MusiJ: an ImageJ plugin for video nanoscopy

Sebastian Acuña; Florian Ströhl; Ida S Opstad; Balpreet S Ahluwalia; Krishna Agarwal

doi:10.1364/BOE.382735

MusiJ: an ImageJ plugin for video nanoscopy

Biomed Opt Express. 2020 Apr 14;11(5):2548-2559. doi: 10.1364/BOE.382735. eCollection 2020 May 1.

Authors

Sebastian Acuña^{1

2}, Florian Ströhl^{1

2}, Ida S Opstad¹, Balpreet S Ahluwalia^{1

3}, Krishna Agarwal¹

Affiliations

¹ Department of Physics and Technology, UiT The Arctic University of Norway, NO-9037 Tromsø, Norway.
² These authors contributed equally.
³ Department of Clinical Science, Intervention and Technology, Karolinska Insitute, 17177 Stockholm, Sweden.

Abstract

We present an open-source implementation of the fluctuation-based nanoscopy method MUSICAL for ImageJ. This implementation improves the algorithm's computational efficiency and takes advantage of multi-threading to provide orders of magnitude faster reconstructions than the original MATLAB implementation. In addition, the plugin is capable of generating super-resolution videos from large stacks of time-lapse images via an interleaved reconstruction, thus enabling easy-to-use multi-color super-resolution imaging of dynamic systems.