itk::bio::Cell< NSpaceDimension > Class Template Reference

#include <itkBioCell.h>

Inheritance diagram for itk::bio::Cell< NSpaceDimension >:

[legend]Collaboration diagram for itk::bio::Cell< NSpaceDimension >:

[legend]List of all members.

---

Detailed Description

template<unsigned int NSpaceDimension = 3>
class itk::bio::Cell< NSpaceDimension >

This class implement the minimal behavior of a biological cell. The basic behavior of a cell is related with the cell cycle. Geometrical concepts like size and shape are also managed by this abstract cell.

Definition at line 40 of file itkBioCell.h.

Public Types
enum	CellCycleState {   M = 1UL,   Gap1,   S,   Gap2,   Gap0,   Apop }
typedef itk::RGBPixel< float >	ColorType
typedef GenomeType::GeneIdType	GeneIdType
typedef itk::bio::Genome	GenomeType
typedef unsigned long int	IdentifierType
typedef itk::Point< double, NSpaceDimension >	PointType
typedef CellBase	Superclass
typedef itk::Vector< double, NSpaceDimension >	VectorType
Public Member Functions
virtual void	AddForce (const VectorType &force)
virtual void	AdvanceTimeStep (void)
virtual void	Apoptosis (void)
virtual void	ClearForce (void)
virtual const CellularAggregateBase *	GetCellularAggregate (void) const
virtual CellularAggregateBase *	GetCellularAggregate (void)
virtual ColorType	GetColor (void) const
virtual const VectorType &	GetForce (void) const
IdentifierType	GetParentIdentifier (void) const
double	GetRadius (void) const
IdentifierType	GetSelfIdentifier (void) const
virtual bool	MarkedForRemoval (void) const
virtual void	Mitosis (void)
virtual void	ReceptorsReading (void)
virtual void	SetCellularAggregate (CellularAggregateBase *)
virtual	~Cell ()
Static Public Member Functions
static Cell *	CreateEgg (void)
static unsigned int	GetDimension ()
static unsigned long	GetDivisionMaximumLatencyTime (void)
static unsigned long	GetGrowthMaximumLatencyTime (void)
static double	GetGrowthRadiusLimit (void)
static const char *	GetSpeciesName (void)
static void	Initialize (void)
static void	ResetCounter (void)
static void	SetChemoAttractantHighThreshold (double)
static void	SetChemoAttractantLowThreshold (double)
static void	SetDefaultColor (const ColorType &color)
static void	SetDivisionMaximumLatencyTime (unsigned long)
static void	SetEnergySelfRepairLevel (double)
static void	SetGrowthMaximumLatencyTime (unsigned long latency)
static void	SetGrowthRadiusIncrement (double)
static void	SetGrowthRadiusLimit (double)
static void	SetMaximumGenerationLimit (unsigned long)
static void	SetNutrientSelfRepairLevel (double)
Protected Member Functions
	Cell ()
virtual bool	CheckPointApoptosis (void)
virtual bool	CheckPointDNAReplication (void)
virtual bool	CheckPointGrowth (void)
virtual bool	CheckPointMitosis (void)
virtual void	ComputeGeneNetwork (void)
virtual void	DNAReplication (void)
virtual void	EnergyIntake (void)
virtual void	Grow (void)
void	MarkForRemoval (void)
virtual void	NutrientsIntake (void)
virtual void	SecreteProducts (void)
Protected Attributes
CellularAggregateBase *	m_Aggregate
double	m_ChemoAttractantLevel
ColorType	m_Color
CellCycleState	m_CycleState
unsigned long	m_DivisionLatencyTime
double	m_EnergyReserveLevel
VectorType	m_Force
unsigned long	m_Generation
GenomeType *	m_Genome
GenomeType *	m_GenomeCopy
unsigned long	m_GrowthLatencyTime
bool	m_MarkedForRemoval
double	m_NutrientsReserveLevel
IdentifierType	m_ParentIdentifier
double	m_Pressure
double	m_Radius
bool	m_ScheduleApoptosis
IdentifierType	m_SelfIdentifier
Static Protected Attributes
static GeneIdType	BlueGene
static GeneIdType	Caspase
static GeneIdType	Cdk2E
static double	ChemoAttractantHighThreshold
static double	ChemoAttractantLowThreshold
static unsigned long	Counter
static ColorType	DefaultColor
static double	DefaultEnergyIntake
static double	DefaultNutrientsIntake
static double	DefaultRadius
static unsigned long	DivisionMaximumLatencyTime
static double	EnergySelfRepairLevel
static GeneIdType	GreenGene
static unsigned long	GrowthMaximumLatencyTime
static double	GrowthRadiusIncrement
static double	GrowthRadiusLimit
static ColorType	HopefullColor
static unsigned long	MaximumGenerationLimit
static double	NutrientSelfRepairLevel
static GeneIdType	Pressurin
static GeneIdType	RedGene
static ColorType	StarvingColor
static ColorType	WellNourishedColor
Friends
class	CellularAggregateBase

