Doris Kaltenecker, Rami Al-Maskari, Moritz Negwer, Luciano Hoeher, Florian Kofler, Shan Zhao, Mihail Todorov, Zhouyi Rong, Johannes Christian Paetzold, Benedikt Wiestler, Marie Piraud, Daniel Rueckert, Julia Geppert, Pauline Morigny, Maria Rohm, Bjoern H Menze, Stephan Herzig, Mauricio Berriel Diaz, Ali Ertürk
Automated detection of specific cells in three-dimensional datasets such as whole-brain light-sheet image stacks is challenging. Here, we present DELiVR, a virtual reality-trained deep-learning pipeline for detecting c-Fos+ cells as markers for neuronal activity in cleared mouse brains. Virtual reality annotation substantially accelerated training data generation, enabling DELiVR to outperform state-of-the-art cell-segmenting approaches. Our pipeline is available in a user-friendly Docker container that runs with a standalone Fiji plugin...
April 22, 2024: Nature Methods