpringWithVariableSpringConstantsForce< DIM >
• SetBetaCatSpringScaler() : LinearSpringWithVariableSpringConstantsForce< DIM >
• SetBirthTime() : AbstractCellCycleModel , AbstractOdeBasedCellCycleModel , Cell
• SetBodyForce() : ContinuumMechanicsProblemDefinition< DIM >
• SetBottomCellAncestors() : CryptSimulation2d
• SetBoundaryConditionsContainer() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetBoundaryLineTensionParameter() : FarhadifarForce< DIM >
• SetCaBasedDivisionRule() : CaBasedCellPopulation< DIM >
• SetCacheReplication() : AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM >
• SetCalciumAndVoltage() : AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , AbstractCardiacMechanicsSolverInterface< DIM >
• SetCalculateNodeNeighbours() : DistributedBoxCollection< DIM > , NodesOnlyMesh< SPACE_DIM >
• SetCapacitance() : HeartConfig
• SetCarbonMonoxideScaleFactor() : CorriasBuistICCModified , CorriasBuistSMCModified
• SetCell() : AbstractCellCycleModel , AbstractSrnModel
• SetCellAncestorsToLocationIndices() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetCellBasedPdeHandler() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetCellBoundaryAdhesionEnergyParameter() : AdhesionPottsUpdateRule< DIM >
• SetCellCellAdhesionEnergyParameter() : AdhesionPottsUpdateRule< DIM >
• SetCellCycleModel() : Cell
• SetCellIntracellularStimulus() : HeartConfigRelatedCellFactory< SPACE_DIM >
• SetCellParameters() : HeartConfigRelatedCellFactory< SPACE_DIM >
• SetCellPopulation() : WntConcentration< DIM >
• SetCellProliferativeType() : Cell
• SetCellPropertyRegistry() : CellPropertyCollection
• SetCellRearrangementRatio() : MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >
• SetCellRearrangementThreshold() : MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >
• SetCellUsingLocationIndex() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetChangeOfBasisMatrix() : AbstractMaterialLaw< DIM >
• SetCheckForInternalIntersections() : MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >
• SetCheckNumberOfProcessesOnLoad() : DistributedVectorFactory
• SetCheckpointSimulation() : HeartConfig
• SetChunkSize() : Hdf5DataWriter
• SetCmFirstCell() : ExtendedBidomainTissue< SPACE_DIM >
• SetCmSecondCell() : ExtendedBidomainTissue< SPACE_DIM >
• SetCommentForInfoFile() : ColumnDataWriter
• SetCompatibleExtracellularStimulus() : AbstractStimulusFactory< ELEMENT_DIM, SPACE_DIM > , ElectrodesStimulusFactory< DIM >
• SetCompressionEnergyParameter() : BuskeCompressionForce< DIM >
• SetComputeAverageStressPerElementDuringSolve() : AbstractNonlinearElasticitySolver< DIM >
• SetConductionVelocityMaps() : HeartConfig
• SetConductivityHeterogeneities() : HeartConfig
• SetConductivityHeterogeneitiesEllipsoid() : HeartConfig
• SetConductivityModifier() : AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM >
• SetConstantConductivities() : AbstractConductivityTensors< ELEMENT_DIM, SPACE_DIM > , AxisymmetricConductivityTensors< ELEMENT_DIM, SPACE_DIM >
• SetConstantFibreSheetDirections() : AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , AbstractCardiacMechanicsSolverInterface< DIM >
• SetConstantWntValueForTesting() : WntConcentration< DIM >
• SetContractionCellFactory() : ElectroMechanicsProblemDefinition< DIM >
• SetContractionModel() : ElectroMechanicsProblemDefinition< DIM >
• SetContractionModelOdeTimestep() : ElectroMechanicsProblemDefinition< DIM >
• SetCoordinate() : ChastePoint< DIM >
• SetCriticalHypoxicDuration() : SimpleOxygenBasedCellCycleModel
• SetCryptLength() : WntConcentration< DIM >
• SetCryptProjectionParameterA() : WntConcentration< DIM >
• SetCryptProjectionParameterB() : WntConcentration< DIM >
• SetCurrentHypoxiaOnsetTime() : SimpleOxygenBasedCellCycleModel
• SetCurrentQuiescentDuration() : ContactInhibitionCellCycleModel
• SetCurrentQuiescentOnsetTime() : ContactInhibitionCellCycleModel
• SetCurrentSolution() : AbstractFeAssemblerCommon< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX, INTERPOLATION_LEVEL >
• SetCurrentTime() : AbstractNonlinearElasticitySolver< DIM >
• SetCutOffLength() : AbstractTwoBodyInteractionForce< ELEMENT_DIM, SPACE_DIM >
• SetDampingConstantMutant() : AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetDampingConstantNormal() : AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetDataOnAllCells() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetDefaultCellMutationStateAndProliferativeTypeOrdering() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetDefaultInitialCondition() : AbstractOdeSystemInformation , AbstractParameterisedSystem< VECTOR >
