STORM simulator

The STORM simulator can be accessed through the SPARTAN software in the MultiColorSPR repository. A simplified version is provided with the script simulate_particles_fromGT_1C.mat. The description below can also be found in the SPARTAN wiki.

Note that this simple simulator generates SMLM datasets using calibrated kinetics taken from single-dye measurements as described in Analyze dye photophysics. No tiff stacks are generated.

For more complex simulations, please see other packages such as VirtualSMLM or SuReSim

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We provide a simple SMLM particle simulator that generates localization maps from ground truth models. The folder SMLM simulator contains all required files as well as a ground truth example. The simulator populates each simulated label with localizations according to measured distributions for photon count, localization precision, as well as on- and off-time

Select STORM Simulator from the SPARTAN menu.

1. Load the ground truth. X,Y,Z coordinates (nm) in CSV format.
2. Select the labelling efficiency, the number of noise molecules and press Initialize.
3. Preview will show a randomly selected particle according from the initialized particle library.

4. Select the number of particles to be simulated as well as the number of frames.
5. Start Simulation will start the simulator. Depending on the size of the structures (i.e. the number of simulated molecules) this step will take some time. The progress is displayed as a progress bar.
6. Once the simulation finishes, you can look at the result by pushing View Result.
7. If the results are satisfying, save the particles.