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

- s -

• S1S2Stimulus() : S1S2Stimulus
• Save() : CellBasedSimulationArchiver< DIM, SIM >
• save() : Electrodes< DIM > , AbstractCvodeSystem , AbstractOdeSystem , ExtendedBidomainProblem< DIM > , BoundaryConditionsContainer< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , PottsMesh< DIM > , AbstractDynamicallyLoadableEntity , HeartConfig , SemMesh< DIM > , AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM >
• Save() : CardiacSimulationArchiver< PROBLEM_CLASS >
• save() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , SerializableSingleton< SINGLETON_CLASS > , RandomNumberGenerator , BidomainProblem< DIM > , AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , 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() : PetscVecTools , AbstractMesh< ELEMENT_DIM, SPACE_DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >
• ScaleMaterialParameters() : PoleZeroMaterialLaw< DIM > , AbstractMaterialLaw< DIM > , CompressibleMooneyRivlinMaterialLaw< DIM > , MooneyRivlinMaterialLaw< DIM >
• ScheduleForDeletion() : DynamicModelLoaderRegistry
• SchemaLocationsMap : HeartConfig
• SchmidCostaExponentialLaw2d() : SchmidCostaExponentialLaw2d
• SemElementIterator() : SemMesh< DIM >::SemElementIterator
• SemMesh() : SemMesh< DIM >
• SemMeshGenerator() : SemMeshGenerator< DIM >
• SemMeshReader() : SemMeshReader< SPACE_DIM >
• SemMeshWriter() : SemMeshWriter< SPACE_DIM >
• SendObject() : ObjectCommunicator
• SENList : AdaptiveTetrahedralMesh
• serialize() : BidomainTissue< SPACE_DIM > , SimpleOxygenBasedCellCycleModel , StochasticDurationCellCycleModel , ExtendedBidomainTissue< SPACE_DIM > , StochasticDurationGenerationBasedCellCycleModel , StochasticOxygenBasedCellCycleModel , MonodomainTissue< ELEMENT_DIM, SPACE_DIM > , TysonNovakCellCycleModel , AbstractCellMutationState , DistributedVectorFactory , ApcOneHitCellMutationState , ApcTwoHitCellMutationState , TimeStepper , BetaCateninOneHitCellMutationState , WildTypeCellMutationState , LinearSystem , AbstractCellProliferativeType , AbstractCellProperty , AbstractChasteRegion< SPACE_DIM > , ApoptoticCellProperty , CellAncestor , AbstractMesh< ELEMENT_DIM, SPACE_DIM > , CellData , CellId , ChastePoint< DIM > , CellLabel , CellPropertyCollection , DistributedQuadraticMesh< DIM > , CellPropertyRegistry , DifferentiatedCellProliferativeType , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , StemCellProliferativeType , TransitCellProliferativeType , MixedDimensionMesh< ELEMENT_DIM, SPACE_DIM > , AbstractCellKiller< SPACE_DIM > , ApoptoticCellKiller< SPACE_DIM > , MutableElement< ELEMENT_DIM, SPACE_DIM > , PlaneBasedCellKiller< DIM > , RandomCellKiller< DIM > , MutableMesh< ELEMENT_DIM, SPACE_DIM > , TargetedCellKiller< DIM > , AbstractForce< ELEMENT_DIM, SPACE_DIM > , Node< SPACE_DIM > , AbstractTwoBodyInteractionForce< ELEMENT_DIM, SPACE_DIM > , BuskeAdhesiveForce< DIM > , NonCachedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , BuskeCompressionForce< DIM > , BuskeElasticForce< DIM > , QuadraticMesh< DIM > , ChemotacticForce< DIM > , DiffusionForce< DIM > , TetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , GeneralisedLinearSpringForce< ELEMENT_DIM, SPACE_DIM > , NagaiHondaDifferentialAdhesionForce< DIM > , ChasteCuboid< SPACE_DIM > , NagaiHondaForce< DIM > , RepulsionForce< DIM > , ChasteEllipsoid< SPACE_DIM > , WelikyOsterForce< DIM > , MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > , ChasteNodesList< SPACE_DIM > , MeshBasedCellPopulationWithGhostNodes< DIM > , MultipleCaBasedCellPopulation< DIM > , MutableVertexMesh< ELEMENT_DIM, SPACE_DIM > , NodeBasedCellPopulation< DIM > , NodeBasedCellPopulationWithBuskeUpdate< DIM > , VertexElement< ELEMENT_DIM, SPACE_DIM > , NodeBasedCellPopulationWithParticles< DIM > , AveragedSourcePde< DIM > , AbstractIvpOdeSolver , CellBasedPdeHandler< DIM > , CellwiseSourcePde< DIM > , AbstractOneStepIvpOdeSolver , PdeAndBoundaryConditions< DIM > , SimpleUniformSourcePde< DIM > , BackwardEulerIvpOdeSolver , VolumeDependentAveragedSourcePde< DIM > , PottsBasedCellPopulation< DIM > , AbstractBackwardEulerCardiacCell< SIZE > , CvodeAdaptor , AbstractMultipleCaUpdateRule< DIM > , AbstractPottsUpdateRule< DIM > , EulerIvpOdeSolver , AdhesionPottsUpdateRule< DIM > , ChemotaxisPottsUpdateRule< DIM > , AbstractCardiacCell , HeunIvpOdeSolver , DifferentialAdhesionPottsUpdateRule< DIM > , DiffusionMultipleCaUpdateRule< DIM > , MockEulerIvpOdeSolver , SurfaceAreaConstraintPottsUpdateRule< DIM > , VolumeConstraintPottsUpdateRule< DIM > , AbstractCardiacCellInterface , RungeKutta2IvpOdeSolver , VertexBasedCellPopulation< DIM > , AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM > , RungeKutta4IvpOdeSolver , DeltaNotchOffLatticeSimulation< DIM > , OffLatticeSimulation< ELEMENT_DIM, SPACE_DIM > , AbstractCvodeCell , RungeKuttaFehlbergIvpOdeSolver , OnLatticeSimulation< DIM > , VolumeTrackedOffLatticeSimulation< DIM > , AbstractBoundaryCondition< SPACE_DIM > , CryptSimulationBoundaryCondition< DIM > , AbstractVanLeeuwen2009WntSwatCellCycleModel , AbstractRushLarsenCardiacCell , ConstBoundaryCondition< SPACE_DIM > , AbstractWntOdeBasedCellCycleModel , SimpleWntCellCycleModel , AbstractLinearEllipticPde< ELEMENT_DIM, SPACE_DIM > , SingleOdeWntCellCycleModel , StochasticWntCellCycleModel , FakeBathCell , SimulationTime , VanLeeuwen2009WntSwatCellCycleModelHypothesisOne , VanLeeuwen2009WntSwatCellCycleModelHypothesisTwo , Cylindrical2dMesh , WntCellCycleModel , WntConcentration< DIM > , CML_noble_varghese_kohl_noble_1998_basic_with_sac , Cylindrical2dVertexMesh , RadialSloughingCellKiller , SloughingCellKiller< DIM > , NodesOnlyMesh< SPACE_DIM > , CryptProjectionForce , LinearSpringWithVariableSpringConstantsForce< DIM > , CorriasBuistICCModified , PottsElement< DIM > , VertexCryptBoundaryForce< DIM > , Mirams2010WntOdeSystem , Alarcon2004OxygenBasedCellCycleOdeSystem , VanLeeuwen2009WntSwatCellCycleOdeSystem , WntCellCycleOdeSystem , CorriasBuistSMCModified , DeltaNotchOdeSystem , CryptSimulation1d , CryptSimulation2d , TysonNovak2001OdeSystem , BidomainWithBathProblem< DIM > , AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > , AbstractCentreBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > , MonodomainProblem< ELEMENT_DIM, SPACE_DIM > , AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > , AbstractOnLatticeCellPopulation< DIM > , AbstractStimulusFunction , AbstractCellPopulationBoundaryCondition< ELEMENT_DIM, SPACE_DIM > , PlaneBoundaryCondition< DIM > , DynamicRestitutionStimulus , SphereGeometryBoundaryCondition< DIM > , Cell , MultiStimulus , AbstractCellCycleModel , AbstractCellCycleModelOdeSolver , RegularStimulus , AbstractOdeBasedCellCycleModel , AbstractSimpleCellCycleModel , RegularStimulusZeroNetCharge , AbstractSimpleGenerationBasedCellCycleModel , Alarcon2004OxygenBasedCellCycleModel , S1S2Stimulus , CellCycleModelOdeHandler , CellCycleModelOdeSolver< CELL_CYCLE_MODEL, ODE_SOLVER > , SimpleStimulus , CellCycleModelOdeSolver< CELL_CYCLE_MODEL, BackwardEulerIvpOdeSolver > , ContactInhibitionCellCycleModel , ZeroStimulus , DeltaNotchCellCycleModel , FixedDurationGenerationBasedCellCycleModel
• Set() : ProcessSpecificArchive< Archive > , LogFile
• SetAbsoluteMovementThreshold() : AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetAbsoluteTemperature() : DiffusionForce< DIM >
• SetAbsoluteTolerance() : LinearSystem
• SetAdaptCriterion() : AdaptiveTetrahedralMesh
• SetAdaptivityParameters() : HeartConfig
• 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
