brainreg is software for the registration of whole-brain microscopy datasets to a reference atlas. This allows the brain to be segmented into individual regions based on the atlas, and for all data to be warped to a common anatomical reference frame.
To simplify use, we have created a plugin for napari, so that brainreg can be installed and used without touching the command line.
First install napari. You can then install the plugin from within napari (
Install/Uninstall Package(s), choosing