ThunderSTORM: a comprehensive ImageJ plug-in for PALM and STORM data analysis and super-resolution imaging

Bioinformatics. 2014 Aug 15;30(16):2389-90. doi: 10.1093/bioinformatics/btu202. Epub 2014 Apr 25.


ThunderSTORM is an open-source, interactive and modular plug-in for ImageJ designed for automated processing, analysis and visualization of data acquired by single-molecule localization microscopy methods such as photo-activated localization microscopy and stochastic optical reconstruction microscopy. ThunderSTORM offers an extensive collection of processing and post-processing methods so that users can easily adapt the process of analysis to their data. ThunderSTORM also offers a set of tools for creation of simulated data and quantitative performance evaluation of localization algorithms using Monte Carlo simulations.

Availability and implementation: ThunderSTORM and the online documentation are both freely accessible at

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Computer Graphics*
  • Image Processing, Computer-Assisted / methods*
  • Microscopy / methods*
  • Microscopy, Fluorescence / methods
  • Monte Carlo Method
  • Software*