#include <receptormodel.h>

Inheritance diagram for ReceptorModel:

Collaboration diagram for ReceptorModel:

Public Member Functions
	ReceptorModel (void)

	~ReceptorModel (void)

virtual void	main (void)

virtual void	process (const OutData &source, OutData &dest)

virtual void	operator() (double t, double x, double dxdt, int n)

Public Member Functions inherited from NeuronModels
	NeuronModels (void)

	NeuronModels (const string &name, const string &pluginset="", const string &author="unknown", const string &version="unknown", const string &date=__DATE__)

virtual	~NeuronModels (void)

virtual void	process (const OutData &source, OutData &dest)

virtual Options	metaData (void)

double	timeStep (void) const

void	setTimeStep (double deltat)

double	noiseD (void) const

void	setNoiseD (double noised)

double	noiseFac (void) const

void	setNoiseFac (void)

SpikingNeuron *	neuron (void) const

void	add (SpikingNeuron *model, const string &title="")

void	addModels (void)

void	addOptions (void)

void	readOptions (void)

Public Member Functions inherited from Model
	Model (const string &name, const string &pluginset="", const string &author="unknown", const string &version="unknown", const string &date=__DATE__)

virtual	~Model (void)

virtual void	notify (void)

double	signal (double t, int trace=0) const

bool	interrupt (void) const

bool	isRunning (void) const

void	push (int trace, float val)

void	next (void)

int	traces (void) const

string	traceName (int trace) const

double	deltat (int trace) const

double	time (int trace) const

float	scale (int trace) const

void	waitOnSignals (void)

double	load (void) const

virtual void	addActions (QMenu *menu, bool doxydoc)

virtual void	setName (const string &name)

Public Member Functions inherited from ConfigDialog
	ConfigDialog (const string &configident="", int configgroup=0, const string &name="", const string &author="", const string &version="", const string &date=__DATE__)

virtual	~ConfigDialog (void)

string	name (void) const

string	author (void) const

virtual void	setAuthor (const string &author)

string	version (void) const

virtual void	setVersion (const string &version)

string	date (void) const

virtual void	setDate (const string &date)

virtual void	dialogButtons (OptDialog *od)

virtual void	dialogEmptyMessage (OptDialog *od)

int	dialogSelectMask (void) const

void	setDialogSelectMask (int mask)

void	addDialogSelectMask (int mask)

int	dialogReadOnlyMask (void) const

void	setDialogReadOnlyMask (int mask)

void	addDialogReadOnlyMask (int mask)

int	dialogStyle (void) const

void	setDialogStyle (int style)

void	addDialogStyle (int style)

string	dialogCaption (void) const

void	setDialogCaption (const string &caption)

bool	dialogHeader (void) const

void	setDialogHeader (bool d)

string	headerBackgroundColor (void) const

void	setHeaderBackgroundColor (const string &color)

string	headerForegroundColor (void) const

void	setHeaderForegroundColor (const string &color)

string	headerImageFile (void) const

void	setHeaderImageFile (const string &file)

virtual void	dialogHeaderWidget (OptDialog *od)

bool	dialogHelp (void) const

void	setDialogHelp (bool d)

string	helpCaption (void) const

void	setHelpCaption (const string &caption)

string	helpPath (int inx=0) const

int	helpPathes (void) const

void	clearHelpPathes (void)

void	setHelpPath (const string &path)

void	addHelpPath (const string &path)

virtual string	helpFileName (void) const

bool	dialogOpen (void) const

bool	helpOpen (void) const

QWidget *	mainWidget (void)

virtual void	setMainWidget (QWidget *widget)

void	lock () const

void	unlock () const

bool	tryLock (int timeout=1)

QMutex *	mutex (void)

Public Member Functions inherited from ConfigClass
	ConfigClass (const string &ident, int group=0, int mode=0xffff, int selectmask=0)

	ConfigClass (const ConfigClass &C)

virtual	~ConfigClass (void)

const string &	configIdent (void) const

void	setConfigIdent (const string &ident)

int	configGroup (void) const

void	setConfigGroup (int group)

int	configMode (void) const

void	setConfigMode (int mode)

void	addConfigMode (int mode)

void	delConfigMode (int mode)

int	configSelectMask (void) const

void	setConfigSelectMask (int mask)

void	addConfig (void)

void	readConfig (void)

virtual void	readConfig (StrQueue &sq)

virtual void	saveConfig (ofstream &str)

virtual int	configSize (void) const

virtual void	config (void)

virtual void	preConfig (void)

Public Member Functions inherited from StandardTraces
	StandardTraces (void)

Protected Member Functions
double	identity (double x) const

double	box (double x) const

double	linear (double x) const

double	linearSaturated (double x) const

double	square (double x) const

double	squareSaturated (double x) const

double	linearBoltzman (double x) const

double	squareBoltzman (double x) const

virtual OptWidget *	dialogOptions (OptDialog od, string tabhotkeys=0)

Protected Member Functions inherited from NeuronModels
void	dialogModelOptions (OptDialog *od)

virtual void	dialogOptions (OptDialog *od)

Protected Member Functions inherited from ConfigDialog
void	setDialogOpen (bool open=true)

void	setHelpOpen (bool open=true)

