#include <CellProperties.hpp>

Collaboration diagram for CellProperties:

Public Member Functions
	CellProperties (std::vector< double > &rVoltage, std::vector< double > &rTime, double threshold=-30.0)
std::vector< double >	GetMaxUpstrokeVelocities ()
double	GetLastMaxUpstrokeVelocity ()
double	GetLastCompleteMaxUpstrokeVelocity ()
std::vector< double >	GetTimesAtMaxUpstrokeVelocity ()
double	GetTimeAtLastMaxUpstrokeVelocity ()
double	GetTimeAtLastCompleteMaxUpstrokeVelocity ()
std::vector< double >	GetCycleLengths ()
std::vector< double >	GetPeakPotentials ()
double	GetLastPeakPotential ()
double	GetLastCompletePeakPotential ()
std::vector< double >	GetRestingPotentials ()
std::vector< double >	GetAllActionPotentialDurations (const double percentage)
double	GetLastActionPotentialDuration (const double percentage)
std::vector< double >	GetActionPotentialAmplitudes ()
std::vector< unsigned >	GetNumberOfAboveThresholdDepolarisationsForAllAps ()
unsigned	GetNumberOfAboveThresholdDepolarisationsForLastAp ()
Private Member Functions
void	CalculateProperties ()
std::vector< double >	CalculateActionPotentialDurations (const double percentage)
void	CheckExceededThreshold (void)
void	CheckReturnedToThreshold (void)
Private Attributes
std::vector< double > &	mrVoltage
std::vector< double > &	mrTime
bool	mUnfinishedActionPotentials
double	mThreshold
std::vector< double >	mOnsets
std::vector< double >	mRestingValues
std::vector< double >	mCycleLengths
std::vector< double >	mPeakValues
std::vector< double >	mMaxUpstrokeVelocities
std::vector< double >	mTimesAtMaxUpstrokeVelocity
std::vector< unsigned >	mCounterOfPlateauDepolarisations

Detailed Description

Class to calculate various physiological properties from the results of a cardiac simulation.

It will calculate for a single cell: All the Action potential durations (at any percentage) Max. upstroke velocity for each AP Action potential amplitudes for each AP Peak & Resting membrane potentials for all AP Cycle lengths (time between onset of APs)

Definition at line 55 of file CellProperties.hpp.

Constructor & Destructor Documentation

CellProperties::CellProperties	(	std::vector< double > &	rVoltage,
		std::vector< double > &	rTime,
		double	threshold = `-30.0`
	)		`[inline]`

Constructor sets the data and calls CalculateProperties

Parameters:

&rVoltage	a reference to the vector of voltages
&rTime	a reference to the vector of times
threshold	is the threshold for determining if an AP started, defaults to -30

Definition at line 133 of file CellProperties.hpp.

References CalculateProperties().

Member Function Documentation

std::vector< double > CellProperties::CalculateActionPotentialDurations ( const double percentage ) [private]

Actually calculate APD.

target voltage = resting +'percentage'*(amplitude-resting).

APD is taken to be the time from when the target voltage is crossed upwards to the time voltage crosses the target voltage downwards.

Parameters:

percentage The percentage of the amplitude to calculate for.

Returns:: a vector containing the APDs.

Definition at line 210 of file CellProperties.cpp.

References CheckExceededThreshold(), EXCEPTION, mPeakValues, mRestingValues, mrTime, and mrVoltage.

Referenced by GetAllActionPotentialDurations(), and GetLastActionPotentialDuration().

void CellProperties::CalculateProperties ( ) [private]

Calculate all the cacheable values.

Todo:: #1495 a horrible magic number but seems to work OK.

Definition at line 46 of file CellProperties.cpp.

References EXCEPTION, mCounterOfPlateauDepolarisations, mCycleLengths, mMaxUpstrokeVelocities, mOnsets, mPeakValues, mRestingValues, mrTime, mrVoltage, mThreshold, mTimesAtMaxUpstrokeVelocity, and mUnfinishedActionPotentials.

Referenced by CellProperties().

void CellProperties::CheckExceededThreshold ( void ) [private]

Throw an exception if we are asking for information which is not present, because upstroke was never detected (the voltage trace never exceeded the threshold voltage).

Definition at line 281 of file CellProperties.cpp.

References EXCEPTION, and mOnsets.

Referenced by CalculateActionPotentialDurations(), GetActionPotentialAmplitudes(), and GetRestingPotentials().

void CellProperties::CheckReturnedToThreshold ( void ) [private]

Throw an exception if we are asking for information which is not present, because an AP was never detected (the voltage trace never exceeded the threshold voltage and then returned past it).

Definition at line 292 of file CellProperties.cpp.

References EXCEPTION, and mMaxUpstrokeVelocities.

Referenced by GetLastCompleteMaxUpstrokeVelocity(), GetLastCompletePeakPotential(), GetLastMaxUpstrokeVelocity(), GetLastPeakPotential(), GetMaxUpstrokeVelocities(), GetPeakPotentials(), GetTimeAtLastCompleteMaxUpstrokeVelocity(), GetTimeAtLastMaxUpstrokeVelocity(), and GetTimesAtMaxUpstrokeVelocity().

std::vector< double > CellProperties::GetActionPotentialAmplitudes ( )

Returns the amplitude of all the action potentials calculated.

