Introduction
About the cellfinder napari plugin
The algorithm that underlies the efficient cell detection in cellfinder is available for use as a plugin for napari. This is a thin wrapper around the cellfinder-core package and aims to:
- Provide the cell detection algorithm in a user-friendly form
- Allow the cell detection algorithm to be chained together with other tools in the Napari ecosystem
- Allow easier parameter optimisation for users of the other cellfinder tools.
Eventually other tools in the BrainGlobe ecosystem (e.g. brainreg) will be developed as napari plugins to provide a full GUI for cell detection, atlas registration and downstream analysis.
Visualising detected cells in the cellfinder napari plugin
First install napari. You can then install the plugin from within napari (
Plugins -> Install/Uninstall Package(s), choosing cellfinder-napari). For analysis of larger images, please also ensure your GPU is set up properly (see Setting up your GPU).
Last modified 2yr ago