• SetApplyCrossFibreTension() : ElectroMechanicsProblemDefinition< DIM >
• SetApplyNormalPressureOnDeformedSurface() : ContinuumMechanicsProblemDefinition< DIM >
• SetArchiveDirectory() : ArchiveLocationInfo , OutputFileHandler
• SetAreaBasedDampingConstant() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetAreaBasedDampingConstantParameter() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_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 >
• SetAutoReset() : AbstractCvodeSystem , CvodeAdaptor
• SetBathConductivity() : HeartConfig
• SetBathMultipleConductivities() : HeartConfig
• SetBetaCateninDivisionThreshold() : SingleOdeWntCellCycleModel
• SetBetaCateninSprings() : LinearSpringWithVariableSpringConstantsForce< DIM >
• SetBetaCatSpringScaler() : LinearSpringWithVariableSpringConstantsForce< DIM >
• SetBirthTime() : Cell , AbstractCellCycleModel , AbstractOdeBasedCellCycleModel
• SetBodyForce() : ContinuumMechanicsProblemDefinition< DIM >
• SetBottomCellAncestors() : CryptSimulation2d
• SetBoundaryConditionsContainer() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetCacheReplication() : AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM >
• SetCalciumAndVoltage() : AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , AbstractCardiacMechanicsSolverInterface< DIM >
• SetCapacitance() : HeartConfig
• SetCarbonMonoxideScaleFactor() : CorriasBuistICCModified , CorriasBuistSMCModified
• SetCell() : AbstractCellCycleModel
• 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
• SetCellRadius() : NodesOnlyMesh< SPACE_DIM >
• 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
• 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 >
• SetContractionModel() : 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 > , DiffusionForce< DIM >
• SetDampingConstantMutant() : AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetDampingConstantNormal() : AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetDataOnAllCells() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetDefaultInitialCondition() : AbstractOdeSystemInformation , AbstractParameterisedSystem< VECTOR >
• SetDefaultInitialConditions() : AbstractOdeSystemInformation , AbstractParameterisedSystem< VECTOR >
• SetDefaultIonicModel() : HeartConfig
• SetDefaultMutationStateOrdering() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetDefaultSchemaLocations() : HeartConfig
• 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 >
• SetDiffusionConstant() : DiffusionForce< DIM >
• SetDiffusionParameter() : DiffusionMultipleCaUpdateRule< DIM >
• SetDimension() : AbstractCellCycleModel
• SetDistributedVectorFactory() : AbstractMesh< ELEMENT_DIM, SPACE_DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >
• SetDivideTime() : AbstractOdeBasedCellCycleModel
• SetDomain() : HeartConfig
• SetDrugDose() : HeartConfig
• SetDt() : CellCycleModelOdeHandler , AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• 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() : MultipleCaBasedCellPopulation< DIM >
• SetEndTime() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetEndTimeAndNumberOfTimeSteps() : SimulationTime
• SetEpsilonForNumericalJacobian() : BackwardEulerIvpOdeSolver
• SetEquilibriumVolume() : ContactInhibitionCellCycleModel
• SetExtendedBidomainParameters() : ExtendedBidomainProblem< DIM >
• SetExtracellularConductivities() : HeartConfig
• SetExtracellularStimulusFactory() : ExtendedBidomainProblem< DIM >
• SetFakeIccStimulusPresent() : CorriasBuistSMCModified
• SetFibreLength() : HeartConfig
• SetFibreOrientationFile() : AbstractConductivityTensors< ELEMENT_DIM, SPACE_DIM >
• SetFineCoarseMeshPair() : AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , AbstractCardiacMechanicsSolverInterface< DIM >
• SetFinishedRunningOdes() : AbstractOdeBasedCellCycleModel
• SetFixedChunkSize() : Hdf5DataWriter
• SetFixedExtracellularPotentialNodes() : BidomainProblem< DIM > , ExtendedBidomainProblem< DIM > , AbstractBidomainSolver< ELEMENT_DIM, SPACE_DIM > , AbstractExtendedBidomainSolver< ELEMENT_DIM, SPACE_DIM >
• SetFixedNodes() : SolidMechanicsProblemDefinition< DIM >
• SetFixedSchemaLocations() : HeartConfig
• SetFixedVoltage() : AbstractCardiacCellInterface
• SetFractionOfVDDRInPU() : CorriasBuistICCModified
• SetFromFactory() : DistributedVectorFactory
• SetG1Duration() : AbstractSimpleCellCycleModel , StochasticDurationCellCycleModel , StochasticDurationGenerationBasedCellCycleModel , SimpleWntCellCycleModel
• SetG2Duration() : AbstractCellCycleModel
• SetG2PhaseStartTime() : AbstractOdeBasedCellCycleModel
• SetGeneration() : AbstractSimpleGenerationBasedCellCycleModel
• SetGGap() : ExtendedBidomainTissue< SPACE_DIM >
• SetGgapHeterogeneities() : ExtendedBidomainProblem< DIM > , ExtendedBidomainTissue< SPACE_DIM >
• SetGhostNodes() : MeshBasedCellPopulationWithGhostNodes< DIM >
• SetGradationForAdaptivity() : HeartConfig
• SetHasBath() : ExtendedBidomainProblem< DIM >
• SetHeartGeometryInformation() : AbstractCardiacCellFactory< 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 >
• SetInitialCondition() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetInitialConditions() : DeltaNotchCellCycleModel
• 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 , FakeBathContractionModel , Kerchoffs2003ContractionModel , Nash2004ContractionModel , NhsContractionModel , NonPhysiologicalContractionModel
• SetIntracellularCalciumConcentration() : NhsContractionModel
• SetIntracellularConductivities() : HeartConfig
• SetIntracellularConductivitiesForSecondCell() : ExtendedBidomainProblem< DIM >
• SetIntracellularConductivitiesSecondCell() : ExtendedBidomainTissue< SPACE_DIM >
• SetIntracellularStimulusFunction() : AbstractCardiacCellInterface
• SetIonicModelRegions() : HeartConfig
• SetIP3Concentration() : CorriasBuistICCModified
• SetIsLabelled() : Alarcon2004OxygenBasedCellCycleOdeSystem
• SetItem() : CellData
• 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
• SetLoader() : AbstractDynamicallyLoadableEntity
• SetLogged() : Cell
• 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 >
• SetMatureCellTargetArea() : NagaiHondaForce< DIM >
• SetMatureCellTargetSurfaceArea() : SurfaceAreaConstraintPottsUpdateRule< DIM >
• SetMatureCellTargetVolume() : VolumeConstraintPottsUpdateRule< DIM >
• SetMaxEdgeLengthForAdaptivity() : HeartConfig
• SetMaximumInteractionDistance() : NodesOnlyMesh< SPACE_DIM >
• SetMaxNodesForAdaptivity() : HeartConfig
• SetMaxNumPaces() : AbstractSteadyStateRunner
• SetMaxSteps() : AbstractCellCycleModelOdeSolver , AbstractCvodeSystem , CvodeAdaptor
• SetMaxTransitGenerations() : AbstractSimpleGenerationBasedCellCycleModel
• SetMaxUpstrokeVelocityMaps() : HeartConfig
• SetMDuration() : AbstractCellCycleModel
• SetMechanicsCutOffLength() : NodeBasedCellPopulation< 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() : AbstractPurkinjeCellFactory< ELEMENT_DIM, SPACE_DIM > , AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , AbstractCardiacCellFactory< 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
• SetMinEdgeLengthForAdaptivity() : HeartConfig
• SetMinimalReset() : CvodeAdaptor , AbstractCvodeSystem
• SetMinimumGapDuration() : AbstractCellCycleModel
• 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
• SetNeumannStimulusMagnitudeAndDuration() : AdaptiveBidomainProblem
• SetNewIndex() : NodeMap , VertexElementMap