Returns:: a vector containing all the AP amplitudes

Definition at line 269 of file CellProperties.cpp.

References CheckExceededThreshold(), mPeakValues, and mRestingValues.

std::vector< double > CellProperties::GetAllActionPotentialDurations ( const double percentage )

Returns all the action potentials durations

Parameters:

percentage is the repolarisation percentage that the APD will be calculated for. e.g. percentage = 90 for APD90.

Returns:: a vector containing all the APDs

Definition at line 335 of file CellProperties.cpp.

References CalculateActionPotentialDurations().

Referenced by PropagationPropertiesCalculator::CalculateAllActionPotentialDurations(), and PropagationPropertiesCalculator::CalculateAllActionPotentialDurationsForNodeRange().

std::vector< double > CellProperties::GetCycleLengths ( )

Returns the cycle lengths for all APs.

Returns:: a vector containing the cycle lengths for all APs

Definition at line 306 of file CellProperties.cpp.

References mCycleLengths.

double CellProperties::GetLastActionPotentialDuration ( const double percentage )

Returns the amplitude of the last action potential generated. Throws an exception if no AP is generated.

Parameters:

percentage is the repolarisation percentage that the APD will be calculated for. e.g. percentage = 90 for APD90.

Returns:: the APD of the last AP

Definition at line 423 of file CellProperties.cpp.

References CalculateActionPotentialDurations().

Referenced by PropagationPropertiesCalculator::CalculateActionPotentialDuration().

double CellProperties::GetLastCompleteMaxUpstrokeVelocity ( )

Returns the maximum upstroke velocity for the last complete AP. If the threshold is never crossed, it throws an exception.

Returns:: the upstroke velocity of the last complete AP

Definition at line 379 of file CellProperties.cpp.

References CheckReturnedToThreshold(), EXCEPTION, mMaxUpstrokeVelocities, and mUnfinishedActionPotentials.

double CellProperties::GetLastCompletePeakPotential ( )

Returns the last complete AP's peak potential.

Returns:: last peak potential V_max

Definition at line 354 of file CellProperties.cpp.

References CheckReturnedToThreshold(), EXCEPTION, mPeakValues, and mUnfinishedActionPotentials.

double CellProperties::GetLastMaxUpstrokeVelocity ( )

Returns the maximum upstroke velocity for the last AP. If only one incomplete AP is generated, it returns the maximal upstroke so far. If the threshold is never crossed, it throws an exception.

Returns:: the upstroke velocity of the last AP

Definition at line 373 of file CellProperties.cpp.

References CheckReturnedToThreshold(), and mMaxUpstrokeVelocities.

Referenced by PropagationPropertiesCalculator::CalculateMaximumUpstrokeVelocity().

double CellProperties::GetLastPeakPotential ( )

Returns the last peak potential.

Returns:: last peak potential V_max

Definition at line 348 of file CellProperties.cpp.

References CheckReturnedToThreshold(), and mPeakValues.

std::vector< double > CellProperties::GetMaxUpstrokeVelocities ( )

Returns the maximum upstroke velocity for all APs.

Returns:: a vector containing the maximum upstroke velocity for all APs

Definition at line 323 of file CellProperties.cpp.

References CheckReturnedToThreshold(), and mMaxUpstrokeVelocities.

Referenced by PropagationPropertiesCalculator::CalculateAllMaximumUpstrokeVelocities(), and PropagationPropertiesCalculator::CalculateConductionVelocity().

std::vector< unsigned > CellProperties::GetNumberOfAboveThresholdDepolarisationsForAllAps ( )

Returns:: a vector containing the number of above-threshold depolarisations for each Ap.

Definition at line 340 of file CellProperties.cpp.

References mCounterOfPlateauDepolarisations.

Referenced by PropagationPropertiesCalculator::CalculateAllAboveThresholdDepolarisations().

unsigned CellProperties::GetNumberOfAboveThresholdDepolarisationsForLastAp ( )

Returns:: the number of above-threshold depolarisations for the last Ap.

Definition at line 430 of file CellProperties.cpp.

References mCounterOfPlateauDepolarisations.

Referenced by PropagationPropertiesCalculator::CalculateAboveThresholdDepolarisationsForLastAp().

std::vector< double > CellProperties::GetPeakPotentials ( )

Returns the peak potentials for all APs.

Returns:: a vector containing the peak potentials for all APs

Definition at line 317 of file CellProperties.cpp.

References CheckReturnedToThreshold(), and mPeakValues.

std::vector< double > CellProperties::GetRestingPotentials ( )

Returns the resting potentials before each AP. These are calculated as the point where the derivative of the potential is lowest, i.e. when the profile is flattest in between two APs.

Returns:: a vector containing the resting potentials for all APs

Definition at line 311 of file CellProperties.cpp.

