Open Access Original article

GraspJ: an open source, real-time analysis package for super-resolution imaging

Norman Brede12 and Melike Lakadamyali2*

Author Affiliations

1 Department of Physics and Astronomy, University of Heidelberg, Heidelberg, Germany

2 ICFO-Institut de Ciències Fotòniques, Mediterranean Technology Park, Castelldefels (Barcelona), 08860, Spain

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Optical Nanoscopy 2012, 1:11  doi:10.1186/2192-2853-1-11

Published: 5 December 2012

Abstract

We present an open source, real-time data analysis and rendering tool for super-resolution imaging techniques that are based on single molecule detection and localization (e.g. stochastic optical reconstruction microscopy - STORM and photoactivation localization microscopy – PALM). The recent availability of commercial STORM and PALM microscopes has made these techniques accessible to a wide range of researchers. However, the availability of high speed data analysis and rendering software lags behind, requiring researchers to develop their own analysis platforms or rely on commercial ones. We implemented GraspJ (GPU-Run Analysis for STORM and PALM), an ImageJ plug-in with a convenient user interface, that allows high accuracy localization of single molecules as well as processing and rendering of high resolution images in real-time. GraspJ includes several features such as drift correction, multi-color, 3D analysis/rendering, and is compatible with a large range of data acquisition software. In addition, it allows easy interfacing with other image processing tools available with ImageJ. Overall we believe that GraspJ will be a valuable tool for the super-resolution imaging field.

Keywords:
STORM; PALM; Maximum likelihood; GPU