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Biomedical Optics Express

Biomedical Optics Express

  • Editor: Joseph A. Izatt
  • Vol. 5, Iss. 3 — Mar. 1, 2014
  • pp: 778–787

TestSTORM: Simulator for optimizing sample labeling and image acquisition in localization based super-resolution microscopy

József Sinkó, Róbert Kákonyi, Eric Rees, Daniel Metcalf, Alex E. Knight, Clemens F. Kaminski, Gábor Szabó, and Miklós Erdélyi  »View Author Affiliations

Biomedical Optics Express, Vol. 5, Issue 3, pp. 778-787 (2014)

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Localization-based super-resolution microscopy image quality depends on several factors such as dye choice and labeling strategy, microscope quality and user-defined parameters such as frame rate and number as well as the image processing algorithm. Experimental optimization of these parameters can be time-consuming and expensive so we present TestSTORM, a simulator that can be used to optimize these steps. TestSTORM users can select from among four different structures with specific patterns, dye and acquisition parameters. Example results are shown and the results of the vesicle pattern are compared with experimental data. Moreover, image stacks can be generated for further evaluation using localization algorithms, offering a tool for further software developments.

© 2014 Optical Society of America

OCIS Codes
(100.6640) Image processing : Superresolution
(180.2520) Microscopy : Fluorescence microscopy

ToC Category:

Original Manuscript: December 3, 2013
Revised Manuscript: February 7, 2014
Manuscript Accepted: February 11, 2014
Published: February 18, 2014

József Sinkó, Róbert Kákonyi, Eric Rees, Daniel Metcalf, Alex E. Knight, Clemens F. Kaminski, Gábor Szabó, and Miklós Erdélyi, "TestSTORM: Simulator for optimizing sample labeling and image acquisition in localization based super-resolution microscopy," Biomed. Opt. Express 5, 778-787 (2014)

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