Protected Attributes
double(ReceptorModel::*	Nonlinearity )(double) const

int	TympanumModel

double	Omega

double	TDec

double	Alpha

double	Beta

double	Imax

double	Imin

double	CutPoint

double	DI

double	DIC

double	DICC

double	Slope

double	X0

double	F0

double	Slope2

Protected Attributes inherited from NeuronModels
void(*	Integrate )(double, double , double , int, double, NeuronModels &)

double	CurrentInput

double	GMC

double	EMC

double	MVMC

double	MWMC

double	TAUMC

int	MMCInx

double	GMHC

double	EMHC

double	MVMHC

double	MWMHC

double	TAUMMHC

double	PMMHC

int	MMHCInx

double	HVMHC

double	HWMHC

double	TAUHMHC

double	PHMHC

int	HMHCInx

Protected Attributes inherited from ConfigDialog
Options	DialogOptions

Additional Inherited Members
Public Types inherited from ConfigClass
enum	Action

Public Slots inherited from ConfigDialog
virtual void	dialog (void)

virtual void	help (void)

virtual void	notifyDialog (const Options &opt)

Signals inherited from ConfigDialog
void	dialogAccepted (void)

void	dialogAction (int r)

void	dialogClosed (int r)

Static Public Member Functions inherited from ConfigClass
static void	setConfigureClasses (ConfigureClasses *cfg)

Protected Slots inherited from ConfigDialog
void	notificationFromDialog (const Parameter &p)

virtual void	dClosed (int r)

virtual void	hClosed (int r)

Static Protected Member Functions inherited from StandardTraces
static void	clearIndices (int *traceindices, int n=-1)

static void	initStandardTraces (const InList &data, int ntraces, int traceindices, const string *names, string &namelist, bool alpha=false)

static void	initStandardEventTraces (const InList &data, const EventList &events, int ntraces, int traceindices, int eventindices, const string tracenames, const string *eventnames, string &tracenamelist, string &eventnamelist, bool alpha=false)

static void	initStandardOutputs (const RELACSPlugin rp, int ntraces, int traceindices, const string names, string &namelist, bool alpha=false)

Static Protected Attributes inherited from StandardTraces
static const int	MaxTraces

Detailed Description

[Model] Spiking neuron model stimulated through an auditory transduction chain.

Author: Alexander Wolf; Jan Benda

ReceptorModel simulates the auditory transduction chain of Locusta migratoria. It is designed to work with RELACS in the dry mode (relacs -3) so new repros can be tested for different settings. The plugin is based on a biophysical model that describes the transformation of the sound stimulus in a chain of three distinct steps: 1. the tympanum; 2. mechano-electrical transduction; 3. spike generator.

For each of the three steps, the plugin provides several options for the user to adapt to his/her needs and the hardware restrictions. Additionally, the user can chose between between several integration algorithms. The following options can be selected (in order of increasing complexity):

Tympanum

None: No modification of the stimulus
Scaling: Adjusts the stimulus strength according to tuning curve
Oscillator: Model as damped harmonic oscillator

Mechano-Electrical Transduction:

None: No modification of the tympanum output
Linear: Absolut value of the tympanum output
Linear saturated: Absolut value up to saturation point
Box: Two Heavyside functions
Square: Square of the tympanum output
Square saturated: Square value up to saturation point
Linear Boltzman: Superposition of two Boltzman functions with linear dependency in exponent
Square Boltzman: One Boltzman function with quadratic dependency in exponent

Spike Generators:

Stimulus: No modification of previous function
FitzhughNagumo: Simplified abstract neuron model with 2 differential equations.
MorrisLecar: Simplified neuron model based on ion channels with 2 differential equations.
WangAdapt: Neuron Model with adaptation currents with 5 differential equations.

Integrators:

Euler
Midpoint
Runge-Kutta 4th order

Options

The following options are supported (brief description of each option with default values and data type):

Transduction chain
tymp=Scaling: Tympanum model (string)
freq=5kHz: Eigenfrequency (number)
tdec=0.154ms: Decay constant (number)
nl=Square saturated: Static nonlinearity (string)
Spike generator
spikemodel=Stimulus: Spike model (string)
noise=0: Standard deviation of current noise (number)
deltat=0.005ms: Delta t (number)
integrator=Euler: Method of integration (string)
Square = ax^2+imin, a=(imax-imin)/cut^2
Square saturated = imax, for |x|>=cut
Linear = b|x|+imin, b=(imax-imin)/cut
Linear saturated = imax, for |x|>=cut
Box = imin, for |x|<cut, = imax else
None = ax, a=(imax-imin)/cut
imax=60muA/cm^2: Maximum current (number)
imin=0muA/cm^2: Minimum current (zero point current) (number)
cut=0.02mPa: Amplitude of tympanum where imax is reached (number)
Boltzmann, (imax/(1-f_0))*(1/(1+exp[-slope*(x-x0)])+1/(1+exp[slope*(x+x0)])-f_0)+imin
slope=3000mPa^-1: Slope of Boltzmann (number)
matchslope=true: Set slope of Boltzmann to match square (boolean)
x0=0.01mPa: 1/2 of Imax-Imin is reached (number)
Boltzmann, 2(imax-imin)(1/(1+exp[-slope2*x^2])-1/2)+imin
slope2=6e+05mPa^-2: Slope of square Boltzmann (number)
matchslope2=true: Set slope of square Boltzmann to match square (boolean)
Many more options for spike generators.