• SetDefaultInitialConditions() : AbstractOdeSystemInformation , AbstractParameterisedSystem< VECTOR >
• SetDefaultIonicModel() : HeartConfig
• SetDefaultSchemaLocations() : HeartConfig
• SetDefaultVisualizer() : XmlTransforms
• SetDeformationAffectsElectrophysiology() : ElectroMechanicsProblemDefinition< DIM >
• SetDeformationEnergyParameter() : BuskeElasticForce< DIM > , SurfaceAreaConstraintPottsUpdateRule< DIM > , VolumeConstraintPottsUpdateRule< DIM >
• SetDeleted() : NodeMap , VertexElementMap
• SetDensity() : ContinuumMechanicsProblemDefinition< DIM >
• SetDependentVariableName() : PdeAndBoundaryConditions< DIM >
• SetDiffusionCoefficient() : PseudoEcgCalculator< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetDiffusionParameter() : DiffusionCaUpdateRule< DIM >
• SetDimension() : AbstractCellCycleModel
• SetDistributedVectorFactory() : AbstractMesh< ELEMENT_DIM, SPACE_DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >
• SetDivideTime() : AbstractOdeBasedCellCycleModel
• SetDomain() : HeartConfig
• SetDrugDose() : HeartConfig
• SetDt() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM > , CellCycleModelOdeHandler
• SetDuration() : RegularStimulus
• SetEdgeBasedSpringConstant() : LinearSpringWithVariableSpringConstantsForce< DIM >
• SetElectrodeParameters() : HeartConfig
• SetElectrodes() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , BidomainProblem< DIM >
• SetElement() : PetscMatTools , PetscVecTools
• SetElementOwnerships() : AbstractMesh< ELEMENT_DIM, SPACE_DIM > , AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >
• SetEmptySites() : CaBasedCellPopulation< DIM >
• SetEndTime() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetEndTimeAndNumberOfTimeSteps() : SimulationTime
• SetEpsilonForNumericalJacobian() : BackwardEulerIvpOdeSolver
• SetEquilibriumVolume() : ContactInhibitionCellCycleModel
• SetExperimentalData() : AbstractCvodeCellWithDataClamp
• SetExtendedBidomainParameters() : ExtendedBidomainProblem< DIM >
• SetExtracellularConductivities() : HeartConfig
• SetExtracellularStimulusFactory() : ExtendedBidomainProblem< DIM >
• SetFakeIccStimulusPresent() : CorriasBuistSMCModified
• SetFibreLength() : HeartConfig
• SetFibreOrientationFile() : AbstractConductivityTensors< ELEMENT_DIM, SPACE_DIM >
• SetFileName() : AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >
• SetFineCoarseMeshPair() : AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , AbstractCardiacMechanicsSolverInterface< DIM >
• SetFinishedRunningOdes() : AbstractOdeBasedCellCycleModel , AbstractOdeSrnModel
• SetFirstAttribute() : ElementAttributes< ELEMENT_DIM, SPACE_DIM >
• SetFixedChunkSize() : Hdf5DataWriter
• SetFixedExtracellularPotentialNodes() : AbstractBidomainSolver< ELEMENT_DIM, SPACE_DIM > , AbstractExtendedBidomainSolver< ELEMENT_DIM, SPACE_DIM > , BidomainProblem< DIM > , ExtendedBidomainProblem< DIM >
• SetFixedNodes() : SolidMechanicsProblemDefinition< DIM >
• SetFixedSchemaLocations() : HeartConfig
• SetFixedVoltage() : AbstractCardiacCellInterface
• SetForceReset() : AbstractCvodeSystem , CvodeAdaptor
• SetFractionOfVDDRInPU() : CorriasBuistICCModified
• SetFromFactory() : DistributedVectorFactory
• SetG1Duration() : AbstractSimpleCellCycleModel , ExponentiallyDistributedStochasticDurationGenerationBasedCellCycleModel , GammaDistributedStochasticDurationCellCycleModel , SimpleWntCellCycleModel , StochasticDurationCellCycleModel , StochasticDurationGenerationBasedCellCycleModel
• SetG2Duration() : AbstractCellCycleModel
• SetG2PhaseStartTime() : AbstractOdeBasedCellCycleModel
• SetGeneration() : AbstractSimpleGenerationBasedCellCycleModel
• SetGGap() : ExtendedBidomainTissue< SPACE_DIM >
• SetGgapHeterogeneities() : ExtendedBidomainProblem< DIM > , ExtendedBidomainTissue< SPACE_DIM >
• SetGhostNodes() : MeshBasedCellPopulationWithGhostNodes< DIM >
• SetHasBath() : ExtendedBidomainProblem< DIM >
• SetHdf5DataReader() : PropagationPropertiesCalculator
• SetHeartGeometryInformation() : AbstractCardiacCellFactory< ELEMENT_DIM, SPACE_DIM >
• SetHeterotypicSpringConstantMultiplier() : DifferentialAdhesionGeneralisedLinearSpringForce< ELEMENT_DIM, SPACE_DIM >
• SetHomotypicLabelledSpringConstantMultiplier() : DifferentialAdhesionGeneralisedLinearSpringForce< ELEMENT_DIM, SPACE_DIM >
• SetHypoxicConcentration() : SimpleOxygenBasedCellCycleModel
• SetIc50Value() : HeartConfig
• SetIgnoreCommentLines() : FileComparison
• SetIgnoreLinesBeginningWith() : FileComparison
• SetImposeBcsOnCoarseBoundary() : CellBasedPdeHandler< DIM >
• SetIncludeActiveTension() : AbstractNonlinearElasticitySolver< DIM >
• SetIndex() : AbstractElement< ELEMENT_DIM, SPACE_DIM > , Node< SPACE_DIM >
