@inproceedings{
jiang2024actsort,
title={ActSort: An active-learning accelerated cell sorting algorithm for large-scale calcium imaging datasets},
author={Yiqi Jiang and Hakki Orhun Akengin and Ji Zhou and Mehmet Anil Aslihak and Yang Li and Radoslaw Chrapkiewicz and Oscar Hernandez and Sadegh Ebrahimi and Omar Jaidar and Yanping Zhang and Hakan Inan and Christopher Miranda and Fatih Dinc and Marta Blanco-Pozo and Mark Schnitzer},
booktitle={The Thirty-eighth Annual Conference on Neural Information Processing Systems},
year={2024},
url={https://openreview.net/forum?id=4czwwExZKQ}
}
Recent advances in calcium imaging enable simultaneous recordings of up to a million neurons in behaving animals, producing datasets of unprecedented scales. Although individual neurons and their activity traces can be extracted from these videos with automated algorithms, the results often require human curation to remove false positives, a laborious process called \emph{cell sorting}. To address this challenge, we introduce ActSort, an active-learning algorithm for sorting large-scale datasets that integrates features engineered by domain experts together with data formats with minimal memory requirements. By strategically bringing outlier cell candidates near the decision boundary up for annotation, ActSort reduces human labor to about 1–3\% of cell candidates and improves curation accuracy by mitigating annotator bias. To facilitate the algorithm's widespread adoption among experimental neuroscientists, we created a user-friendly software and conducted a first-of-its-kind benchmarking study involving about 160,000 annotations.  Our tests validated ActSort's performance across different experimental conditions and datasets from multiple animals.  Overall, ActSort addresses a crucial bottleneck in processing large-scale calcium videos of neural activity and thereby facilitates systems neuroscience experiments at previously inaccessible scales. (\url{https://github.com/schnitzer-lab/ActSort-public})
ActSort: An active-learning accelerated cell sorting algorithm for large-scale calcium imaging datasets
Yiqi Jiang Hakki Orhun Akengin Ji Zhou Mehmet Anil Aslihak Yang Li Radoslaw Chrapkiewicz Oscar Hernandez Sadegh Ebrahimi Omar Jaidar Yanping Zhang Hakan Inan Christopher Miranda Fatih Dinc Marta Blanco-Pozo Mark Schnitzer