EVAnalyzer

Description

EVAnalyzer is a Fiji ImageJ plugin designed for analyzing microscope pictures of EVs. This plugin can be used for:

• Counting the number of EVs.
• Calculating the colocalization of evs and other particles.
• Detect biological cells and counting EVs updatekn from cells.
• Analysis of a large amount of images automatically.
• Generating XLSX (Excel) reports with automatic statistics generation.

Installation

• Download and instal Fiji from Fiji.
• Add EVAnalyzer to update sites:

1. Open Fiji
2. Click Help -> Update
3. Click Manage update sites
4. Click Add update site
5. Look EVAnalayzer in the update site list or enter EVAnalayzer in name field and https://sites.imagej.net/evanalyzer/ in the URL field
6. Restart Fiji

Roadmap

• Make it possible to automatically generate reports for 10'000 and more images per run.
• Export of R files and automatic diagram generation.
• Implement automatic unit test as positive and negative control reference to be sure that an update does not influence future analysis results.
• Improve preview functionaltity to be more detailed.
• Extend to support more than 5 channels.
• Include handbook and Help functionality directly from the PlugIn.

Contributing

If you have some questions, feature requests or if you found a bug, please just create an issue in the Issues tab.

Coding

For development Visual Studio Code is used. Compiling is done within a docker image (dev container).

• Download and install Visual Studio Code
• Install Remote Container plugin.
• Clone the repository and open the cloned folder in Visual Studio Code.
• Reopen the project in Dev Container.
• Run ./build.sh to compile the project.

Common issues

• Images used in the plugin cannot be in the RGB format, and must be monochromatic.
• Actually VSI, TIFF, ICS, and CZI images can be processed.

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Research Article

First published: 27. November 2022 | https://doi.org/10.1002/jev2.12282

Cite

Schürz, M., Danmayr, J., Jaritsch, M., Klinglmayr, E., Benirschke, H. M., Matea, C. -. T., Zimmerebner, P., Rauter, J., Wolf, M., Gomes, F. G., Kratochvil, Z., Heger, Z., Miller, A., Heuser, T., Stanojlovic, V., Kiefer, J., Plank, T., Johnson, L., Himly, M., … Meisner-Kober, N. (2022). EVAnalyzer: High content imaging for rigorous characterisation of single extracellular vesicles using standard laboratory equipment and a new open-source ImageJ/Fiji plugin. Journal of Extracellular Vesicles, 11, e12282. https://doi.org/10.1002/jev2.12282