• SetInitialBoxCollection() : NodesOnlyMesh< SPACE_DIM >
• SetInitialCondition() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetInitialConditions() : AbstractOdeSrnModel
• SetInitialConditionVector() : OdeLinearSystemSolver
• SetInitialConvergenceParameters() : AbstractConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM > , OdeConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM > , OdePdeConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM > , PdeConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM > , SpaceConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM >
• SetInputParameters() : AbstractContractionModel , ConstantActiveTension , FakeBathContractionModel , Kerchoffs2003ContractionModel , Nash2004ContractionModel , NhsContractionModel , NonPhysiologicalContractionModel
• SetIntracellularCalciumConcentration() : NhsContractionModel
• SetIntracellularConductivities() : HeartConfig
• SetIntracellularConductivitiesForSecondCell() : ExtendedBidomainProblem< DIM >
• SetIntracellularConductivitiesSecondCell() : ExtendedBidomainTissue< SPACE_DIM >
• SetIntracellularStimulusFunction() : AbstractCardiacCellInterface
• SetIonicModelRegions() : HeartConfig
• SetIP3Concentration() : CorriasBuistICCModified
• SetIsLabelled() : Alarcon2004OxygenBasedCellCycleOdeSystem
• SetIsParticle() : Node< SPACE_DIM > , NodeAttributes< SPACE_DIM >
• SetItem() : CellData , CellVecData
• SetIterateRandomlyOverUpdateRuleCollection() : AbstractOnLatticeCellPopulation< DIM >
• SetKspAbsoluteTolerance() : AbstractNonlinearElasticitySolver< DIM > , StokesFlowSolver< DIM >
• SetKSPPreconditioner() : HeartConfig
• SetKSPSolver() : HeartConfig
• SetKspSolverAndPcType() : AbstractNonlinearElasticitySolver< DIM >
• SetKspType() : LinearSystem
• SetLabelledCellBoundaryAdhesionEnergyParameter() : DifferentialAdhesionPottsUpdateRule< DIM >
• SetLabelledCellCellAdhesionEnergyParameter() : DifferentialAdhesionPottsUpdateRule< DIM >
• SetLabelledCellLabelledCellAdhesionEnergyParameter() : DifferentialAdhesionPottsUpdateRule< DIM >
• SetLastTime() : CellCycleModelOdeHandler
• SetLineTensionParameter() : FarhadifarForce< DIM >
• SetLoadBalanceFrequency() : NodeBasedCellPopulation< DIM >
• SetLoadBalanceMesh() : NodeBasedCellPopulation< DIM >
• SetLoader() : AbstractDynamicallyLoadableEntity
• SetLogged() : Cell
• SetLogInfo() : StreeterFibreGenerator< SPACE_DIM >
• SetMagnitude() : RegularStimulus
• SetMainDatasetRawChunkCache() : AbstractHdf5Access
• SetMaterialLaw() : SolidMechanicsProblemDefinition< DIM >
• SetMatrixElement() : LinearSystem
• SetMatrixIsConstant() : LinearSystem
• SetMatrixIsNotAssembled() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetMatrixIsSymmetric() : LinearSystem
• SetMatrixRow() : LinearSystem
• SetMatrixToAssemble() : AbstractFeAssemblerInterface< CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX >
• SetMatureCellTargetSurfaceArea() : SurfaceAreaConstraintPottsUpdateRule< DIM >
• SetMatureCellTargetVolume() : VolumeConstraintPottsUpdateRule< DIM >
• SetMaximumInteractionDistance() : NodesOnlyMesh< SPACE_DIM >
• SetMaxNumPaces() : AbstractSteadyStateRunner
• SetMaxSteps() : AbstractCellCycleModelOdeSolver , AbstractCvodeSystem , CvodeAdaptor
• SetMaxTimestep() : AbstractCvodeCell
• SetMaxTransitGenerations() : AbstractSimpleGenerationBasedCellCycleModel
• SetMaxUpstrokeVelocityMaps() : HeartConfig
• SetMDuration() : AbstractCellCycleModel
• SetMechanicsMesh() : AbstractContractionCellFactory< DIM >
• SetMechanicsSolveTimestep() : ElectroMechanicsProblemDefinition< DIM >
• SetMeinekeDivisionRestingSpringLength() : GeneralisedLinearSpringForce< ELEMENT_DIM, SPACE_DIM >
• SetMeinekeDivisionSeparation() : AbstractCentreBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetMeinekeSpringGrowthDuration() : GeneralisedLinearSpringForce< ELEMENT_DIM, SPACE_DIM >
• SetMeinekeSpringStiffness() : GeneralisedLinearSpringForce< ELEMENT_DIM, SPACE_DIM >
• SetMesh() : AbstractCardiacCellFactory< ELEMENT_DIM, SPACE_DIM > , AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , AbstractPurkinjeCellFactory< ELEMENT_DIM, SPACE_DIM > , AbstractStimulusFactory< ELEMENT_DIM, SPACE_DIM >
• SetMeshFilename() : ArchiveLocationInfo
• SetMeshFileName() : HeartConfig
• SetMeshHasChangedSinceLoading() : AbstractMesh< ELEMENT_DIM, SPACE_DIM >
• SetMeshPartitioning() : HeartConfig
• SetMeshPathname() : ArchiveLocationInfo
• SetMeshWidth() : AbstractConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM >
• SetMessage() : Exception
• SetMinimalReset() : AbstractCvodeSystem , CvodeAdaptor
• SetMinimumGapDuration() : AbstractCellCycleModel