References CheckExceededThreshold(), and mRestingValues.

double CellProperties::GetTimeAtLastCompleteMaxUpstrokeVelocity ( )

Returns the time at which the maximum upstroke velocity for the last complete AP occurred. If the threshold is never crossed, it throws an exception.

Returns:: the time of the upstroke velocity of the last full AP

Definition at line 404 of file CellProperties.cpp.

References CheckReturnedToThreshold(), EXCEPTION, mTimesAtMaxUpstrokeVelocity, and mUnfinishedActionPotentials.

double CellProperties::GetTimeAtLastMaxUpstrokeVelocity ( )

Returns the time at which the maximum upstroke velocity for the last AP occurred. If only one incomplete AP is generated, it returns the time of the maximal upstroke so far. If the threshold is never crossed, it throws an exception.

Returns:: the time of the upstroke velocity of the last AP

Definition at line 398 of file CellProperties.cpp.

References CheckReturnedToThreshold(), and mTimesAtMaxUpstrokeVelocity.

Referenced by PropagationPropertiesCalculator::CalculateConductionVelocity().

std::vector< double > CellProperties::GetTimesAtMaxUpstrokeVelocity ( )

Returns the time at which the maximum upstroke velocity occurred for all APs.

Returns:: a vector containing the times of maximum upstroke velocity for all APs

Definition at line 329 of file CellProperties.cpp.

References CheckReturnedToThreshold(), and mTimesAtMaxUpstrokeVelocity.

Referenced by PropagationPropertiesCalculator::CalculateAllConductionVelocities(), PropagationPropertiesCalculator::CalculateConductionVelocity(), and PropagationPropertiesCalculator::CalculateUpstrokeTimes().

Member Data Documentation

std::vector<unsigned> CellProperties::mCounterOfPlateauDepolarisations [private]

Cached vector containing the number of recorded depolarisations while above threshold

Definition at line 89 of file CellProperties.hpp.

Referenced by CalculateProperties(), GetNumberOfAboveThresholdDepolarisationsForAllAps(), and GetNumberOfAboveThresholdDepolarisationsForLastAp().

std::vector<double> CellProperties::mCycleLengths [private]

Cached vector containing AP cycle lengths properties

Definition at line 81 of file CellProperties.hpp.

Referenced by CalculateProperties(), and GetCycleLengths().

std::vector<double> CellProperties::mMaxUpstrokeVelocities [private]

Cached vector containing AP upstroke properties

Definition at line 85 of file CellProperties.hpp.

Referenced by CalculateProperties(), CheckReturnedToThreshold(), GetLastCompleteMaxUpstrokeVelocity(), GetLastMaxUpstrokeVelocity(), and GetMaxUpstrokeVelocities().

std::vector<double> CellProperties::mOnsets [private]

Cached vector containing AP onset properties

Definition at line 77 of file CellProperties.hpp.

Referenced by CalculateProperties(), and CheckExceededThreshold().

std::vector<double> CellProperties::mPeakValues [private]

Cached vector containing AP peak properties

Definition at line 83 of file CellProperties.hpp.

Referenced by CalculateActionPotentialDurations(), CalculateProperties(), GetActionPotentialAmplitudes(), GetLastCompletePeakPotential(), GetLastPeakPotential(), and GetPeakPotentials().

std::vector<double> CellProperties::mRestingValues [private]

Cached vector containing AP resting properties

Definition at line 79 of file CellProperties.hpp.

Referenced by CalculateActionPotentialDurations(), CalculateProperties(), GetActionPotentialAmplitudes(), and GetRestingPotentials().

std::vector<double>& CellProperties::mrTime [private]

The simulation results to process, time

Definition at line 61 of file CellProperties.hpp.

Referenced by CalculateActionPotentialDurations(), and CalculateProperties().

std::vector<double>& CellProperties::mrVoltage [private]

The simulation results to process, voltage

Definition at line 59 of file CellProperties.hpp.

Referenced by CalculateActionPotentialDurations(), and CalculateProperties().

double CellProperties::mThreshold [private]

Threshold for determining what counts as an action potential. This is a value part way between the min & max potential, to avoid problems due to 'notches' in an action potential.

Definition at line 74 of file CellProperties.hpp.

Referenced by CalculateProperties().

std::vector<double> CellProperties::mTimesAtMaxUpstrokeVelocity [private]

Cached vector containing the times of AP upstrokes

Definition at line 87 of file CellProperties.hpp.

Referenced by CalculateProperties(), GetTimeAtLastCompleteMaxUpstrokeVelocity(), GetTimeAtLastMaxUpstrokeVelocity(), and GetTimesAtMaxUpstrokeVelocity().

bool CellProperties::mUnfinishedActionPotentials [private]

Whether we have any unfinished action potentials i.e. the trace ends ABOVE_THRESHOLD.

Definition at line 67 of file CellProperties.hpp.

Referenced by CalculateProperties(), GetLastCompleteMaxUpstrokeVelocity(), GetLastCompletePeakPotential(), and GetTimeAtLastCompleteMaxUpstrokeVelocity().

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

heart/src/postprocessing/CellProperties.hpp
heart/src/postprocessing/CellProperties.cpp

Public Member Functions

Private Member Functions

Private Attributes

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation