ArticleScientific reports2021
BonZeb: open-source, modular software tools for high-resolution zebrafish tracking and analysis.
Article in Scientific reports, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
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- The tectal melanocortin system modulates energy-dependent visual avoidance behavior in zebrafish.iScience · 2026Article
- Semi-automated detection of cleaning interactions using supervised machine learning.Scientific reports · 2026Article
- StrIPETrack: a real-time, ROI-flexible tracking platform for high-throughput zebrafish behavior.Biology open · 2026Article
- Convergent thyroid-ATPase interactions regulate collective behavior in Danionella.Cell reports · 2026Article
- High-throughput multi-camera array microscope platform for automated 3D behavioral analysis of swimming zebrafish larvae.Communications biology · 2026Article
- Sardine: A modular framework for developing data acquisition and near real-time analysis applications.PloS one · 2026Article
- High-throughput multi-camera array microscope platform for automated 3D behavioral analysis of swimming zebrafish larvae.bioRxiv : the preprint server for biology · 2025Article
- A framework for a low-cost system of automated gate control in assays of spatial cognition in fishes.Journal of fish biology · 2025Article
- GoFish: a foray into open-source, aquatic behavioral automation.Journal of fish biology · 2025Article
- Quantifying the link between retinal performance and the optomotor response.Current biology : CB · 2025Article
- Zebrafish identification with deep CNN and ViT architectures using a rolling training window.Scientific reports · 2025Article
- Marigold: a machine learning-based web app for zebrafish pose tracking.BMC bioinformatics · 2025Article
- Zebrafish larva interface: an accessible, modular platform forFrontiers in neuroscience · 2025Article
- Development of neural circuits for social motion perception in schooling fish.Current biology : CB · 2024Article
- Diving into the zebrafish brain: exploring neuroscience frontiers with genetic tools, imaging techniques, and behavioral insights.Frontiers in molecular neuroscience · 2024Review
- GoFish: A low-cost, open-source platform for closed-loop behavioural experiments on fish.Behavior research methods · 2024Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We present BonZeb-a suite of modular Bonsai packages which allow high-resolution zebrafish tracking with dynamic visual feedback. Bonsai is an increasingly popular software platform that is accelerating the standardization of experimental protocols within the neurosciences due to its speed, flexibility, and minimal programming overhead. BonZeb can be implemented into novel and existing Bonsai workflows for online behavioral tracking and offline tracking with batch processing. We demonstrate that BonZeb can run a variety of experimental configurations used for gaining insights into the neural mechanisms of zebrafish behavior. BonZeb supports head-fixed closed-loop and free-swimming virtual open-loop assays as well as multi-animal tracking, optogenetic stimulation, and calcium imaging during behavior. The combined performance, ease of use and versatility of BonZeb opens new experimental avenues for researchers seeking high-resolution behavioral tracking of larval zebrafish.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.