---

Member Typedef Documentation

typedef itk::RGBPixel<float> itk::bio::CellBase::ColorType [inherited]

Definition at line 38 of file itkBioCellBase.h.

typedef GenomeType::GeneIdType itk::bio::CellBase::GeneIdType [inherited]

Definition at line 41 of file itkBioCellBase.h.

typedef itk::bio::Genome itk::bio::CellBase::GenomeType [inherited]

Definition at line 40 of file itkBioCellBase.h.

typedef unsigned long int itk::bio::CellBase::IdentifierType [inherited]

Definition at line 39 of file itkBioCellBase.h.

template<unsigned int NSpaceDimension = 3>

typedef itk::Point<double,NSpaceDimension> itk::bio::Cell< NSpaceDimension >::PointType

Definition at line 46 of file itkBioCell.h.

template<unsigned int NSpaceDimension = 3>

typedef CellBase itk::bio::Cell< NSpaceDimension >::Superclass

Definition at line 43 of file itkBioCell.h.

template<unsigned int NSpaceDimension = 3>

typedef itk::Vector<double,NSpaceDimension> itk::bio::Cell< NSpaceDimension >::VectorType

Definition at line 45 of file itkBioCell.h.

---

Member Enumeration Documentation

enum itk::bio::CellBase::CellCycleState [inherited]

Enumerator:

M
Gap1
S
Gap2
Gap0
Apop

Definition at line 51 of file itkBioCellBase.h.

---

Constructor & Destructor Documentation

template<unsigned int NSpaceDimension = 3>

virtual itk::bio::Cell< NSpaceDimension >::~Cell

(

)

[virtual]

template<unsigned int NSpaceDimension = 3>

itk::bio::Cell< NSpaceDimension >::Cell

(

)

[protected]

---

Member Function Documentation

template<unsigned int NSpaceDimension = 3>

virtual void itk::bio::Cell< NSpaceDimension >::AddForce

(

const VectorType &

force

)

[virtual]

template<unsigned int NSpaceDimension = 3>

virtual void itk::bio::Cell< NSpaceDimension >::AdvanceTimeStep

(

void

)

[virtual]

template<unsigned int NSpaceDimension = 3>

virtual void itk::bio::Cell< NSpaceDimension >::Apoptosis

(

void

)

[virtual]

Reimplemented from itk::bio::CellBase.

virtual bool itk::bio::CellBase::CheckPointApoptosis

(

void

)

[protected, virtual, inherited]

virtual bool itk::bio::CellBase::CheckPointDNAReplication

(

void

)

[protected, virtual, inherited]

virtual bool itk::bio::CellBase::CheckPointGrowth

(

void

)

[protected, virtual, inherited]

virtual bool itk::bio::CellBase::CheckPointMitosis

(

void

)

[protected, virtual, inherited]

template<unsigned int NSpaceDimension = 3>

virtual void itk::bio::Cell< NSpaceDimension >::ClearForce

(

void

)

[virtual]

virtual void itk::bio::CellBase::ComputeGeneNetwork

(

void

)

[protected, virtual, inherited]

template<unsigned int NSpaceDimension = 3>

static Cell* itk::bio::Cell< NSpaceDimension >::CreateEgg

(

void

)

[static]

virtual void itk::bio::CellBase::DNAReplication

(

void

)

[protected, virtual, inherited]

virtual void itk::bio::CellBase::EnergyIntake

(

void

)

[protected, virtual, inherited]

template<unsigned int NSpaceDimension = 3>

virtual const CellularAggregateBase* itk::bio::Cell< NSpaceDimension >::GetCellularAggregate

(

void

)

const [virtual]

template<unsigned int NSpaceDimension = 3>

virtual CellularAggregateBase* itk::bio::Cell< NSpaceDimension >::GetCellularAggregate

(

void

)

[virtual]

virtual ColorType itk::bio::CellBase::GetColor

(

void

)

const [virtual, inherited]

template<unsigned int NSpaceDimension = 3>

static unsigned int itk::bio::Cell< NSpaceDimension >::GetDimension

(

)

[inline, static]

Definition at line 68 of file itkBioCell.h.

static unsigned long itk::bio::CellBase::GetDivisionMaximumLatencyTime

(

void

)

