, including all inherited members.
| AbstractCellCentreBasedTissue(const std::vector< TissueCell > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >()) | AbstractCellCentreBasedTissue< DIM > | [inline] |
| AbstractCellCentreBasedTissue() | AbstractCellCentreBasedTissue< DIM > | [inline] |
| AbstractTissue(const std::vector< TissueCell > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >()) | AbstractTissue< DIM > | [inline] |
| AbstractTissue() | AbstractTissue< DIM > | [inline] |
| AddCell(TissueCell &rNewCell, c_vector< double, DIM > newLocation, TissueCell *pParentCell=NULL) | MeshBasedTissueWithGhostNodes< DIM > | [inline, virtual] |
| AddNode(Node< DIM > *pNewNode) | MeshBasedTissue< DIM > | [inline, virtual] |
| Begin() | AbstractTissue< DIM > | [inline] |
| boost::serialization::access class | MeshBasedTissueWithGhostNodes< DIM > | [friend] |
| CalculateForceBetweenNodes(const unsigned &rNodeAGlobalIndex, const unsigned &rNodeBGlobalIndex) | MeshBasedTissueWithGhostNodes< DIM > | [inline] |
| CheckTissueCellPointers() | MeshBasedTissue< DIM > | [inline] |
| CloseOutputFiles(bool outputCellMutationStates, bool outputCellTypes, bool outputCellVariables, bool outputCellCyclePhases, bool outputCellAncestors) | MeshBasedTissue< DIM > | [inline, virtual] |
| CreateCellPair(TissueCell &, TissueCell &) | MeshBasedTissue< DIM > | [inline, protected] |
| CreateOutputFiles(const std::string &rDirectory, bool rCleanOutputDirectory, bool outputCellMutationStates, bool outputCellTypes, bool outputCellVariables, bool outputCellCyclePhases, bool outputCellAncestors) | MeshBasedTissue< DIM > | [inline, virtual] |
| CreateVoronoiTessellation() | MeshBasedTissue< DIM > | [inline] |
| CreateVoronoiTessellation() (defined in MeshBasedTissue< DIM >) | MeshBasedTissue< DIM > | [inline] |
| End() | AbstractTissue< DIM > | [inline] |
| GenerateCellResults(unsigned locationIndex, bool outputCellMutationStates, bool outputCellTypes, bool outputCellVariables, bool outputCellCyclePhases, bool outputCellAncestors, std::vector< unsigned > &rCellTypeCounter, std::vector< unsigned > &rCellMutationStateCounter, std::vector< unsigned > &rCellCyclePhaseCounter) | AbstractTissue< DIM > | [inline] |
| GetCellAncestors() | AbstractTissue< DIM > | [inline] |
| GetCellCyclePhaseCount() | AbstractTissue< DIM > | [inline] |
| GetCellMutationStateCount() | AbstractTissue< DIM > | [inline] |
| GetCellTypeCount() | AbstractTissue< DIM > | [inline] |
| GetDampingConstant(unsigned nodeIndex) | MeshBasedTissue< DIM > | [inline, virtual] |
| GetGhostNodeIndices() | MeshBasedTissueWithGhostNodes< DIM > | [inline] |
| GetLocationIndexUsingCell(TissueCell *pCell) | AbstractTissue< DIM > | [inline] |
| GetLocationOfCellCentre(TissueCell *pCell) | AbstractCellCentreBasedTissue< DIM > | [inline, virtual] |
| GetNode(unsigned index) | MeshBasedTissue< DIM > | [inline, virtual] |
| GetNodeCorrespondingToCell(TissueCell *pCell) | AbstractCellCentreBasedTissue< DIM > | [inline] |
| GetNumNodes() | MeshBasedTissue< DIM > | [inline, virtual] |
| GetNumRealCells() | AbstractTissue< DIM > | [inline] |