• SetMinimumNodeDomainBoundarySeparation() : NodesOnlyMesh< SPACE_DIM >
• SetModifier() : AbstractCardiacCellWithModifiers< CARDIAC_CELL >
• SetMutantSprings() : LinearSpringWithVariableSpringConstantsForce< DIM >
• SetMutationState() : Cell , Mirams2010WntOdeSystem , VanLeeuwen2009WntSwatCellCycleOdeSystem , WntCellCycleOdeSystem
• SetNagaiHondaCellBoundaryAdhesionEnergyParameter() : NagaiHondaForce< DIM >
• SetNagaiHondaCellCellAdhesionEnergyParameter() : NagaiHondaForce< DIM >
• SetNagaiHondaDeformationEnergyParameter() : NagaiHondaForce< DIM >
• SetNagaiHondaLabelledCellBoundaryAdhesionEnergyParameter() : NagaiHondaDifferentialAdhesionForce< DIM >
• SetNagaiHondaLabelledCellCellAdhesionEnergyParameter() : NagaiHondaDifferentialAdhesionForce< DIM >
• SetNagaiHondaLabelledCellLabelledCellAdhesionEnergyParameter() : NagaiHondaDifferentialAdhesionForce< DIM >
• SetNagaiHondaMembraneSurfaceEnergyParameter() : NagaiHondaForce< DIM >
• SetNamespace() : XmlTools
• SetNewIndex() : NodeMap , VertexElementMap
• SetNoBirth() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetNode() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > , AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > , AbstractOnLatticeCellPopulation< DIM > , Cylindrical2dMesh , Cylindrical2dNodesOnlyMesh , Cylindrical2dVertexMesh , MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > , MutableMesh< ELEMENT_DIM, SPACE_DIM > , MutableVertexMesh< ELEMENT_DIM, SPACE_DIM > , NodeBasedCellPopulation< DIM > , NodesOnlyMesh< SPACE_DIM > , Toroidal2dVertexMesh , VertexBasedCellPopulation< SPACE_DIM >
• SetNodeForAverageOfPhiZeroed() : BidomainProblem< DIM > , ExtendedBidomainProblem< DIM >
• SetNodePermutation() : TrianglesMeshReader< ELEMENT_DIM, SPACE_DIM >
• SetNodesPerProcessorFilename() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetNoElectricsOutput() : CardiacElectroMechanicsProblem< DIM, ELEC_PROB_DIM >
• SetNonConstantConductivities() : AbstractConductivityTensors< ELEMENT_DIM, SPACE_DIM >
• SetNonlinearSolver() : AbstractNonlinearAssemblerSolverHybrid< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetNullBasis() : LinearSystem
• SetNumberOfTimeSteps() : OdeSolution
• SetNumIncrementsForInitialDeformation() : ElectroMechanicsProblemDefinition< DIM >
• SetNumSweepsPerTimestep() : PottsBasedCellPopulation< DIM >
• SetOdePdeAndPrintingTimeSteps() : HeartConfig
• SetOdeSystem() : CellCycleModelOdeHandler
• SetOdeSystemInformation() : OdeSolution
• SetOdeTimeStep() : HeartConfig
• SetOption() : PetscMatTools
• SetOriginalFactory() : DistributedVectorFactory
• SetOutputCellRearrangementLocations() : VertexBasedCellPopulation< SPACE_DIM >
• SetOutputCellVelocities() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputDeformationGradientsAndStress() : CardiacElectroMechanicsProblem< DIM, ELEC_PROB_DIM >
• SetOutputDirectory() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM > , ExecutableSupport , HeartConfig , LinearParabolicPdeSystemWithCoupledOdeSystemSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetOutputDirectoryAndPrefix() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetOutputDivisionLocations() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputFilenamePrefix() : HeartConfig
• SetOutputMeshInVtk() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputNodes() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetOutputResultsForChasteVisualizer() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputToParallelVtk() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetOutputToTxt() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetOutputToVtk() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetOutputUsingOriginalNodeOrdering() : HeartConfig
• SetOutputVariables() : HeartConfig
• SetOwnership() : AbstractElement< ELEMENT_DIM, SPACE_DIM >
• SetParallelFiles() : VtkMeshWriter< ELEMENT_DIM, SPACE_DIM >
• SetParameter() : AbstractCardiacCell , AbstractCardiacCellInterface , AbstractCvodeCell , AbstractParameterisedSystem< VECTOR >
• SetParameters() : PoleZeroMaterialLaw< DIM >
• SetParametersFile() : HeartConfig
• SetParticles() : NodeBasedCellPopulationWithParticles< DIM >
• SetPath() : FileFinder
• SetPcType() : LinearSystem
• SetPdeSolution() : AbstractOdeSystemForCoupledPdeSystem
• SetPdeTimeStep() : HeartConfig
• SetPdeTimeStepAndNextTime() : PdeSimulationTime
• SetPerimeterContractilityParameter() : FarhadifarForce< DIM >
• SetPeriod() : RegularStimulus
• SetPoint() : Node< SPACE_DIM >
• SetPrecision() : LogFile
• SetPrecondMatrixIsDifferentFromLhs() : LinearSystem
• SetPrescribedFlowNodes() : StokesFlowProblemDefinition< DIM >
