DefaultFluorophore¶

public class DefaultFluorophore extends AbstractEmitter implements Fluorophore ¶

A general fluorescent molecule which emits light.

Author:	Marcel Stefko

Constructors¶

public DefaultFluorophore(Camera camera, double signal, StateSystem state_system, int start_state, double x, double y)¶

Initialize fluorophore and calculate its pattern on camera

Parameters:	camera – Camera used for calculating diffraction pattern signal – No of photons per frame. state_system – Internal state system for this fluorophore start_state – Initial state number x – x-position in pixels y – y-position in pixels

public DefaultFluorophore(PSFBuilder psfBuilder, double signal, StateSystem state_system, int start_state, double x, double y, double z)¶

Initialize fluorophore and calculate its pattern on camera

Parameters:	psfBuilder – The Builder for calculating microscope PSFs. signal – Number of photons per frame. state_system – Internal state system for this fluorophore start_state – Initial state number x – x-position in pixels y – y-position in pixels z – z-position in pixels

public boolean isBleached()¶

Informs if this emitter switched into the irreversible bleached state.

Returns:	boolean, true if emitter is bleached

public boolean isOn()¶

Returns the current state of the emitter (on or off), but does not inform if this emitter is also bleached!

Returns:	true-emitter is on, false-emitter is off

protected final double nextExponential(double mean)¶

Sample an random number from an exponential distribution

Parameters:	mean – mean of the distribution
Returns:	random number from this distribution

public void recalculateLifetimes(double laserPower)¶

Recalculates the lifetimes of this emitter based on current laser power.

Parameters:	laserPower – current laser power