BrainGlobe

BrainGlobe Atlas API V3 is out! After 6 years, this is the first major change in how BrainGlobe works. Each atlas component is fetched independently, meaning all BrainGlobe tools will work faster, and more reliably. Read more at: brainglobe.info/blog/braingl...

An atlas for the Danionella cerebrum fish has been added to BrainGlobe! Read more in the blog: brainglobe.info/blog/danione... Take a look at the atlas with Neuroglancer: neuroglancer-demo.appspot.com#!https://bra...

Our final Google Summer of Code project is by Soumya Snigdha Kundu, who worked to make cellfinder, a cell detection tool in the @brainglobe.info ecosystem, usable with more types of data. Read more in Soumya's blog: neuroinformatics.dev/blog/gsoc_20...

Our second Google Summer of Code project is by Varun Singh who worked on improving the maintainability of the @brainglobe.info project. Read more in Varun's blog: neuroinformatics.dev/blog/gsoc_20...

The second day of Week 2 of our summer school is underway! In the electrophysiology track, Olivier Winter from the @intlbrainlab.bsky.social is introducing recording with neuropixels probes. In the @brainglobe.info track, Harry Carey is talking about brain atlases. #NIU_OSSS_26

This is one of the atlases that I recently packaged for BrainGlobe. It is a fantastic atlas for mice research. Check it out!

Nine new developmental rat brain atlases from Duke University have been added to BrainGlobe, covering P0-P80 Read more in the blog: brainglobe.info/blog/duke-de... Take a look at the P0 atlas with Neuroglancer: neuroglancer-demo.appspot.com#!https://bra...

The MRI-based, high-resolution Duke Mouse Brain Atlas has been added to BrainGlobe! Read more in our blog: brainglobe.info/blog/duke-mo... View the atlas in Neuroglancer: neuroglancer-demo.appspot.com#!https://bra...

A Tawny Dragon brain atlas has been added to BrainGlobe! This lizard has shown great promise for neuroevolutionary research and we hope inclusion of the atlas within BrainGlobe will help researchers understand its brain structure. Read more in the blog: brainglobe.info/blog/tawny-d...

All BrainGlobe atlases now have Neuroglancer links so that you can explore atlases in the browser without needing to download them first! All links here: brainglobe.info/documentatio... Here you can view our Eurasian Blackcap atlas: neuroglancer-demo.appspot.com#!https://bra...

Do you use the BrainGlobe Atlas API directly in your work? Have you built a tool on top of BrainGlobe? We will soon release V3 of the API, which changes how brain atlas data is stored and accessed. A release candidate is available for testing, please see our blog: brainglobe.info/blog/atlas-a...

Nice Claude skill to create basic neuroanatomical visualisations with BrainGlobe & blender: github.com/SamedVossber... The single prompt "Use the allen mouse brain atlas to create an animation to show primary visual cortex and primary motor cortex" gives:

BrainGlobe is going to #FENS2026. We have posters about new atlases, improved infrastructure and new data analysis tools. Come say hello!

The Neuroinformatics Unit is going to #FENS2026. Come and chat to us if you're interested in open source neuroscience software!

As part of this effort, we've just released three new atlases from v2 of the Allen mouse CCF - the brain atlas, fiber tract atlas and developmental brain atlas. Most pipelines have moved to CCFv3, but adding v2 allows atlas comparison and reproducing old analyses. brainglobe.info/blog/ccfv2-a...

We've started an effort to bring every 3D (non-human) anatomical atlas that exists into BrainGlobe. Get in touch if there's an atlas we've missed, or you think there's a specific atlas we should prioritise. Read more in our blog: brainglobe.info/blog/the-sys...

Fantastic to see @brainglobe.info recognised. Thank you to everyone who's helped build it, and thank you to the RMS.

Great writeup from our collaborators at UCL Advanced Research Computing on our joint work to make building novel 3D brain atlases faster, more reproducible, and accessible to more labs. 🧠 www.ucl.ac.uk/advanced-res...

A few months ago we held a joint retreat with engineers from @intlbrainlab.bsky.social & @alleninstitute.org. We summarised the discussions from this retreat into concrete next steps of how we will collaborate in the future to build better software for neuroscience. doi.org/10.5281/zeno...

This is the first of many collaborations to build novel anatomical atlases. We want to expand advanced computational anatomy to new fields. If this sounds interesting, get in touch!

New NIU paper in @currentbiology.bsky.social, in collaboration with @neuroweiler.bsky.social and colleagues at the University of Oldenburg. We built the first anatomical atlas for the Eurasian blackcap. Paper: www.cell.com/current-biol... More details: brainglobe.info/projects/bla...

A migratory bird brain, the Eurasian blackcap, has been mapped for the first time using high-resolution light microscopy. The open-source software tools developed form a foundation for new brain atlases to be built for any species, providing a valuable resource.

We have three neuroscience research software engineering jobs available at @sainsburywellcome.bsky.social, two joint with the Advanced Microscopy Facility. All positions start ASAP, funded until Sept 2028 in the first instance. Salary £54-64k. More details: neuroinformatics.dev/get-involved

BrainGlobe has a new roadmap! Somewhat overdue, the March 2026 roadmap summarises our recent progress, and our priorities for the coming year. Read more: brainglobe.info/community/ro...