[static, inherited]

template<unsigned int NSpaceDimension = 3>

virtual const VectorType& itk::bio::Cell< NSpaceDimension >::GetForce

(

void

)

const [virtual]

static unsigned long itk::bio::CellBase::GetGrowthMaximumLatencyTime

(

void

)

[static, inherited]

static double itk::bio::CellBase::GetGrowthRadiusLimit

(

void

)

[static, inherited]

IdentifierType itk::bio::CellBase::GetParentIdentifier

(

void

)

const [inherited]

double itk::bio::CellBase::GetRadius

(

void

)

const [inherited]

IdentifierType itk::bio::CellBase::GetSelfIdentifier

(

void

)

const [inherited]

template<unsigned int NSpaceDimension = 3>

static const char* itk::bio::Cell< NSpaceDimension >::GetSpeciesName

(

void

)

[inline, static]

Definition at line 64 of file itkBioCell.h.

virtual void itk::bio::CellBase::Grow

(

void

)

[protected, virtual, inherited]

static void itk::bio::CellBase::Initialize

(

void

)

[static, inherited]

virtual bool itk::bio::CellBase::MarkedForRemoval

(

void

)

const [virtual, inherited]

void itk::bio::CellBase::MarkForRemoval

(

void

)

[protected, inherited]

template<unsigned int NSpaceDimension = 3>

virtual void itk::bio::Cell< NSpaceDimension >::Mitosis

(

void

)

[virtual]

virtual void itk::bio::CellBase::NutrientsIntake

(

void

)

[protected, virtual, inherited]

template<unsigned int NSpaceDimension = 3>

virtual void itk::bio::Cell< NSpaceDimension >::ReceptorsReading

(

void

)

[virtual]

static void itk::bio::CellBase::ResetCounter

(

void

)

[static, inherited]

virtual void itk::bio::CellBase::SecreteProducts

(

void

)

[protected, virtual, inherited]

template<unsigned int NSpaceDimension = 3>

virtual void itk::bio::Cell< NSpaceDimension >::SetCellularAggregate

(

CellularAggregateBase *

)

[virtual]

static void itk::bio::CellBase::SetChemoAttractantHighThreshold

(

double

)

[static, inherited]

static void itk::bio::CellBase::SetChemoAttractantLowThreshold

(

double

)

[static, inherited]

static void itk::bio::CellBase::SetDefaultColor

(

const ColorType &

color

)

[static, inherited]

static void itk::bio::CellBase::SetDivisionMaximumLatencyTime

(

unsigned

long

)

[static, inherited]

static void itk::bio::CellBase::SetEnergySelfRepairLevel

(

double

)

[static, inherited]

static void itk::bio::CellBase::SetGrowthMaximumLatencyTime

(

unsigned long

latency

)

[static, inherited]

static void itk::bio::CellBase::SetGrowthRadiusIncrement

(

double

)

[static, inherited]

static void itk::bio::CellBase::SetGrowthRadiusLimit

(

double

)

[static, inherited]

static void itk::bio::CellBase::SetMaximumGenerationLimit

(

unsigned

long

)

[static, inherited]

static void itk::bio::CellBase::SetNutrientSelfRepairLevel

(

double

)

[static, inherited]

---

Friends And Related Function Documentation

template<unsigned int NSpaceDimension = 3>

friend class CellularAggregateBase [friend]

Definition at line 48 of file itkBioCell.h.

---

Member Data Documentation

GeneIdType itk::bio::CellBase::BlueGene [static, protected, inherited]

Definition at line 85 of file itkBioCellBase.h.

GeneIdType itk::bio::CellBase::Caspase [static, protected, inherited]

Definition at line 89 of file itkBioCellBase.h.

GeneIdType itk::bio::CellBase::Cdk2E [static, protected, inherited]

Definition at line 88 of file itkBioCellBase.h.

double itk::bio::CellBase::ChemoAttractantHighThreshold [static, protected, inherited]

Definition at line 112 of file itkBioCellBase.h.

double itk::bio::CellBase::ChemoAttractantLowThreshold [static, protected, inherited]

Definition at line 111 of file itkBioCellBase.h.

unsigned long itk::bio::CellBase::Counter [static, protected, inherited]

Definition at line 105 of file itkBioCellBase.h.

