brainglobe-registration

Registering 2D planes and 3D subvolumes to a 3D atlas

Igor Tatarnikov

2025-11-24

BrainGlobe Initiative

Established 2020 with three aims:

Develop general-purpose tools to help others build interoperable software for computational neuroanatomy.
Develop specialist software for specific analysis and visualisation needs.
Reduce barriers of entry, and facilitate the building of an ecosystem of computational neuroanatomy tools.

Understanding the brain

Understanding the brain

Brain atlases

Annotation

Template

BrainGlobe atlases

brainglobe-atlasapi

Whole-brain registration

`brainreg`

Allen Mouse
Brain Atlas

Enhanced and
Unified Mouse
Brain Atlas

Bayesian Optimisation

Start by trying random parameters
Build a guess of the “match quality” landscape
Pick the next parameters to try based on this guess
Update the guess with the new result
Repeat steps 3-4

Bayesian Optimisation

`brainglobe-registration`

Acknowledgements

Saarah Hussain
Alessandro Felder
Adam Tyson

Contributors

Open Software Summer School 2026

For more information visit: https://neuroinformatics.dev/open-software-summer-school/