COLLECTIVE MOTION IN ZEBRAFISHES

Data

The data have been obtained using idtracker.ai. The data are related to trajectories for 60, 80 and 100 fish. Each subfolder has as a name the number of individuals in the trajectories.

• Data can be downloaded here

Zebrafish data analysis:

prob_simil:

• Fishes probability density within tank
• Cosine similarity among fishes to assess how parallel are all fish to each other

ML model to predict fish trajectory and speed

ml_model:

• LSTM/GRU for multi-step ahead fish speed and trajectory prediction

Focal fish ID-0

Focal fish ID-20

References

This repository is based on the following works:

• idTracker: tracking individuals in a group by automatic identification of unmarked animals
• Deep attention networks reveal the rules of collective motion in zebrafish