#include <AbstractSimpleCellCycleModel.hpp>
Inherits AbstractCellCycleModel.
Inherited by AbstractSimpleGenerationBasedCellCycleModel, ContactInhibitionCellCycleModel, GammaDistributedStochasticDurationCellCycleModel, SimpleOxygenBasedCellCycleModel, SimpleWntCellCycleModel, and StochasticDurationCellCycleModel.
Public Member Functions | |
AbstractSimpleCellCycleModel () | |
virtual | ~AbstractSimpleCellCycleModel () |
virtual void | ResetForDivision () |
virtual void | UpdateCellCyclePhase () |
void | InitialiseDaughterCell () |
virtual void | Initialise () |
virtual void | OutputCellCycleModelParameters (out_stream &rParamsFile) |
Protected Member Functions | |
virtual void | SetG1Duration () |
Private Member Functions | |
template<class Archive > | |
void | serialize (Archive &archive, const unsigned int version) |
Friends | |
class | boost::serialization::access |
This class contains all the functionality shared by 'simple' cell-cycle models, where the duration of each cell cycle phase is determined when the cell-cycle model is created. Note that whether or not the cell should actually divide may still depend on further conditions in subclasses; for example, the cell may only divide if the local concentration of a signalling molecule is sufficiently high/
This class of cell-cycle models is distinct from 'ODE-based' cell-cycle models, where the duration of one or more cell cycle phases are evaluated 'on the fly' as the cell ages, according to a system of ordinary differential equations (ODEs) governing (for example) the concentrations of key intracellular proteins.
Definition at line 57 of file AbstractSimpleCellCycleModel.hpp.
AbstractSimpleCellCycleModel::AbstractSimpleCellCycleModel | ( | ) |
Default constructor - creates an AbstractSimpleCellCycleModel.
Definition at line 42 of file AbstractSimpleCellCycleModel.cpp.
AbstractSimpleCellCycleModel::~AbstractSimpleCellCycleModel | ( | ) | [virtual] |
Destructor.
Definition at line 46 of file AbstractSimpleCellCycleModel.cpp.
void AbstractSimpleCellCycleModel::Initialise | ( | void | ) | [virtual] |
See AbstractCellCycleModel::Initialise()
Reimplemented from AbstractCellCycleModel.
Reimplemented in DeltaNotchCellCycleModel, StochasticOxygenBasedCellCycleModel, and SingleOdeWntCellCycleModel.
Definition at line 50 of file AbstractSimpleCellCycleModel.cpp.
References SetG1Duration().
void AbstractSimpleCellCycleModel::InitialiseDaughterCell | ( | ) | [virtual] |
Set the new cell's G1 duration once it has been created after division. The duration will be based on cell type.
Reimplemented from AbstractCellCycleModel.
Reimplemented in AbstractSimpleGenerationBasedCellCycleModel, StochasticOxygenBasedCellCycleModel, and SimpleWntCellCycleModel.
Definition at line 55 of file AbstractSimpleCellCycleModel.cpp.
References SetG1Duration().
void AbstractSimpleCellCycleModel::OutputCellCycleModelParameters | ( | out_stream & | rParamsFile | ) | [virtual] |
Outputs cell cycle model parameters to file.
rParamsFile | the file stream to which the parameters are output |
Implements AbstractCellCycleModel.
Reimplemented in AbstractSimpleGenerationBasedCellCycleModel, ContactInhibitionCellCycleModel, DeltaNotchCellCycleModel, ExponentiallyDistributedStochasticDurationGenerationBasedCellCycleModel, FixedDurationGenerationBasedCellCycleModel, GammaDistributedStochasticDurationCellCycleModel, SimpleOxygenBasedCellCycleModel, StochasticDurationCellCycleModel, StochasticDurationGenerationBasedCellCycleModel, StochasticOxygenBasedCellCycleModel, SimpleWntCellCycleModel, and SingleOdeWntCellCycleModel.
Definition at line 117 of file AbstractSimpleCellCycleModel.cpp.
void AbstractSimpleCellCycleModel::ResetForDivision | ( | ) | [virtual] |
See AbstractCellCycleModel::ResetForDivision()
Reimplemented from AbstractCellCycleModel.
