Weakly-Supervised Cell Tracking via Backward-and-Forward Propagation

by Kazuya Nishimura, Junya Hayashida, Chenyang Wang, Dai Fei Elmer Ker, Ryoma Bise

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Prerequisites

• python >= 3.6
• ubuntu 18.04
• CPU or GPU(NVIDIA Driver >= 430)
• matlab

Installation

Python setting

Conda user

conda env create -f=requirement.yml
conda activate pytorch

Docker user

docker build ./docker
sh run_docker.sh

Background estimation

matlab -nodesktop -nosplash -r 'Background_estimation.m

Cell detection

python predict.py

Backward Propagation

python backward_propagation.py

Forward Propagation

python forward_propagation.py

Association

python association_with_forward_propagation.py