• SetNoBirth() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetNode() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > , AbstractOffLatticeCellPopulation< ELEMENT_DIM, SPACE_DIM > , AbstractOnLatticeCellPopulation< DIM > , MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > , NodeBasedCellPopulation< DIM > , VertexBasedCellPopulation< DIM > , Cylindrical2dVertexMesh , MutableMesh< ELEMENT_DIM, SPACE_DIM > , MutableVertexMesh< ELEMENT_DIM, SPACE_DIM > , Cylindrical2dMesh
• 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
• SetNumberOfAdaptiveSweeps() : HeartConfig
• SetNumberOfTimeSteps() : OdeSolution
• SetNumIncrementsForInitialDeformation() : ElectroMechanicsProblemDefinition< DIM >
• SetNumSweepsPerTimestep() : PottsBasedCellPopulation< DIM >
• SetOdePdeAndPrintingTimeSteps() : HeartConfig
• SetOdeSystem() : CellCycleModelOdeHandler
• SetOdeSystemInformation() : OdeSolution
• SetOdeTimeStep() : HeartConfig
• SetOption() : PetscMatTools
• SetOriginalFactory() : DistributedVectorFactory
• SetOutputCellAges() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputCellAncestors() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputCellCyclePhases() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputCellIdData() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputCellMutationStates() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputCellPopulationVolumes() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputCellProliferativeTypes() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputCellVariables() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputCellVelocities() : OnLatticeSimulation< DIM >
• SetOutputCellVolumes() : AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputDeformationGradientsAndStress() : CardiacElectroMechanicsProblem< DIM, ELEC_PROB_DIM >
• SetOutputDirectory() : HeartConfig , ExecutableSupport , LinearParabolicPdeSystemWithCoupledOdeSystemSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputDirectoryAndPrefix() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetOutputDivisionLocations() : AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >
• SetOutputFilenamePrefix() : HeartConfig
• SetOutputNodes() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetOutputNodeVelocities() : OffLatticeSimulation< 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
• SetOutputVoronoiData() : MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >
• SetOwnership() : AbstractElement< ELEMENT_DIM, SPACE_DIM >
• SetParallelFiles() : VtkMeshWriter< ELEMENT_DIM, SPACE_DIM >
• SetParameter() : AbstractCardiacCell , AbstractCardiacCellInterface , AbstractCvodeCell , AbstractParameterisedSystem< VECTOR > , AbstractCardiacCellInterface
• SetParameters() : PoleZeroMaterialLaw< DIM >
• SetParametersFile() : HeartConfig
• SetParticles() : NodeBasedCellPopulationWithParticles< DIM >
• SetPath() : FileFinder
• SetPcType() : LinearSystem
• SetPdeSolution() : AbstractOdeSystemForCoupledPdeSystem
• SetPdeTimeStep() : HeartConfig , PdeSimulationTime
• 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 >
• SetProteinConcentrationsForTestsOnly() : AbstractOdeBasedCellCycleModel
• SetPseudoEcgElectrodePositions() : HeartConfig
• SetPurkinjeCapacitance() : HeartConfig
• SetPurkinjeCellModel() : PurkinjeVentricularJunctionStimulus
• SetPurkinjeConductivity() : HeartConfig
• SetPurkinjeSurfaceAreaToVolumeRatio() : HeartConfig
• SetQuiescentConcentration() : SimpleOxygenBasedCellCycleModel
• SetQuiescentVolumeFraction() : ContactInhibitionCellCycleModel
• SetReadBufferSize() : TrianglesMeshReader< ELEMENT_DIM, SPACE_DIM >
• SetRegion() : Node< SPACE_DIM >
• SetRegionNames() : CmguiMeshWriter< ELEMENT_DIM, SPACE_DIM >
• SetRelativeTolerance() : LinearSystem
• SetRequestedNodalTimeTraces() : HeartConfig
• SetRhsVectorElement() : LinearSystem
• 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 >
