cellfinder

cellfinder is software from the Margrie Lab at the Sainsbury Wellcome Centre for automated 3D cell detection and registration of whole-brain images (e.g. serial two-photon or lightsheet imaging).

It’s a work in progress, but cellfinder can:

• Detect labelled cells in 3D in whole-brain images (many hundreds of GB)
• Register the image to an atlas (such as the Allen Mouse Brain Atlas)
• Segment the brain based on the reference atlas
• Calculate the volume of each brain area, and the number of labelled cells within it
• Transform everything into standard space for analysis and visualisation

Project Author(s)

Adam Tyson

Project Links

https://github.com/brainglobe/cellfinder

This post was automatically generated by Adam Tyson