ColorType itk::bio::CellBase::DefaultColor [static, protected, inherited]

Definition at line 83 of file itkBioCellBase.h.

double itk::bio::CellBase::DefaultEnergyIntake [static, protected, inherited]

Definition at line 102 of file itkBioCellBase.h.

double itk::bio::CellBase::DefaultNutrientsIntake [static, protected, inherited]

Definition at line 103 of file itkBioCellBase.h.

double itk::bio::CellBase::DefaultRadius [static, protected, inherited]

Definition at line 82 of file itkBioCellBase.h.

unsigned long itk::bio::CellBase::DivisionMaximumLatencyTime [static, protected, inherited]

Definition at line 97 of file itkBioCellBase.h.

double itk::bio::CellBase::EnergySelfRepairLevel [static, protected, inherited]

Definition at line 99 of file itkBioCellBase.h.

GeneIdType itk::bio::CellBase::GreenGene [static, protected, inherited]

Definition at line 87 of file itkBioCellBase.h.

unsigned long itk::bio::CellBase::GrowthMaximumLatencyTime [static, protected, inherited]

Definition at line 96 of file itkBioCellBase.h.

double itk::bio::CellBase::GrowthRadiusIncrement [static, protected, inherited]

Definition at line 93 of file itkBioCellBase.h.

double itk::bio::CellBase::GrowthRadiusLimit [static, protected, inherited]

Definition at line 92 of file itkBioCellBase.h.

ColorType itk::bio::CellBase::HopefullColor [static, protected, inherited]

Definition at line 108 of file itkBioCellBase.h.

template<unsigned int NSpaceDimension = 3>

CellularAggregateBase* itk::bio::Cell< NSpaceDimension >::m_Aggregate [protected]

Definition at line 82 of file itkBioCell.h.

double itk::bio::CellBase::m_ChemoAttractantLevel [protected, inherited]

Definition at line 165 of file itkBioCellBase.h.

ColorType itk::bio::CellBase::m_Color [protected, inherited]

Definition at line 146 of file itkBioCellBase.h.

CellCycleState itk::bio::CellBase::m_CycleState [protected, inherited]

Definition at line 159 of file itkBioCellBase.h.

unsigned long itk::bio::CellBase::m_DivisionLatencyTime [protected, inherited]

Definition at line 162 of file itkBioCellBase.h.

double itk::bio::CellBase::m_EnergyReserveLevel [protected, inherited]

Definition at line 149 of file itkBioCellBase.h.

template<unsigned int NSpaceDimension = 3>

VectorType itk::bio::Cell< NSpaceDimension >::m_Force [protected]

Definition at line 80 of file itkBioCell.h.

unsigned long itk::bio::CellBase::m_Generation [protected, inherited]

Definition at line 157 of file itkBioCellBase.h.

GenomeType* itk::bio::CellBase::m_Genome [protected, inherited]

Definition at line 114 of file itkBioCellBase.h.

GenomeType* itk::bio::CellBase::m_GenomeCopy [protected, inherited]

Definition at line 115 of file itkBioCellBase.h.

unsigned long itk::bio::CellBase::m_GrowthLatencyTime [protected, inherited]

Definition at line 152 of file itkBioCellBase.h.

bool itk::bio::CellBase::m_MarkedForRemoval [protected, inherited]

Definition at line 161 of file itkBioCellBase.h.

double itk::bio::CellBase::m_NutrientsReserveLevel [protected, inherited]

Definition at line 150 of file itkBioCellBase.h.

IdentifierType itk::bio::CellBase::m_ParentIdentifier [protected, inherited]

Definition at line 154 of file itkBioCellBase.h.

double itk::bio::CellBase::m_Pressure [protected, inherited]

Definition at line 144 of file itkBioCellBase.h.

double itk::bio::CellBase::m_Radius [protected, inherited]

Definition at line 148 of file itkBioCellBase.h.

bool itk::bio::CellBase::m_ScheduleApoptosis [protected, inherited]

Definition at line 164 of file itkBioCellBase.h.

IdentifierType itk::bio::CellBase::m_SelfIdentifier [protected, inherited]

Definition at line 155 of file itkBioCellBase.h.

unsigned long itk::bio::CellBase::MaximumGenerationLimit [static, protected, inherited]

Definition at line 95 of file itkBioCellBase.h.

double itk::bio::CellBase::NutrientSelfRepairLevel [static, protected, inherited]

Definition at line 100 of file itkBioCellBase.h.

GeneIdType itk::bio::CellBase::Pressurin [static, protected, inherited]

Definition at line 90 of file itkBioCellBase.h.

GeneIdType itk::bio::CellBase::RedGene [static, protected, inherited]

Definition at line 86 of file itkBioCellBase.h.

ColorType itk::bio::CellBase::StarvingColor [static, protected, inherited]

Definition at line 109 of file itkBioCellBase.h.

ColorType itk::bio::CellBase::WellNourishedColor [static, protected, inherited]

Definition at line 107 of file itkBioCellBase.h.

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

• itkBioCell.h

---