• SetScaleFactor() : NaturalNeumannSurfaceTermAssembler< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetSDuration() : AbstractCellCycleModel
• SetSercaPumpScaleFactor() : CorriasBuistICCModified
• SetSheetDimensions() : HeartConfig
• SetSigmaForAdaptivity() : HeartConfig
• SetSimulationDuration() : HeartConfig
• SetSizeOfOdeSystem() : AbstractCellCycleModelOdeSolver
• SetSlabDimensions() : HeartConfig
• SetSlowValues() : AbstractCardiacCell
• SetSolution() : PdeAndBoundaryConditions< DIM >
• SetSolverName() : OdeSolution
• SetSolveUsingSnes() : SolidMechanicsProblemDefinition< DIM >
• SetSpaceDimension() : HeartConfig
• SetStartTime() : RegularStimulus , SimulationTime
• SetState() : AbstractCardiacCell
• SetStateVariable() : AbstractCvodeCell , AbstractParameterisedSystem< VECTOR > , AbstractCardiacCellInterface , AbstractCardiacCell , AbstractCardiacCellInterface , AbstractParameterisedSystem< VECTOR > , AbstractCvodeCell
• SetStateVariables() : AbstractCvodeCell , AbstractCardiacCellInterface , AbstractCvodeCell , AbstractCardiacCell , AbstractParameterisedSystem< VECTOR > , CellCycleModelOdeHandler
• SetStemCellG1Duration() : AbstractCellCycleModel
• SetStimulusFunction() : AbstractCardiacCellInterface
• SetStopTime() : RegularStimulus
• SetStretch() : AbstractContractionModel , AbstractCardiacCellInterface , CML_noble_varghese_kohl_noble_1998_basic_with_sac
• SetStretchAndStretchRate() : Kerchoffs2003ContractionModel , AbstractContractionModel , Nash2004ContractionModel , NonPhysiologicalContractionModel , FakeBathContractionModel , NhsContractionModel
• SetSurfaceAreaToVolumeRatio() : HeartConfig
• SetSurfaceFiles() : StreeterFibreGenerator< SPACE_DIM >
• SetT2Threshold() : MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >
• SetTableProperties() : AbstractLookupTableCollection
• SetTargetErrorForAdaptivity() : HeartConfig
• SetTemperature() : PottsBasedCellPopulation< DIM >
• SetTime() : PdeSimulationTime
• SetTimeAdaptivityController() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetTimes() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetTimeStep() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetTimestep() : AbstractLookupTableCollection , AbstractCvodeCell , AbstractCardiacCell , AbstractCardiacCellInterface
• SetTissueAndBathIdentifiers() : HeartConfig
• SetTolerance() : SimpleNewtonNonlinearSolver
• SetTolerances() : CvodeAdaptor , AbstractCvodeSystem , AbstractCellCycleModelOdeSolver
• SetTractionBoundaryConditions() : ContinuumMechanicsProblemDefinition< DIM >
• SetTransitCellG1Duration() : AbstractCellCycleModel
• SetType() : WntConcentration< DIM >
• setUp() : AbstractCellBasedTestSuite
• Setup() : AbstractFileComparison
• SetUpAdditionalStoppingTimes() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , BidomainProblem< DIM >
• SetupAllLocalBoxes() : BoxCollection< DIM >
• SetUpBoxCollection() : NodesOnlyMesh< SPACE_DIM >
• SetUpBoxes() : FineCoarseMeshPair< DIM >
• SetUpBoxesOnCoarseMesh() : FineCoarseMeshPair< DIM >
• SetUpBoxesOnFineMesh() : FineCoarseMeshPair< DIM >
• SetupChangeOfBasisMatrix() : AbstractNonlinearElasticitySolver< DIM > , AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, 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 >
• SetUpHaloCells() : AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM >
• SetupInterleavedVectorScatterGather() : PetscVecTools
• SetupLinearSystem() : MonodomainSolver< ELEMENT_DIM, SPACE_DIM > , AbstractLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , SimpleLinearEllipticSolver< ELEMENT_DIM, SPACE_DIM > , OperatorSplittingMonodomainSolver< ELEMENT_DIM, SPACE_DIM > , LinearParabolicPdeSystemWithCoupledOdeSystemSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , BidomainSolver< ELEMENT_DIM, SPACE_DIM > , ExtendedBidomainSolver< ELEM_DIM, SPACE_DIM > , SimpleLinearParabolicSolver< ELEMENT_DIM, SPACE_DIM >
