A Practical Guide to Mapping Brain Activity with ClearMap2

Tutorial for editing and using ClearMap2's CellMap script for activity mapping of cFos positive cells imaged using light sheet microscopy. Part of Cellular Imaging's 2021 Image Analysis Program by Luke Hammond (Director of Cellular Imaging) This video includes: Considerations and parameters for imaging cFos and activity markers on the light sheet microscope at the Zuckerman Institute How to troubleshoot Python scripts and pipelines How to use ClearMap2 for registration of whole-brain data and activity mapping