rapidSTORM
The rapidSTORM project is an open source evaluation tool that provides fast and highly configurable data processing for single-molecule localization microscopy such as dSTORM. It provides both two-dimensional and three-dimensional, multi-color data analysis as well as a wide range of filtering and image generation capabilities. The general operation of rapidSTORM is described in this article.
rapidSTORM is currently available in two versions: rapidSTORM 2 is the current stable branch, where only outstanding bugs are fixed, while rapidSTORM 3 is the unstable development branch with an improved user interface and simplified technical deployment.
You can track announcements, news and new releases for rapidSTORM by subscribing to the rapidstorm-announce mailing list. This list is very low volume (typically less than one mail per month) and read-only. Your questions, feedback, and discussions about rapidSTORM are very welcome on the rapidstorm-discuss list.
| Feature | rapidSTORM 1 | rapidSTORM 2/3 |
| Graphical user interface | x | x |
| Command line interface | x | x |
| Easy scriptability and testability through simparm framework | x | x |
| Reading Andor SIF files | x | x |
| Reading and writing TIFF files | x | x |
| Direct connection to Andor cameras | x | x |
| Pseudorandom input data simulation with true Besselian PSFs | x | x |
| Input simulation for 3D PSFs | x | |
| Least-squares fitting | x | x |
| Data analysis in seconds | x | x |
| Modular, easily extensible architecture | x | x |
| Feature | rapidSTORM 1 | rapidSTORM 2/3 |
| Least-squares fitting | x | x |
| MLE fitting | x | |
| 2D processing with known PSF | x | x |
| 2D fitting with per-spot PSF width | x | x |
| Estimation of PSF from input data | x | x |
| Estimation of 3D PSF from input data | x | x |
| 3D using astigmatism | x | |
| 3D using biplane | x | |
| Multi-color and multi-plane support | x | |
| Two-kernel analysis for multi-spot events | x | x |
| Feature | rapidSTORM 1 | rapidSTORM 2/3 |
| Online result view during analysis | x | x |
| High & adaptable image contrast through WHN | x | x |
| Time-resolved images | x | x |
| Can create time-lapse movies | x | x |
| Free selection of coordinate and hue axes in image generation | x | |
| Online filtering of results during analysis | x | x |
| Advanced result filtering using arithmetic expressions | x | |
| Easy linear drift correction | x | x |
| Joining multiple time-consecutive localizations by Kalman tracking | x | x |
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The rapidSTORM manual is available online in HTML format or PDF format.
We are grateful for any comments and bug reports on the rapidSTORM software and strive for active development of the software. Please report your bugs and comments to the bug tracking system. The rapidSTORM framework is also highly extensible and an excellent starting position for developing and testing new algorithms for super-resolution microscopy; please contact Steve Wolter if you are interested in such collaboration.