The deadline for all these positions is now April 12th. Please do not be put off by the "Senior" in the job title. We have hired people at different career stages into roles at this grade, what matters is whether you can do the job!

1. Senior Research Software Engineer (Neural and Behavioural Data) - We’re looking for a research software engineer to build pipelines to process weeks of neural and behavioural recordings from freely moving animals.

2. Senior Research Software Engineer (Multiphoton Microscopy) - We’re looking for a research software engineer to build pipelines to process, align and analyse data from benchtop and minaturised two-photon microscopes.

3. Senior Research Software Engineer (Omics) - We’re looking for a research software engineer to build robust and easy to use software tools for merging in-vivo imaging functional data with ex-vivo transcriptomics data.

Come join us to build great open source tools for neuroscience! Happy to answer any questions. If ephys and behaviour isn't your thing, we will have some imaging focussed RSE jobs soon!

BrainGlobe is part of this, so get in touch if you'd like to spend the summer working with us!

The CArea mouse brain atlas has been added to BrainGlobe! This atlas has regions which are automatically clustered based on three dimensional maps of gene expression. Read more in the blog: brainglobe.info/blog/carea-a...

Just over a week left to apply to apply to the Neuroinformatics Unit Open Software Summer School, August 17-28 2026 in London, UK! Bringing together researchers and open source developers of ephys, behaviour and image analysis tools. Deadline Feb 15th. neuroinformatics.dev/open-softwar...

Working with rats, & not happy w MRI based brain atlases from adult males? We've got you! High resolution (2photon), 3D atlases (female rats) are now available in @brainglobe.info. Plz start using these atlases & let us know your feedback for the official release! brainglobe.info/blog/swc-fem... 🐭🧠

New blogpost outlining our work with @athenaakrami.bsky.social at @sainsburywellcome.bsky.social to build light-microscopy based atlases of the rat brain. brainglobe.info/blog/swc-fem...

Applications to our summer school have been extended for two weeks! If you want to learn about open-source tools for neuroscience, please join us in London this August. Deadline Feb 15th. Full details: neuroinformatics.dev/open-softwar...

One week left to apply for this summer school. Deadline Jan 31st. Any questions, let me know. neuroinformatics.dev/open-softwar...

Still time to apply to learn about BrainGlobe at the Neuroinformatics Unit Open Software Summer School this August in London. neuroinformatics.dev/open-softwar...

Three weeks left to apply for the Neuroinformatics Unit Open Software Summer School, August 17-28 2026 in London, UK! Bringing together researchers and open source developers of ephys, behaviour and image analysis tools. neuroinformatics.dev/open-softwar... Deadline January 31st. Apply now!

Please join us in London August 24-28 2026 for a week long BrainGlobe course. We will teach you how to use the tools and how to contribute back to the wider BrainGlobe ecosystem. Apply now! neuroinformatics.dev/open-softwar...

Applications are open for the second Neuroinformatics Unit Open Software Summer School, August 17-28 2025 in London, UK! Bringing together researchers and developers of open-source software for training and collaboration. Financial support available. neuroinformatics.dev/open-softwar...

Fantastic to see Igor Tatarnikov, Senior Research Software Engineer at SWC, collecting the 2025 International Prize from @theneuro.bsky.social Irv and Helga Cooper Foundation on behalf of the @brainglobe.info Initiative! #OpenScience Read more: sainsburywellcome.org/web/research...

Hear BrainGlobe core developer speak about the project in this keynote lecture. 16:00 EST

Ready to see how open-source tools are revolutionizing neuroscience? Join us for Igor Tatarnikov’s talk on The BrainGlobe Initiative, the open-source platform reshaping computational neuroanatomy. Be part of the future of #OpenScience: buff.ly/p6l83E4 @ucl.ac.uk @sainsburywellcome.bsky.social

A new MRI mouse brain atlas has been added to BrainGlobe! This atlas from Dorr et al. (2008) is an average of 40 T2-weighted MR images at 32um resolution. Thanks to Saarah Hussain for adding this atlas. More details: brainglobe.info/blog/dorr-mo... Original paper: doi.org/10.1016/j.ne...

Save the date! The Open Software Summer School returns August 17-28 2026 in London, U.K. There will be four separate tracks on animal behaviour, extracellular electrophysiology, anatomy and handling large data. Applications open Dec 1st. More details: neuroinformatics.dev/open-softwar...

Register to hear core developer Igor speak about BrainGlobe tools and the community that has been built around them.

Join us at The Neuro’s Open Science Prizes Ceremony for a special lecture by Igor Tatarnikov, Senior Research Software Engineer at the Sainsbury Wellcome Centre, University College London. 🔗 Come be part of the future of open science. buff.ly/p6l83E4 #Neuroscience #Neuroanatomy #OpenScience

BrainGlobe branches out! New blog outlining our collaborative work with @giuliapaci.bsky.social from @lmcb-ucl.bsky.social to build anatomical atlases for developmental mechanobiology. brainglobe.info/blog/drosoph...

Huge congratulations to the @BrainGlobe.info team for winning the 2025 International Prize awarded by the @theneuro.bsky.social and Helga Cooper Foundation Open Science Prizes Selection Committee 🎉 www.sainsburywellcome.org/web/research...