• SetPressureScaling() : ContinuumMechanicsProblemDefinition< DIM >
• SetPrintingTimeStep() : HeartConfig
• SetPrintingTimestepMultiple() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetProcessRegion() : DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >
• SetProteinConcentrationsForTestsOnly() : AbstractOdeBasedCellCycleModel
• SetProtorosetteFormationProbability() : MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >
• SetProtorosetteResolutionProbabilityPerTimestep() : MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >
• SetPseudoEcgElectrodePositions() : HeartConfig
• SetPurkinjeCapacitance() : HeartConfig
• SetPurkinjeCellModel() : PurkinjeVentricularJunctionStimulus
• SetPurkinjeConductivity() : HeartConfig
• SetPurkinjeSurfaceAreaToVolumeRatio() : HeartConfig
• SetQuiescentConcentration() : SimpleOxygenBasedCellCycleModel
• SetQuiescentVolumeFraction() : ContactInhibitionCellCycleModel
• SetRadius() : Node< SPACE_DIM > , NodeAttributes< SPACE_DIM >
• SetRate() : ExponentiallyDistributedStochasticDurationGenerationBasedCellCycleModel
• SetReadBufferSize() : TrianglesMeshReader< ELEMENT_DIM, SPACE_DIM >
• SetReferenceTargetArea() : AbstractTargetAreaModifier< DIM >
• SetRegion() : Node< SPACE_DIM > , NodeAttributes< SPACE_DIM >
• SetRegionNames() : CmguiMeshWriter< ELEMENT_DIM, SPACE_DIM >
• SetRelativeTolerance() : LinearSystem
• SetRequestedNodalTimeTraces() : HeartConfig
• SetRestLength() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetRhsVectorElement() : LinearSystem
• SetRosetteResolutionProbabilityPerTimestep() : MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >
• SetRow() : PetscMatTools
• SetRowForAverageOfPhiZeroed() : AbstractBidomainSolver< ELEMENT_DIM, SPACE_DIM > , AbstractExtendedBidomainSolver< ELEMENT_DIM, SPACE_DIM >
• SetS2ExperimentPeriodIndex() : S1S2Stimulus
• SetSamplingTimeStep() : LinearParabolicPdeSystemWithCoupledOdeSystemSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetSamplingTimestepMultiple() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetScale() : GammaDistributedStochasticDurationCellCycleModel
• SetScaleFactor() : NaturalNeumannSurfaceTermAssembler< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetSDuration() : AbstractCellCycleModel
• SetSercaPumpScaleFactor() : CorriasBuistICCModified
• SetShape() : GammaDistributedStochasticDurationCellCycleModel
• SetSheetDimensions() : HeartConfig
• SetSimulatedToTime() : AbstractSrnModel
• SetSimulationDuration() : HeartConfig
• SetSizeOfOdeSystem() : AbstractCellCycleModelOdeSolver
• SetSlabDimensions() : HeartConfig
• SetSlowValues() : AbstractCardiacCell
• SetSolution() : PdeAndBoundaryConditions< DIM >
• SetSolver() : AbstractCardiacCellInterface
• SetSolverName() : OdeSolution
• SetSolverType() : ElectroMechanicsProblemDefinition< DIM >
• SetSolveUsingSnes() : SolidMechanicsProblemDefinition< DIM >
• SetSpaceDimension() : HeartConfig
• SetSrnModel() : Cell
• SetStartTime() : RegularStimulus , SimpleStimulus , SimulationTime
• SetState() : AbstractCardiacCell
• SetStateVariable() : AbstractCardiacCell , AbstractCardiacCellInterface , AbstractCvodeCell , AbstractParameterisedSystem< VECTOR >
• SetStateVariables() : AbstractCardiacCell , AbstractCardiacCellInterface , AbstractCvodeCell , AbstractParameterisedSystem< VECTOR > , CellCycleModelOdeHandler
• SetStemCellG1Duration() : AbstractCellCycleModel , ExponentiallyDistributedStochasticDurationGenerationBasedCellCycleModel
• SetStimulusFunction() : AbstractCardiacCellInterface
• SetStopTime() : RegularStimulus
• SetStretch() : AbstractCardiacCellInterface , AbstractContractionModel , CML_noble_varghese_kohl_noble_1998_basic_with_sac
• SetStretchAndStretchRate() : AbstractContractionModel , ConstantActiveTension , FakeBathContractionModel , Kerchoffs2003ContractionModel , Nash2004ContractionModel , NhsContractionModel , NonPhysiologicalContractionModel
• SetSurfaceAreaToVolumeRatio() : HeartConfig
• SetSurfaceFiles() : StreeterFibreGenerator< SPACE_DIM >
• SetSwitchingParameter() : RandomCaSwitchingUpdateRule< DIM >
• SetT2Threshold() : MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >
• SetTableProperties() : AbstractLookupTableCollection
• SetTakeFullFirstNewtonStep() : AbstractNonlinearElasticitySolver< DIM >
• SetTemperature() : PottsBasedCellPopulation< DIM >
• SetTime() : PdeSimulationTime
• SetTimeAdaptivityController() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetTimes() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetTimestep() : AbstractCardiacCell , AbstractCardiacCellInterface , AbstractCvodeCell
• SetTimeStep() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetTimestep() : AbstractLookupTableCollection
