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NanoJ: a high-performance open-source super-resolution microscopy toolbox
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Number of Authors: 152019 (English)In: Journal of Physics D: Applied Physics, ISSN 0022-3727, E-ISSN 1361-6463, Vol. 52, no 16, article id 163001Article, review/survey (Refereed) Published
Abstract [en]

Super-resolution microscopy (SRM) has become essential for the study of nanoscale biological processes. This type of imaging often requires the use of specialised image analysis tools to process a large volume of recorded data and extract quantitative information. In recent years, our team has built an open-source image analysis framework for SRM designed to combine high performance and ease of use. We named it NanoJ-a reference to the popular ImageJ software it was developed for. In this paper, we highlight the current capabilities of NanoJ for several essential processing steps: spatio-temporal alignment of raw data (NanoJ-Core), super-resolution image reconstruction (NanoJ-SRRF), image quality assessment (NanoJ-SQUIRREL), structural modelling (NanoJ-VirusMapper) and control of the sample environment (NanoJ-Fluidics). We expect to expand NanoJ in the future through the development of new tools designed to improve quantitative data analysis and measure the reliability of fluorescent microscopy studies.

Place, publisher, year, edition, pages
2019. Vol. 52, no 16, article id 163001
Keywords [en]
super-resolution microscopy, ImageJ, Fiji, image analysis, image quality assessment, fluidics, single-particle analysis
National Category
Physical Sciences
Identifiers
URN: urn:nbn:se:su:diva-166644DOI: 10.1088/1361-6463/ab0261ISI: 000459136000001OAI: oai:DiVA.org:su-166644DiVA, id: diva2:1296378
Available from: 2019-03-15 Created: 2019-03-15 Last updated: 2019-03-15Bibliographically approved

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Hurtig, FredrikLindås, Ann-ChristinHenriques, Ricardo
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Department of Molecular Biosciences, The Wenner-Gren Institute
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