Chaste  Release::3.4
StochasticOxygenBasedCellCycleModel Class Reference

#include <StochasticOxygenBasedCellCycleModel.hpp>

+ Inheritance diagram for StochasticOxygenBasedCellCycleModel:
+ Collaboration diagram for StochasticOxygenBasedCellCycleModel:

Public Member Functions

 StochasticOxygenBasedCellCycleModel ()
 
void InitialiseDaughterCell ()
 
void Initialise ()
 
void ResetForDivision ()
 
double GetG2Duration ()
 
AbstractCellCycleModelCreateCellCycleModel ()
 
virtual void OutputCellCycleModelParameters (out_stream &rParamsFile)
 
- Public Member Functions inherited from SimpleOxygenBasedCellCycleModel
 SimpleOxygenBasedCellCycleModel ()
 
void UpdateCellCyclePhase ()
 
void UpdateHypoxicDuration ()
 
double GetCurrentHypoxicDuration ()
 
double GetCurrentHypoxiaOnsetTime ()
 
double GetHypoxicConcentration ()
 
void SetHypoxicConcentration (double hypoxicConcentration)
 
double GetQuiescentConcentration ()
 
void SetQuiescentConcentration (double quiescentConcentration)
 
double GetCriticalHypoxicDuration ()
 
void SetCriticalHypoxicDuration (double criticalHypoxicDuration)
 
void SetCurrentHypoxiaOnsetTime (double currentHypoxiaOnsetTime)
 
- Public Member Functions inherited from AbstractSimpleCellCycleModel
 AbstractSimpleCellCycleModel ()
 
virtual ~AbstractSimpleCellCycleModel ()
 
- Public Member Functions inherited from AbstractCellCycleModel
 AbstractCellCycleModel ()
 
virtual ~AbstractCellCycleModel ()
 
void SetCell (CellPtr pCell)
 
CellPtr GetCell ()
 
virtual void SetBirthTime (double birthTime)
 
void SetDimension (unsigned dimension)
 
unsigned GetDimension ()
 
double GetBirthTime () const
 
double GetAge ()
 
virtual bool ReadyToDivide ()
 
CellCyclePhase GetCurrentCellCyclePhase ()
 
virtual double GetG1Duration ()
 
double GetStemCellG1Duration ()
 
double GetTransitCellG1Duration ()
 
double GetSG2MDuration ()
 
virtual double GetSDuration ()
 
virtual double GetMDuration ()
 
virtual void SetStemCellG1Duration (double stemCellG1Duration)
 
virtual void SetTransitCellG1Duration (double transitCellG1Duration)
 
void SetSDuration (double sDuration)
 
void SetG2Duration (double g2Duration)
 
void SetMDuration (double mDuration)
 
virtual double GetAverageTransitCellCycleTime ()
 
virtual double GetAverageStemCellCycleTime ()
 
virtual bool CanCellTerminallyDifferentiate ()
 
double GetMinimumGapDuration ()
 
void SetMinimumGapDuration (double minimumGapDuration)
 
void OutputCellCycleModelInfo (out_stream &rParamsFile)
 
- Public Member Functions inherited from Identifiable
virtual ~Identifiable ()
 
std::string GetIdentifier () const
 

Private Member Functions

template<class Archive >
void serialize (Archive &archive, const unsigned int version)
 
void GenerateStochasticG2Duration ()
 

Private Attributes

double mStochasticG2Duration
 

Friends

class TestSimpleCellCycleModels
 
class boost::serialization::access
 

Additional Inherited Members

- Protected Member Functions inherited from AbstractSimpleCellCycleModel
virtual void SetG1Duration ()
 
- Protected Attributes inherited from SimpleOxygenBasedCellCycleModel
double mCurrentHypoxicDuration
 
double mCurrentHypoxiaOnsetTime
 
double mHypoxicConcentration
 
double mQuiescentConcentration
 
double mCriticalHypoxicDuration
 
- Protected Attributes inherited from AbstractCellCycleModel
CellPtr mpCell
 
double mBirthTime
 
CellCyclePhase mCurrentCellCyclePhase
 
double mG1Duration
 
bool mReadyToDivide
 
unsigned mDimension
 
double mMinimumGapDuration
 
double mStemCellG1Duration
 
double mTransitCellG1Duration
 
double mSDuration
 
double mG2Duration
 
double mMDuration
 

Detailed Description

Stochastic oxygen-based cell-cycle model.

