pysted.base.Microscope

class pysted.base.Microscope(excitation, sted, detector, objective, fluo, load_cache=False, verbose=False)

This class implements a microscopy setup described by an excitation beam, a STED (depletion) beam, a detector, some fluorescence molecules, and the parameters of the objective.

Parameters:

• excitation – A GaussianBeam object representing the excitation laser beam.

• sted – A DonutBeam object representing the STED laser beam.

• detector – A Detector object describing the microscope detector.

• objective – A Objective object describing the microscope objective.

• fluo – A Fluorescence object describing the fluorescence molecules to be used.

• load_cache – A bool which determines whether or not the microscope’s lasers will be generated from scratch (load_cache=False) or if they will be loaded from the previous save (load_cache=True). Generating the lasers from scratch can take a long time (takes longer as the pixel_size decreases), so loading the cache can save time when doing multiple experiments using the same pixel_size.

Microscope.add_to_pixel_bank(n_pixels_per_tstep)	Adds the residual pixels to the pixel bank
Microscope.cache(datamap_pixelsize[, save_cache])	Compute and cache the excitation and STED intensities, and the fluorescence PSF.
Microscope.clear_cache()	Empty the cache.
Microscope.empty_pixel_bank()	Empties the pixel bank
Microscope.get_effective(datamap_pixelsize, ...)	Computes the effective point spread function.
Microscope.get_signal_and_bleach(datamap, ...)	Acquires the signal and bleaches simultaneously.
Microscope.is_cached(datamap_pixelsize)	Indicate the presence of a cache entry for the given pixel size.
Microscope.take_from_pixel_bank()	Verifies the amount stored in the pixel_bank, return the integer part if greater or equal to 1