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Updated: Feb 1, 2026

TACI: An ImageJ Plugin for 3D Calcium Imaging Analysis
Published on: December 16, 2022
A multicellular analysis calcium imaging toolbox for ImageJ.
John Hageter1, Audrey DelGaudio1, Maegan Leathery1
1West Virginia University Department of Biology, Morgantown, WV 26506, USA.
A new toolkit, MCA (Multicellular Analysis toolkit), simplifies functional imaging analysis for cellular dynamics. This open-source software integrates with ImageJ, offering a user-friendly interface for complex experiments across various model organisms.
Area of Science:
- Neuroscience
- Cell Biology
- Bioimaging
Background:
- Genetically encoded indicators are crucial for analyzing cellular dynamics and communication.
- Analyzing large or complex functional imaging experiments presents significant challenges.
- Existing analytical tools often require proprietary software, have restrictions, or necessitate programming expertise, limiting accessibility.
Purpose of the Study:
- To develop a user-friendly, open-source toolkit for analyzing functional imaging data.
- To overcome the limitations of existing software for complex experimental analysis.
- To provide a versatile platform compatible with widely used open-source software like ImageJ.
Main Methods:
- Developed the Multicellular Analysis toolkit (MCA) integrated with ImageJ.
- Implemented a graphical user interface (GUI) for intuitive operation.
- Incorporated rigid registration for motion correction, cell prediction algorithms, and data annotation/exporting features.
Main Results:
- MCA successfully visualizes the analysis pipeline within ImageJ.
- Validated MCA using zebrafish visual response calcium imaging data.
- Demonstrated versatility across multiple sensory responses, brain regions, and model organisms (Drosophila, mouse).
Conclusions:
- MCA offers a user-friendly and accessible environment for functional imaging analysis.
- The toolkit supports diverse imaging modalities and experimental designs.
- MCA enhances the utility of genetically encoded indicators for cellular research.