| GetWriteTissueAreas() | MeshBasedTissue< DIM > | [inline] |
| GetWriteVoronoiData() | MeshBasedTissue< DIM > | [inline] |
| HasMesh() | AbstractTissue< DIM > | [inline] |
| InitialiseCells() | AbstractTissue< DIM > | [inline] |
| IsCellAssociatedWithADeletedNode(TissueCell &rCell) | AbstractCellCentreBasedTissue< DIM > | [inline, virtual] |
| IsGhostNode(unsigned index) | MeshBasedTissueWithGhostNodes< DIM > | [inline, virtual] |
| IsMarkedSpring(TissueCell &, TissueCell &) | MeshBasedTissue< DIM > | [inline] |
| MarkSpring(TissueCell &, TissueCell &) | MeshBasedTissue< DIM > | [inline] |
| mCellCyclePhaseCount | AbstractTissue< DIM > | [protected] |
| mCellLocationMap | AbstractTissue< DIM > | [protected] |
| mCellMutationStateCount | AbstractTissue< DIM > | [protected] |
| mCells | AbstractTissue< DIM > | [protected] |
| mCellTypeCount | AbstractTissue< DIM > | [protected] |
| mDeleteMesh | MeshBasedTissue< DIM > | [protected] |
| MeshBasedTissue(MutableMesh< DIM, DIM > &rMesh, const std::vector< TissueCell > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >(), bool deleteMesh=false, bool validate=true) | MeshBasedTissue< DIM > | [inline] |
| MeshBasedTissue(MutableMesh< DIM, DIM > &rMesh) | MeshBasedTissue< DIM > | [inline] |
| MeshBasedTissueWithGhostNodes(MutableMesh< DIM, DIM > &rMesh, const std::vector< TissueCell > &rCells, const std::vector< unsigned > locationIndices=std::vector< unsigned >(), bool deleteMesh=false) | MeshBasedTissueWithGhostNodes< DIM > | [inline] |
| MeshBasedTissueWithGhostNodes(MutableMesh< DIM, DIM > &rMesh) | MeshBasedTissueWithGhostNodes< DIM > | [inline] |
| mFollowLoggedCell | MeshBasedTissue< DIM > | [protected] |
| mIsGhostNode | MeshBasedTissueWithGhostNodes< DIM > | [private] |
| mLocationCellMap | AbstractTissue< DIM > | [protected] |
| mMarkedSprings | MeshBasedTissue< DIM > | [protected] |
| mpCellAncestorsFile | AbstractTissue< DIM > | [protected] |
| mpCellCyclePhasesFile | AbstractTissue< DIM > | [protected] |
| mpCellMutationStatesFile | AbstractTissue< DIM > | [protected] |
| mpCellTypesFile | AbstractTissue< DIM > | [protected] |
| mpCellVariablesFile | AbstractTissue< DIM > | [protected] |
| mpElementFile | MeshBasedTissue< DIM > | [protected] |
| mpTissueAreasFile | MeshBasedTissue< DIM > | [protected] |
| mpVizCellTypesFile | AbstractTissue< DIM > | [protected] |
| mpVizNodesFile | AbstractTissue< DIM > | [protected] |
| mpVoronoiFile | MeshBasedTissue< DIM > | [protected] |
| mpVoronoiTessellation | MeshBasedTissue< DIM > | [protected] |
| mrMesh | MeshBasedTissue< DIM > | [protected] |
| mTissueContainsMesh | AbstractTissue< DIM > | [protected] |
| mUseAreaBasedDampingConstant | MeshBasedTissue< DIM > | [protected] |
| mWriteTissueAreas | MeshBasedTissue< DIM > | [protected] |
| mWriteVoronoiData | MeshBasedTissue< DIM > | [protected] |
| RemoveDeadCells() | MeshBasedTissue< DIM > | [inline, virtual] |
| rGetCells() | AbstractTissue< DIM > | [inline] |
| rGetCellUsingLocationIndex(unsigned index) | AbstractTissue< DIM > | [inline] |
| rGetGhostNodes() | MeshBasedTissueWithGhostNodes< DIM > | [inline] |