• SetTissueAndBathIdentifiers() : HeartConfig
• SetTolerance() : SimpleNewtonNonlinearSolver
• SetTolerances() : AbstractCellCycleModelOdeSolver , AbstractCvodeSystem , CvodeAdaptor
• SetTractionBoundaryConditions() : ContinuumMechanicsProblemDefinition< DIM >
• SetTransitCellG1Duration() : AbstractCellCycleModel , ExponentiallyDistributedStochasticDurationGenerationBasedCellCycleModel
• SetType() : WntConcentration< DIM >
• SetUnlimitedDatasetId() : AbstractHdf5Access
• setUp() : AbstractCellBasedTestSuite , AbstractCellBasedWithTimingsTestSuite
• Setup() : AbstractFileComparison
• SetUpAdditionalStoppingTimes() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , BidomainProblem< DIM >
• SetupAllLocalBoxes() : BoxCollection< DIM > , DistributedBoxCollection< DIM >
• SetUpBoxCollection() : Cylindrical2dNodesOnlyMesh , NodesOnlyMesh< SPACE_DIM >
• SetUpBoxes() : FineCoarseMeshPair< DIM >
• SetUpBoxesOnCoarseMesh() : FineCoarseMeshPair< DIM >
• SetUpBoxesOnFineMesh() : FineCoarseMeshPair< DIM >
• SetupChangeOfBasisMatrix() : AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , AbstractNonlinearElasticitySolver< DIM >
• SetupCommentLines() : FileComparison
• SetupCvode() : AbstractCvodeSystem , CvodeAdaptor
• SetUpdateCellPopulationRule() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetUpdateNodesInRandomOrder() : AbstractOnLatticeCellPopulation< DIM >
• SetupGivenLinearSystem() : AbstractAssemblerSolverHybrid< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM, INTERPOLATION_LEVEL >
• SetupGradients() : CellwiseDataGradient< DIM >
• SetupHaloBoxes() : DistributedBoxCollection< DIM >
• SetUpHaloCells() : AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM >
• SetupInterleavedVectorScatterGather() : PetscVecTools
• SetupLinearSystem() : AbstractLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , BidomainSolver< ELEMENT_DIM, SPACE_DIM > , ExtendedBidomainSolver< ELEM_DIM, SPACE_DIM > , LinearParabolicPdeSystemWithCoupledOdeSystemSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , MonodomainSolver< ELEMENT_DIM, SPACE_DIM > , OperatorSplittingMonodomainSolver< ELEMENT_DIM, SPACE_DIM > , SimpleLinearEllipticSolver< ELEMENT_DIM, SPACE_DIM > , SimpleLinearParabolicSolver< ELEMENT_DIM, SPACE_DIM >
• SetupLocalBoxes() : BoxCollection< DIM >
• SetupLocalBoxesHalfOnly() : BoxCollection< DIM > , DistributedBoxCollection< DIM >
• SetupMat() : PetscTools
• SetupSolve() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM > , AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM > , AbstractTargetAreaModifier< DIM > , CryptSimulation2d , DeltaNotchTrackingModifier< DIM > , OffLatticeSimulation< ELEMENT_DIM, SPACE_DIM > , VolumeTrackingModifier< DIM >
• SetupSourceTerms() : AveragedSourcePde< DIM > , VolumeDependentAveragedSourcePde< DIM >
• SetUpSourceTermsForAveragedSourcePde() : PdeAndBoundaryConditions< DIM >
• SetUpstrokeTimeMaps() : HeartConfig
• setUpWorld() : PetscSetup
• SetUseAbsoluteTolerance() : HeartConfig
• SetUseCellProliferativeTypeDependentG1Duration() : SimpleWntCellCycleModel
• SetUseDefaultCardiacMaterialLaw() : ElectroMechanicsProblemDefinition< DIM >
• SetUsedInTissueSimulation() : AbstractCardiacCellInterface
• SetUseFixedNumberIterations() : LinearSystem
• SetUseFixedNumberIterationsLinearSolver() : HeartConfig
• SetUseFixedSchemaLocation() : HeartConfig
• SetUseJiggledBottomCells() : CryptSimulationBoundaryCondition< DIM >
• SetUseJiggledNodesOnPlane() : PlaneBoundaryCondition< ELEMENT_DIM, SPACE_DIM >
• SetUseMassLumping() : HeartConfig
• SetUseMassLumpingForPrecond() : HeartConfig
• SetUsePetscDirectSolve() : AbstractNonlinearElasticitySolver< DIM >
• SetUseReactionDiffusionOperatorSplitting() : HeartConfig
• SetUseRelativeTolerance() : HeartConfig
• SetUserSuppliedExtracellularStimulus() : ExtendedBidomainTissue< SPACE_DIM >
• SetUseStateVariableInterpolation() : HeartConfig
• SetUseTimeAdaptivityController() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetUseVariableRadii() : NodeBasedCellPopulation< DIM >
• SetVariableFibreSheetDirections() : AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , AbstractCardiacMechanicsSolverInterface< DIM >
• SetVariableFibreSheetDirectionsFile() : ElectroMechanicsProblemDefinition< DIM >
• SetVectorToAssemble() : AbstractFeAssemblerInterface< CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX >
• SetVentricularCellModel() : PurkinjeVentricularJunctionStimulus
• SetVerboseDuringSolve() : ContinuumMechanicsProblemDefinition< DIM >
• SetVertexBasedDivisionRule() : VertexBasedCellPopulation< SPACE_DIM >
