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Robust Real Time Zebrafish High Speed Tail Tracking

The real time detection and quantification of Zebrafish swim behavior from high speed video data is an essential component of a Zebrafish virtual reality system, where body-fixed Zebrafish are suspended in a gel and shown visual stimuli simulating a real world swimming environment. Here, several methods for extracting the Zebrafish tail position are explored and a method for for real time tail tracking is developed. Furthermore, with the aim of eventually utilizing supervised or unsupervised machine learning to classify various types of swim behaviors, a method for extracting concise and useful features from the tail position data is developed.