• SetupLocalBoxesHalfOnly() : BoxCollection< DIM >
• SetupMat() : PetscTools
• SetupNeumannBoundaryConditionOnMesh() : AdaptiveBidomainProblem
• SetupSolve() : CryptSimulation2d , VolumeTrackedOffLatticeSimulation< DIM > , AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM > , DeltaNotchOffLatticeSimulation< DIM > , OnLatticeSimulation< DIM > , OffLatticeSimulation< ELEMENT_DIM, SPACE_DIM >
• SetupSourceTerms() : VolumeDependentAveragedSourcePde< DIM > , AveragedSourcePde< DIM >
• SetUpSourceTermsForAveragedSourcePde() : PdeAndBoundaryConditions< DIM >
• SetUpstrokeTimeMaps() : HeartConfig
• setUpWorld() : PetscSetup
• SetupWriteBetaCatenin() : CryptSimulation2d
• SetUseAbsoluteTolerance() : HeartConfig
• SetUseCellProliferativeTypeDependentG1Duration() : SimpleWntCellCycleModel
• SetUseDefaultCardiacMaterialLaw() : ElectroMechanicsProblemDefinition< DIM >
• SetUsedInTissueSimulation() : AbstractCardiacCellInterface
• SetUseFixedNumberIterations() : LinearSystem
• SetUseFixedNumberIterationsLinearSolver() : HeartConfig
• SetUseFixedSchemaLocation() : HeartConfig
• SetUseJiggledBottomCells() : CryptSimulationBoundaryCondition< DIM >
• SetUseMassLumping() : HeartConfig
• SetUseMassLumpingForPrecond() : HeartConfig
• SetUseReactionDiffusionOperatorSplitting() : HeartConfig
• SetUseRelativeTolerance() : HeartConfig
• SetUserSuppliedExtracellularStimulus() : ExtendedBidomainTissue< SPACE_DIM >
• SetUseStateVariableInterpolation() : HeartConfig
• SetUseTimeAdaptivityController() : AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SetUseVariableRadii() : NodeBasedCellPopulation< DIM >
• SetVariableFibreSheetDirections() : AbstractCardiacMechanicsSolverInterface< DIM > , AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM >
• SetVariableFibreSheetDirectionsFile() : ElectroMechanicsProblemDefinition< DIM >
• SetVectorToAssemble() : AbstractFeAssemblerInterface< CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX >
• SetVentricularCellModel() : PurkinjeVentricularJunctionStimulus
• SetVerboseDuringSolve() : ContinuumMechanicsProblemDefinition< DIM >
• SetViscosity() : DiffusionForce< DIM > , StokesFlowProblemDefinition< DIM >
• SetVisualizerOutputPrecision() : HeartConfig
• SetVisualizeWithCmgui() : HeartConfig
• SetVisualizeWithMeshalyzer() : HeartConfig
• SetVisualizeWithParallelVtk() : HeartConfig
• SetVisualizeWithVtk() : HeartConfig
• SetVoltage() : AbstractCardiacCellInterface , AbstractCardiacCell , AbstractCvodeCell
• SetVoltageDerivativeToZero() : AbstractCvodeCell , AbstractCardiacCellInterface
• 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 >
• SetWriteFileAsBinary() : 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 >
• ShouldAssembleMatrixTermForPressureOnDeformedBc() : AbstractNonlinearElasticitySolver< DIM >
• ShouldSkipThisElement() : PseudoEcgCalculator< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , AbstractFunctionalCalculator< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• ShowCopyright() : ExecutableSupport
• ShowParallelLaunching() : ExecutableSupport
• Shuffle() : RandomNumberGenerator
• sids : AdaptiveTetrahedralMesh
• SIG_FILE_NAME : OutputFileHandler
• 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
• SimpleUniformSourcePde() : SimpleUniformSourcePde< DIM >
• SimpleWntCellCycleModel() : SimpleWntCellCycleModel
• SimulateFullActionPotential : AbstractUntemplatedConvergenceTester
• SimulationTime() : SimulationTime
• SingleDistance() : DistanceMapCalculator< ELEMENT_DIM, SPACE_DIM >
• SingleOdeWntCellCycleModel() : SingleOdeWntCellCycleModel
• Size() : NodeMap , VertexElementMap , QuadraturePointsGroup< DIM >
• SkipHeaderLines() : AbstractFileComparison
