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Related Experiment Video

Updated: Nov 9, 2025

Using an Automated 3D-tracking System to Record Individual and Shoals of Adult Zebrafish

Using an Automated 3D-tracking System to Record Individual and Shoals of Adult Zebrafish

Published on: December 5, 2013

BonZeb: open-source, modular software tools for high-resolution zebrafish tracking and analysis.

Nicholas C Guilbeault^1,2, Jordan Guerguiev^1,2, Michael Martin^1,2

¹Department of Biological Sciences, University of Toronto Scarborough, Toronto, Canada.

Scientific Reports

|April 15, 2021

Summary

This summary is machine-generated.

BonZeb provides high-resolution zebrafish tracking using the Bonsai platform. This tool enhances neuroscience research by enabling flexible and versatile behavioral analysis for various experimental setups.

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Last Updated: Nov 9, 2025

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Area of Science:

Neuroscience
Behavioral Science
Bioinformatics

Background:

Bonsai software is gaining popularity in neurosciences for standardizing experimental protocols.
High-resolution behavioral tracking is crucial for understanding zebrafish neural mechanisms.

Purpose of the Study:

To introduce BonZeb, a suite of modular Bonsai packages for high-resolution zebrafish tracking.
To demonstrate BonZeb's versatility in various experimental configurations.

Main Methods:

Implementation of BonZeb into Bonsai workflows for both online and offline behavioral tracking.
Utilizing dynamic visual feedback for precise tracking.
Supporting batch processing for offline analysis.

Main Results:

BonZeb enables high-resolution tracking with dynamic visual feedback.
The software supports diverse experimental setups including head-fixed and free-swimming assays.
BonZeb integrates multi-animal tracking, optogenetic stimulation, and calcium imaging during behavior.

Conclusions:

BonZeb offers a versatile and user-friendly solution for high-resolution zebrafish behavioral tracking.
The platform facilitates new experimental possibilities in neuroscience research.
BonZeb contributes to the standardization of behavioral analysis in zebrafish studies.