Reimplemented in AbstractSimpleGenerationBasedCellCycleModel, and StochasticOxygenBasedCellCycleModel.
Definition at line 83 of file AbstractSimpleCellCycleModel.cpp.
References SimulationTime::GetTime(), SimulationTime::Instance(), AbstractCellCycleModel::mBirthTime, and SetG1Duration().
void AbstractSimpleCellCycleModel::serialize | ( | Archive & | archive, | |
const unsigned int | version | |||
) | [inline, private] |
Archive the cell-cycle model.
archive | the archive | |
version | the current version of this class |
Reimplemented from AbstractCellCycleModel.
Reimplemented in AbstractSimpleGenerationBasedCellCycleModel, ContactInhibitionCellCycleModel, DeltaNotchCellCycleModel, ExponentiallyDistributedStochasticDurationGenerationBasedCellCycleModel, FixedDurationGenerationBasedCellCycleModel, GammaDistributedStochasticDurationCellCycleModel, SimpleOxygenBasedCellCycleModel, StochasticDurationCellCycleModel, StochasticDurationGenerationBasedCellCycleModel, StochasticOxygenBasedCellCycleModel, SimpleWntCellCycleModel, and SingleOdeWntCellCycleModel.
Definition at line 70 of file AbstractSimpleCellCycleModel.hpp.
void AbstractSimpleCellCycleModel::SetG1Duration | ( | ) | [protected, virtual] |
Subclasses can override this function if they wish, this just allocates the default values for each of the different cell types' G1 durations as defined in AbstractCellCycleModel.
Reimplemented in ExponentiallyDistributedStochasticDurationGenerationBasedCellCycleModel, GammaDistributedStochasticDurationCellCycleModel, StochasticDurationCellCycleModel, StochasticDurationGenerationBasedCellCycleModel, and SimpleWntCellCycleModel.
Definition at line 61 of file AbstractSimpleCellCycleModel.cpp.
References AbstractCellCycleModel::GetStemCellG1Duration(), AbstractCellCycleModel::GetTransitCellG1Duration(), AbstractCellCycleModel::mG1Duration, AbstractCellCycleModel::mpCell, and NEVER_REACHED.
Referenced by Initialise(), InitialiseDaughterCell(), and ResetForDivision().
void AbstractSimpleCellCycleModel::UpdateCellCyclePhase | ( | ) | [virtual] |
Default UpdateCellCyclePhase() method for a simple cell-cycle model.
Can be overridden if they should do something more subtle.
Implements AbstractCellCycleModel.
Reimplemented in ContactInhibitionCellCycleModel, DeltaNotchCellCycleModel, SimpleOxygenBasedCellCycleModel, SimpleWntCellCycleModel, and SingleOdeWntCellCycleModel.
Definition at line 90 of file AbstractSimpleCellCycleModel.cpp.
References AbstractCellCycleModel::GetAge(), AbstractCellCycleModel::GetG2Duration(), AbstractCellCycleModel::GetMDuration(), AbstractCellCycleModel::GetSDuration(), AbstractCellCycleModel::mCurrentCellCyclePhase, AbstractCellCycleModel::mG1Duration, and AbstractCellCycleModel::mpCell.
friend class boost::serialization::access [friend] |
Needed for serialization.
Reimplemented from AbstractCellCycleModel.
Reimplemented in AbstractSimpleGenerationBasedCellCycleModel, ContactInhibitionCellCycleModel, DeltaNotchCellCycleModel, ExponentiallyDistributedStochasticDurationGenerationBasedCellCycleModel, FixedDurationGenerationBasedCellCycleModel, GammaDistributedStochasticDurationCellCycleModel, SimpleOxygenBasedCellCycleModel, StochasticDurationCellCycleModel, StochasticDurationGenerationBasedCellCycleModel, StochasticOxygenBasedCellCycleModel, SimpleWntCellCycleModel, and SingleOdeWntCellCycleModel.
Definition at line 62 of file AbstractSimpleCellCycleModel.hpp.