• SloughingCellKiller() : SloughingCellKiller< DIM >
• SmoothStructureTensors() : PapillaryFibreCalculator
• SolidMechanicsProblemDefinition() : SolidMechanicsProblemDefinition< DIM >
• Solve() : AbstractDynamicLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , CvodeAdaptor , AbstractCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , CardiacElectroMechanicsProblem< DIM, ELEC_PROB_DIM > , SimpleNewtonNonlinearSolver , AdaptiveBidomainProblem , AbstractOneStepIvpOdeSolver , AbstractStaticLinearPdeSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , RungeKuttaFehlbergIvpOdeSolver , AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM > , AbstractNonlinearAssemblerSolverHybrid< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , AbstractNonlinearElasticitySolver< DIM > , RungeKuttaFehlbergIvpOdeSolver , AbstractCardiacMechanicsSolverInterface< DIM > , AbstractCardiacProblem< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM > , ExplicitCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , StokesFlowSolver< DIM > , SimplePetscNonlinearSolver , ImplicitCardiacMechanicsSolver< ELASTICITY_SOLVER, DIM > , AbstractIvpOdeSolver , AbstractNonlinearSolver , CardiacNewtonSolver< SIZE, CELLTYPE > , AbstractIvpOdeSolver , LinearSystem , AbstractOneStepIvpOdeSolver , AbstractCvodeSystem
• SolveAndUpdateState() : AbstractBackwardEulerCardiacCell< SIZE > , AbstractCardiacCell , AbstractCvodeCell , AbstractRushLarsenCardiacCell , AbstractCardiacCellInterface
• SolveAndUpdateStateVariable() : AbstractIvpOdeSolver , AbstractCellCycleModelOdeSolver
• SolveAndWriteResultsToFile() : LinearParabolicPdeSystemWithCoupledOdeSystemSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >
• SolveBoundaryElementMapping() : PottsMesh< DIM > , SemMesh< DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , VertexMesh< ELEMENT_DIM, SPACE_DIM > , AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , TetrahedralMesh< ELEMENT_DIM, SPACE_DIM >
• SolveCellSystems() : AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM > , ExtendedBidomainTissue< SPACE_DIM >
• SolveElementMapping() : TetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , VertexMesh< ELEMENT_DIM, SPACE_DIM > , SemMesh< DIM > , AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , PottsMesh< DIM >
• SolveLinearSystem() : BackwardEulerIvpOdeSolver , CardiacNewtonSolver< SIZE, CELLTYPE >
• SolveNodeMapping() : SemMesh< DIM > , DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , PottsMesh< DIM > , TetrahedralMesh< ELEMENT_DIM, SPACE_DIM > , AbstractMesh< ELEMENT_DIM, SPACE_DIM > , VertexMesh< ELEMENT_DIM, SPACE_DIM >
• SolveNonSnes() : AbstractNonlinearElasticitySolver< DIM >
• SolveOdeToTime() : CellCycleModelOdeHandler
• SolveOneTimeStep() : OdeLinearSystemSolver
• SolvePdeAndWriteResultsToFile() : CellBasedPdeHandler< DIM >
• SolveSnes() : AbstractNonlinearElasticitySolver< DIM >
• SPACING : ColumnDataReader , ColumnDataWriter
• SPATIAL_BLOCK_SIZE_ELEMENTAL : StokesFlowAssembler< DIM > , ContinuumMechanicsNeumannBcsAssembler< DIM > , AbstractContinuumMechanicsAssembler< DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX >
• SpecifyOrdering() : CellPropertyRegistry
• SphereGeometryBoundaryCondition() : SphereGeometryBoundaryCondition< DIM >
• SplitUpIntoBoxes() : NodeBasedCellPopulation< 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
• StartTime : Timer
• SteadyStateRunner() : SteadyStateRunner
• StemCellProliferativeType() : StemCellProliferativeType
• STENCIL_SIZE : CompressibleNonlinearElasticitySolver< DIM > , AbstractContinuumMechanicsAssembler< DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX > , 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 >
• 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