CePNEM model analysis data and ANTSUN and microscopy neural network weights

Citation and publication

To cite this work or access the publication, please use the citation information listed here: https://github.com/flavell-lab/AtanasKim-Cell2023/tree/main#citation

Initially published as preprint in:

Brain-wide representations of behavior spanning multiple timescales and states in C. elegans

Adam A. Atanas*, Jungsoo Kim*, Ziyu Wang, Eric Bueno, McCoy Becker, Di Kang, Jungyeon Park, Cassi Estrem, Talya S. Kramer, Saba Baskoylu, Vikash K. Mansingkha, Steven W. Flavell
bioRxiv 2022.11.11.516186; doi: https://doi.org/10.1101/2022.11.11.516186

* Equal Contribution

Contents

1. deepnet-weights.tar.bz2

contains the trained weights of the neural networks used in this project.

3dunet_540nm_voxels: 3D U-Net for segmenting neurons

head_detector_unet: finding worm head landmark used in ANTSUN registration

head_detector_unet_0622: an alternative version of the above, optimal for NeuroPAL datasets

microscope_tracker: detecting keypoints for online tracking on the microscope

behavior_nir: segmentation of the recorded NIR behavior images for behavior quantification

2. data files

ANTSUN processed datasets and CePNEM processed model fits and analysis data. Check the project packages and notebooks in the project github repository (https://github.com/flavell-lab/AtanasKim-Cell2023/) on using these datasets.