• SetViscosity() : DiffusionForce< DIM > , StokesFlowProblemDefinition< DIM >
• SetVisualizerOutputPrecision() : HeartConfig
• SetVisualizeWithCmgui() : HeartConfig
• SetVisualizeWithMeshalyzer() : HeartConfig
• SetVisualizeWithParallelVtk() : HeartConfig
• SetVisualizeWithVtk() : HeartConfig
• SetVoltage() : AbstractCardiacCell , AbstractCardiacCellInterface , AbstractCvodeCell
• SetVoltageDerivativeToZero() : AbstractCardiacCellInterface , AbstractCvodeCell
• SetVtkCellDataName() : AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >
• SetWatchedPosition() : CardiacElectroMechanicsProblem< DIM, ELEC_PROB_DIM >
• SetWelikyOsterAreaParameter() : WelikyOsterForce< DIM >
• SetWelikyOsterPerimeterParameter() : WelikyOsterForce< DIM >
• SetWntChemotaxis() : CryptProjectionForce
• SetWntChemotaxisStrength() : CryptProjectionForce
• SetWntConcentrationParameter() : WntConcentration< DIM >
• SetWntLabelledThreshold() : SimpleWntCellCycleModel
• SetWntStemThreshold() : SimpleWntCellCycleModel
• SetWntTransitThreshold() : SimpleWntCellCycleModel
• SetWriteAverageRadialPdeSolution() : CellBasedPdeHandler< DIM >
• SetWriteElementWiseStrains() : VtkNonlinearElasticitySolutionWriter< DIM >
• SetWriteFileAsBinary() : AbstractPerElementWriter< ELEMENT_DIM, SPACE_DIM, DATA_SIZE > , FibreWriter< DIM >
• SetWriteFilesAsBinary() : TrianglesMeshWriter< ELEMENT_DIM, SPACE_DIM >
• SetWriteInfo() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetWriteOutput() : AbstractContinuumMechanicsSolver< DIM >
• SetWriteOutputEachNewtonIteration() : AbstractNonlinearElasticitySolver< DIM >
• SetWriteStats() : SimpleNewtonNonlinearSolver
• SetWriteVtkAsPoints() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetZeroDirichletNodes() : ContinuumMechanicsProblemDefinition< DIM >
• SetZeroDisplacementNodes() : SolidMechanicsProblemDefinition< DIM >
• SetZeroFlowNodes() : StokesFlowProblemDefinition< DIM >
• ShortAxisVertexBasedDivisionRule() : ShortAxisVertexBasedDivisionRule< SPACE_DIM >
• ShouldAssembleMatrixTermForPressureOnDeformedBc() : AbstractNonlinearElasticitySolver< DIM >
• ShouldSkipThisElement() : AbstractFunctionalCalculator< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , PseudoEcgCalculator< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• ShowCopyright() : ExecutableSupport
• ShowParallelLaunching() : ExecutableSupport
• Shuffle() : RandomNumberGenerator
• SIG_FILE_NAME : OutputFileHandler
• sigma() : boost::random::normal_distribution_v156< RealType >::param_type , boost::random::normal_distribution_v156< RealType >
• SimpleDataWriter() : SimpleDataWriter
• SimpleLinearEllipticSolver() : SimpleLinearEllipticSolver< ELEMENT_DIM, SPACE_DIM >
• SimpleLinearParabolicSolver() : SimpleLinearParabolicSolver< ELEMENT_DIM, SPACE_DIM >
• SimpleNewtonNonlinearSolver() : SimpleNewtonNonlinearSolver
• SimpleNonlinearEllipticSolver() : SimpleNonlinearEllipticSolver< ELEMENT_DIM, SPACE_DIM >
• SimpleOxygenBasedCellCycleModel() : SimpleOxygenBasedCellCycleModel
• SimpleStimulus() : SimpleStimulus
• SimpleTargetAreaModifier() : SimpleTargetAreaModifier< DIM >
• SimpleUniformSourcePde() : SimpleUniformSourcePde< DIM >
• SimpleWntCellCycleModel() : SimpleWntCellCycleModel
• SimulateFullActionPotential : AbstractUntemplatedConvergenceTester
• SimulateToCurrentTime() : AbstractOdeSrnModel , AbstractSrnModel , DeltaNotchSrnModel , Goldbeter1991SrnModel , NullSrnModel
• SimulationTime() : SimulationTime
• SingleDistance() : DistanceMapCalculator< ELEMENT_DIM, SPACE_DIM >
• SingleOdeWntCellCycleModel() : SingleOdeWntCellCycleModel
• SingleTraceOutputModifier() : SingleTraceOutputModifier
• Size() : QuadraturePointsGroup< DIM > , VertexElementMap
• SkipHeaderLines() : AbstractFileComparison
• SloughingCellKiller() : SloughingCellKiller< DIM >
• SmoothStructureTensors() : PapillaryFibreCalculator
• SolidMechanicsProblemDefinition() : SolidMechanicsProblemDefinition< DIM >
• Solve() : AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , AbstractCardiacMechanicsSolverInterface< DIM > , AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM > , AbstractCvodeSystem , AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , AbstractIvpOdeSolver , AbstractNonlinearAssemblerSolverHybrid< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , AbstractNonlinearElasticitySolver< DIM > , AbstractNonlinearSolver , AbstractOneStepIvpOdeSolver , AbstractStaticLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , CardiacElectroMechanicsProblem< DIM, ELEC_PROB_DIM > , CardiacNewtonSolver< SIZE, CELLTYPE > , CvodeAdaptor , ExplicitCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , ImplicitCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , LinearSystem , RungeKuttaFehlbergIvpOdeSolver , SimpleNewtonNonlinearSolver , SimplePetscNonlinearSolver , StokesFlowSolver< DIM >
