Synthetic data

For testing purposes, it can be helpful to generate synthetic data. PYMEVisualize lets users generate synthetic data using a simulated worm-like chain model (with the right settings this can produce reasonable analogues of a wide range of filamenteous structures from microtubules to tightly folded DNA), from an image, or from a text file containing a list of coordinates. First select Extras‣Synthetic Data‣Configure and choose the point generating source and set properties associated with the source, as shown in Fig. 14 a. Then select Extras‣Synthetic Data‣Generate fluorophore positions and events, and a simulated set of localization events is generated, as shown in Fig. 14 b. This data can then be analyzed in the same way that real data would be.

To simulate additional localizations from the same set of points, but using different simulation parameters, edit the properties as in Fig. 14 a and then select Extras‣Synthetic Data‣Generate events.


Fig. 14 Generation of synthetic data. (a) Dialog box that appears after selecting Extras‣Synthetic Data‣Configure. (b) Example synthetic worm-like chain created using parameters from dialog box in a.