| rGetMesh() | MeshBasedTissue< DIM > | [inline] |
| rGetMesh() const | MeshBasedTissue< DIM > | [inline] |
| rGetVoronoiTessellation() | MeshBasedTissue< DIM > | [inline] |
| serialize(Archive &archive, const unsigned int version) | MeshBasedTissueWithGhostNodes< DIM > | [inline, private] |
| SetAreaBasedDampingConstant(bool useAreaBasedDampingConstant) | MeshBasedTissue< DIM > | [inline] |
| SetBottomCellAncestors() | MeshBasedTissue< DIM > | [inline] |
| SetCellAncestorsToNodeIndices() | AbstractTissue< DIM > | [inline] |
| SetGhostNodes(const std::set< unsigned > &ghostNodeIndices) | MeshBasedTissueWithGhostNodes< DIM > | [inline, private] |
| SetNode(unsigned nodeIndex, ChastePoint< DIM > &rNewLocation) | MeshBasedTissue< DIM > | [inline, virtual] |
| SetWriteTissueAreas(bool writeTissueAreas) | MeshBasedTissue< DIM > | [inline] |
| SetWriteVoronoiData(bool writeVoronoiData, bool followLoggedCell) | MeshBasedTissue< DIM > | [inline] |
| SpringsBegin() | MeshBasedTissue< DIM > | [inline] |
| SpringsEnd() | MeshBasedTissue< DIM > | [inline] |
| TestMeshBasedTissueWithGhostNodes class | MeshBasedTissueWithGhostNodes< DIM > | [friend] |
| UnmarkSpring(TissueCell &, TissueCell &) | MeshBasedTissue< DIM > | [inline] |
| Update() | MeshBasedTissue< DIM > | [inline, virtual] |
| UpdateGhostNodesAfterReMesh(NodeMap &rMap) | MeshBasedTissueWithGhostNodes< DIM > | [inline, virtual] |
| UpdateGhostPositions(double dt) | MeshBasedTissueWithGhostNodes< DIM > | [inline] |
| UpdateNodeLocations(const std::vector< c_vector< double, DIM > > &rNodeForces, double dt) | MeshBasedTissueWithGhostNodes< DIM > | [inline, virtual] |
| UseAreaBasedDampingConstant() | MeshBasedTissue< DIM > | [inline] |
| Validate() | MeshBasedTissueWithGhostNodes< DIM > | [inline, private, virtual] |
| WriteCellResultsToFiles(bool outputCellMutationStates, bool outputCellTypes, bool outputCellVariables, bool outputCellCyclePhases, bool outputCellAncestors, std::vector< unsigned > &rCellTypeCounter, std::vector< unsigned > &rCellMutationStateCounter, std::vector< unsigned > &rCellCyclePhaseCounter) | AbstractTissue< DIM > | [inline] |
| WriteMeshToFile(const std::string &rArchiveDirectory, const std::string &rMeshFileName) | MeshBasedTissue< DIM > | [inline, virtual] |
| WriteResultsToFiles(bool outputCellMutationStates, bool outputCellTypes, bool outputCellVariables, bool outputCellCyclePhases, bool outputCellAncestors) | MeshBasedTissue< DIM > | [inline, virtual] |
| WriteTimeAndNodeResultsToFiles(bool outputCellMutationStates, bool outputCellTypes, bool outputCellVariables, bool outputCellCyclePhases, bool outputCellAncestors, std::vector< unsigned > &rCellTypeCounter, std::vector< unsigned > &rCellMutationStateCounter, std::vector< unsigned > &rCellCyclePhaseCounter) | AbstractTissue< DIM > | [inline] |
| WriteTissueAreaResultsToFile() | MeshBasedTissue< DIM > | [inline] |
| WriteVoronoiResultsToFile() | MeshBasedTissue< DIM > | [inline] |
| ~AbstractTissue() | AbstractTissue< DIM > | [inline, virtual] |
| ~MeshBasedTissue() | MeshBasedTissue< DIM > | [inline] |