• SolveAndUpdateState() : AbstractBackwardEulerCardiacCell< SIZE > , AbstractBackwardEulerCardiacCell< 0u > , AbstractCardiacCell , AbstractCardiacCellInterface , AbstractCvodeCell , AbstractGeneralizedRushLarsenCardiacCell , AbstractRushLarsenCardiacCell
• SolveAndUpdateStateVariable() : AbstractCellCycleModelOdeSolver , AbstractIvpOdeSolver
• SolveAndWriteResultsToFile() : LinearParabolicPdeSystemWithCoupledOdeSystemSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SolveBoundaryElementMapping() : AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , PottsMesh< DIM > , TetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , VertexMesh< ELEMENT_DIM, SPACE_DIM >
• SolveCellSystems() : AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM > , ExtendedBidomainTissue< SPACE_DIM >
• SolveElementMapping() : AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , PottsMesh< DIM > , TetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , VertexMesh< ELEMENT_DIM, SPACE_DIM >
• SolveLinearSystem() : BackwardEulerIvpOdeSolver , CardiacNewtonSolver< SIZE, CELLTYPE >
• SolveNodeMapping() : AbstractMesh< ELEMENT_DIM, SPACE_DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , NodesOnlyMesh< SPACE_DIM > , PottsMesh< DIM > , TetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , VertexMesh< ELEMENT_DIM, SPACE_DIM >
• SolveNonSnes() : AbstractNonlinearElasticitySolver< DIM >
• SolveOdeToTime() : CellCycleModelOdeHandler
• SolveOneTimeStep() : OdeLinearSystemSolver
• SolvePdeAndWriteResultsToFile() : CellBasedPdeHandler< DIM >
• SolveSnes() : AbstractNonlinearElasticitySolver< DIM >
• SPACING : ColumnDataWriter
• SPATIAL_BLOCK_SIZE_ELEMENTAL : AbstractContinuumMechanicsAssembler< DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX > , ContinuumMechanicsNeumannBcsAssembler< DIM > , StokesFlowAssembler< DIM >
• SpecifyOrdering() : CellPropertyRegistry
• SphereGeometryBoundaryCondition() : SphereGeometryBoundaryCondition< DIM >
• SplitEdge() : MutableMesh< ELEMENT_DIM, SPACE_DIM >
• SplitLongEdges() : MutableMesh< ELEMENT_DIM, SPACE_DIM >
• SpringIterator() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::SpringIterator
• SpringsBegin() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SpringsEnd() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• StandardNormalRandomDeviate() : RandomNumberGenerator
• StandardStartup() : ExecutableSupport
• StartApoptosis() : Cell
• SteadyStateRestitutionStimulus() : SteadyStateRestitutionStimulus
• SteadyStateRunner() : SteadyStateRunner
• StemCellProliferativeType() : StemCellProliferativeType
• STENCIL_SIZE : AbstractContinuumMechanicsAssembler< DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX > , CompressibleNonlinearElasticitySolver< DIM > , ContinuumMechanicsNeumannBcsAssembler< DIM > , IncompressibleNonlinearElasticitySolver< DIM >
• StiffnessMatrixAssembler() : StiffnessMatrixAssembler< ELEMENT_DIM, SPACE_DIM >
• Stimulus : AbstractUntemplatedConvergenceTester
• StimulusBoundaryCondition() : StimulusBoundaryCondition< SPACE_DIM >
• StochasticDurationCellCycleModel() : StochasticDurationCellCycleModel
• StochasticDurationGenerationBasedCellCycleModel() : StochasticDurationGenerationBasedCellCycleModel
• StochasticOxygenBasedCellCycleModel() : StochasticOxygenBasedCellCycleModel
• StochasticWntCellCycleModel() : StochasticWntCellCycleModel
• StokesFlowAssembler() : StokesFlowAssembler< DIM >
• StokesFlowPreconditionerAssembler() : StokesFlowPreconditionerAssembler< DIM >
• StokesFlowProblemDefinition() : StokesFlowProblemDefinition< DIM >
• StokesFlowSolver() : StokesFlowSolver< DIM >
• StopFaking() : FileFinder
• StoppingEventHasOccurred() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• StoppingEventOccurred() : AbstractCellCycleModelOdeSolver , AbstractIvpOdeSolver
• StreeterFibreGenerator() : StreeterFibreGenerator< SPACE_DIM >
• StressPerElementWriter() : StressPerElementWriter< DIM >
• Stretch : DataAtQuadraturePoint_
• StretchLastTimeStep : DataAtQuadraturePoint_
• Stripe() : DistributedVector::Stripe
• subsystemInformation : CombinedOdeSystemInformation::InstancePointers
• SurfaceAreaConstraintPottsUpdateRule() : SurfaceAreaConstraintPottsUpdateRule< DIM >
• SurfaceBasisFunction : AbstractFeSurfaceIntegralAssembler< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SwitchOff() : Electrodes< DIM >
• SwitchOn() : Electrodes< DIM >
• SwitchWriteMode() : PetscMatTools
• SwitchWriteModeLhsMatrix() : LinearSystem