biophysics - Recent changes [en]

Coordinate systems

Lof — Fri, 28 Aug 2026 12:44:05 GMT

consistency check

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	===azimuth===		===azimuth===
	* Azimuth is the angle with the FV-plane.		* Azimuth is the angle with the FV-plane.
			* If d_FV is the distance to the plane and R is the distance to a point from the center, then
			<pre>
			Azimuth = arcsin(d_FV/R).
			</pre>
	* pi/2 <= azimuth <= pi/2 (or -90° <= azimuth <= 90°)		* pi/2 <= azimuth <= pi/2 (or -90° <= azimuth <= 90°)

	===elevation===		===elevation===
	* Elevation is the angle with the RF-plane		* Elevation is the angle with the RF-plane
			* If d_RF is the distance to the plane and R is the distance to a point from the center, then Elevation = arcsin(d_RF/R).
	* pi/2 <= elevation<= pi/2 (or -90° <= elevation <= 90°)		* pi/2 <= elevation<= pi/2 (or -90° <= elevation <= 90°)

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	azimuth + elevation <= pi (or azimuth_deg + elevation_deg <= 90°)		azimuth + elevation <= pi (or azimuth_deg + elevation_deg <= 90°)
	</pre>		</pre>

			*When azimuth_deg + elevation_deg < 90° the circles have two intersections.
			*When azimuth_deg + elevation_deg = 90° the circles have one intersection.
			*When azimuth_deg + elevation_deg > 90° the circles have zero intersections.

	===Transforming double polar to HVF coordinates===		===Transforming double polar to HVF coordinates===
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	F = hemisphere * sqrt(radius^2 - H^2 - V^2)		F = hemisphere * sqrt(radius^2 - H^2 - V^2)
	</pre>		</pre>
			Where radius is the distance to the center and H, V and F are the horizontal, vertical and frontal distances in cartesian coordinates.

	===Transforming Cartesian to double polar coordinates===		===Transforming Cartesian to double polar coordinates===

EXP programs

Lof — Thu, 27 Aug 2026 08:44:35 GMT

Lab program example

← Older revision		Revision as of 08:44, 27 August 2026
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	==EXP framework==		==EXP framework==

	The EXP framework consists of over 200 files and is written in the Object Oriented Programming (OOP) paradigm.		The EXP framework consists of over 200 files and is written in the Object Oriented Programming (OOP) paradigm by Ruurd Lof.

	The main classes in the EXP framework are:		The main classes in the EXP framework are:

	~~EXP_programParameters~~		EXP_environment
	~~EXP_hardwareSystems~~		EXP_hardwareSystem
	EXP_experiment		EXP_experiment
	EXP_recordingsHandler		EXP_recordingsHandler
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	*All programs use the same GUI that is always responsive and displays sounds, sound locations, led locations and acquisition results for every trial.		*All programs use the same GUI that is always responsive and displays sounds, sound locations, led locations and acquisition results for every trial.

	*~~In the GUI you select an~~ .exp file specifies the whole experiment.		*A .exp file specifies the whole experiment.

	*The program outputs a .mat file for every trial (and block) with a struct called 'trialInfo'.		*The program outputs a .mat file for every trial (and block) with a struct called 'trialInfo'.
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	An example of a Lab program is the TestLabProgram. All programs have the same basic structure:		An example of a Lab program is the TestLabProgram. All programs have the same basic structure:

	A few objects (TestLab classes are starting with TL_) are created in a fixed order and linked by passing references to ~~the objects~~.		A few objects (TestLab classes are starting with TL_) are created in a fixed order and linked by passing references to each other.

	~~programPar~~ = ~~TL_programParameters~~;		environment = TL_environment;
	~~hardwareSystems~~ = TL_hardwareSystems(~~programPar~~);		hardware = TL_hardwareSystems(environment);
	experiment = TL_experiment(~~programPar~~);		experiment = TL_experiment(environment, hardware);
	~~trialRecordings~~ = TL_recordingsHandler(~~programPar~~, experiment~~, hardwareSystems~~);		recordings = TL_recordingsHandler(environment, experiment);
	player = TL_experimentPlayer(~~hardwareSystems, trialRecordings~~, ~~programPar~~, experiment);		player = TL_experimentPlayer(hardware, recordings, experiment);
	guiHandler = TL_guiHandler(player, ~~programPar~~, experiment, ~~hardwareSystems~~);		guiHandler = TL_guiHandler(player, environment, experiment, hardware);

	At last a GUI is launched with a link to the guihandler object.		At last a GUI is launched with a link to the guihandler object.

	TL_Gui(guiHandler);		TL_Gui(guiHandler);

Experimental Software

Lof — Thu, 27 Aug 2026 08:37:18 GMT

← Older revision		Revision as of 08:37, 27 August 2026
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	==EXP programs==		==EXP programs==
	*[[EXP programs]] are MATLAB programs for biophysics labs with an Tucker Davis RZ6 device.		*[[EXP programs]] are MATLAB programs for biophysics labs with a Tucker Davis RZ6 device.

	==BIOX==		==BIOX==

Main Page

Lof — Thu, 27 Aug 2026 08:32:31 GMT

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	*[[Projects]]		*[[Projects]]

	*[[Meetings]]

	*[[How to\|How to....?]]		*[[How to\|How to....?]]

Meetings

Lof — Thu, 27 Aug 2026 08:31:49 GMT

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	[[Biophysics Workgroup]]: Organizer Ignacio Calderon de Palma		[[Biophysics Workgroup]]: Organizer Ignacio Calderon de Palma

			No meetings scheduled