Deeptangle Dataset: Labelled Experimental and Synthetic Videos of Swimming and Overlapping C. elegans worms

This repository contains the dataset employed in the paper Fast spline detection in high density microscopy data.

Three files are provided:

1. videos.zip: raw experimental videos.
2. labeled_data.zip: labelled sections of experimental videos used for evaluation
3. syntehthic_dataset.zip: synthetic dataset used for training

Labelled data

Sections are named as VIDEONAME_FRAMENUMBER_SECTIONID.
All labels are in labels.json and correspond to the middle frame of the clip (05.png).
Example plotting script is provided (plot_data.py).

Synthetic data

Clips are named as NUMBEROFWORMS_ID.
Labels (for all frames) are stored in labels.npy.
Example plotting script is provided (plot_data.py).

Related

Paper: https://arxiv.org/abs/2301.04460

Deeptangle code: https://github.com/kirkegaardlab/deeptangle

Labelling tool: https://github.com/kirkegaardlab/deeptanglelabel

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If used, please cite

Albert Alonso & Julius B. Kirkegaard. Fast spline detection in high density microscopy data. 2023.