A simple oxygen-dependent cell-cycle model that inherits from SimpleOxygenBasedCellCycleModel and in addition spends a random duration in G2 phase.

Definition at line 49 of file StochasticOxygenBasedCellCycleModel.hpp.

Constructor & Destructor Documentation

StochasticOxygenBasedCellCycleModel::StochasticOxygenBasedCellCycleModel ( )

Constructor.

Definition at line 40 of file StochasticOxygenBasedCellCycleModel.cpp.

Referenced by CreateCellCycleModel().

Member Function Documentation

AbstractCellCycleModel * StochasticOxygenBasedCellCycleModel::CreateCellCycleModel ( )
virtual
void StochasticOxygenBasedCellCycleModel::GenerateStochasticG2Duration ( )
private

Stochastically set the G2 duration. Called on cell creation at the start of a simulation, and for both parent and daughter cells at cell division.

Definition at line 45 of file StochasticOxygenBasedCellCycleModel.cpp.

References AbstractCellCycleModel::GetG2Duration(), RandomNumberGenerator::Instance(), AbstractCellCycleModel::mMinimumGapDuration, mStochasticG2Duration, and RandomNumberGenerator::NormalRandomDeviate().

Referenced by Initialise(), InitialiseDaughterCell(), and ResetForDivision().

double StochasticOxygenBasedCellCycleModel::GetG2Duration ( )
virtual
Returns
mStochasticG2Duration.

Reimplemented from AbstractCellCycleModel.

Definition at line 79 of file StochasticOxygenBasedCellCycleModel.cpp.

References mStochasticG2Duration.

void StochasticOxygenBasedCellCycleModel::Initialise ( void  )
virtual

Initialise the cell-cycle model at the start of a simulation.

Reimplemented from AbstractSimpleCellCycleModel.

Definition at line 67 of file StochasticOxygenBasedCellCycleModel.cpp.

References GenerateStochasticG2Duration(), and AbstractSimpleCellCycleModel::Initialise().

void StochasticOxygenBasedCellCycleModel::InitialiseDaughterCell ( )
virtual
void StochasticOxygenBasedCellCycleModel::OutputCellCycleModelParameters ( out_stream &  rParamsFile)
virtual

Outputs cell cycle model parameters to file.

Parameters
rParamsFilethe file stream to which the parameters are output

Reimplemented from SimpleOxygenBasedCellCycleModel.

Definition at line 118 of file StochasticOxygenBasedCellCycleModel.cpp.

References SimpleOxygenBasedCellCycleModel::OutputCellCycleModelParameters().

void StochasticOxygenBasedCellCycleModel::ResetForDivision ( )
virtual
template<class Archive >
void StochasticOxygenBasedCellCycleModel::serialize ( Archive &  archive,
const unsigned int  version 
)
inlineprivate

Boost Serialization method for archiving/checkpointing

Parameters
archiveThe boost archive.
versionThe current version of this class.

Definition at line 63 of file StochasticOxygenBasedCellCycleModel.hpp.

References SerializableSingleton< SINGLETON_CLASS >::GetSerializationWrapper(), RandomNumberGenerator::Instance(), and mStochasticG2Duration.

Member Data Documentation

double StochasticOxygenBasedCellCycleModel::mStochasticG2Duration
private

The duration of the G2 phase, set stochastically.

Definition at line 77 of file StochasticOxygenBasedCellCycleModel.hpp.

Referenced by GenerateStochasticG2Duration(), GetG2Duration(), and serialize().


The documentation for this class was generated from the following files: