3D-ZeF: A 3D Zebrafish Tracking Benchmark Dataset

Malte Pedersen, Joakim Bruslund Haurum, Stefan Hein Bengtson, Thomas B. Moeslund; Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR), 2020, pp. 2426-2436


In this work we present a novel publicly available stereo based 3D RGB dataset for multi-object zebrafish tracking, called 3D-ZeF. Zebrafish is an increasingly popular model organism used for studying neurological disorders, drug addiction, and more. Behavioral analysis is often a critical part of such research. However, visual similarity, occlusion, and erratic movement of the zebrafish makes robust 3D tracking a challenging and unsolved problem. The proposed dataset consists of eight sequences with a duration between 15-120 seconds and 1-10 free moving zebrafish. The videos have been annotated with a total of 86,400 points and bounding boxes. Furthermore, we present a complexity score and a novel open-source modular baseline system for 3D tracking of zebrafish. The performance of the system is measured with respect to two detectors: a naive approach and a Faster R-CNN based fish head detector. The system reaches a MOTA of up to 77.6%. Links to the code and dataset is available at the project page http://vap.aau.dk/3d-zef

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[pdf] [supp] [dataset]
author = {Pedersen, Malte and Haurum, Joakim Bruslund and Bengtson, Stefan Hein and Moeslund, Thomas B.},
title = {3D-ZeF: A 3D Zebrafish Tracking Benchmark Dataset},
booktitle = {Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR)},
month = {June},
year = {2020}