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brainglobe.info
BrainGlobe
@brainglobe.info
290 followers 2 following 52 posts
We build open source computational neuroanatomy software that works across species.

https://brainglobe.info

Posts by @adamltyson.com
Posts Replies Media Videos
Reposted by BrainGlobe
sainsburywellcome.bsky.social
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...
November 11, 2025 at 3:48 PM
brainglobe.info
Hear BrainGlobe core developer speak about the project in this keynote lecture.

16:00 EST
theneuro.bsky.social Le Neuro (Institut-Hôpital neurologique de Montréal) @theneuro.bsky.social · 7d
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
November 10, 2025 at 10:03 AM
Reposted by BrainGlobe
theneuro.bsky.social
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
November 4, 2025 at 2:05 PM
brainglobe.info
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...
Two-dimensional view of the Dorr mouse MRI brain atlas: annotations (left) and reference (right).
November 6, 2025 at 4:36 PM
Reposted by BrainGlobe
neuroinformatics.dev
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...
The schedule of the open source summer school, showing the four tracks of Animals in Motion, Large array data, BrainGlobe & Extracellular Electrophysiology
October 31, 2025 at 3:25 PM
brainglobe.info
Register to hear core developer Igor speak about BrainGlobe tools and the community that has been built around them.
theneuro.bsky.social Le Neuro (Institut-Hôpital neurologique de Montréal) @theneuro.bsky.social · 13d
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
October 29, 2025 at 1:46 PM
Reposted by BrainGlobe
theneuro.bsky.social
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
October 29, 2025 at 11:45 AM
brainglobe.info
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...
October 10, 2025 at 10:40 AM
Reposted by BrainGlobe
sainsburywellcome.bsky.social
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...
October 9, 2025 at 2:11 PM
brainglobe.info
We are incredibly proud to receieve this award, especially as it recognises the hard work of the entire BrainGlobe community.

Thank you to everyone who has contributed to BrainGlobe over the years!
October 9, 2025 at 7:06 AM
Reposted by BrainGlobe
theneuro.bsky.social
🏆Announcing the laureates of the Neuro - Irv and Helga Cooper Foundation Open Science Prizes 2025!

🎉 Join us in celebrating the laureates at the award ceremony, featuring a special lecture from International Prize laureate representative from the BrainGlobe initiative.

#OpenScience #Neuroscience
The Neuro – Irv and Helga Cooper Foundation Open Science Prizes: Meet the winners of an exceptional edition
This year’s edition of the Irv and Helga Cooper Foundation Open Science Prizes at The Neuro, organised by the Tanenbaum Open Science Institute, was exceptional in every way. With a record number of ap...
www.mcgill.ca
October 8, 2025 at 7:29 PM
Reposted by BrainGlobe
napari.org
Join the new plugin sustainability initiative!

Everyone is invited to fill out this interest form: forms.gle/iwX6P4tuooHK...

Follow along with initial discussion on Zulip: napari.zulipchat.com#narrow/chann...

The first zoom meeting will be this coming week: napari.org/stable/commu...
Meeting schedule
We hold regular meetings, the timings of which are available on our public calendar. If you are using napari or interested in how napari could be used in your work, please join one of our regular comm...
napari.org
October 6, 2025 at 3:57 AM
Reposted by BrainGlobe
neuroinformatics.dev
Lovely talk by Open Software Week participant @ishratz25.bsky.social on the challenges of using @brainglobe.info tools to identify very small regions, in very large images.
drlachie.bsky.social DrLachie @drlachie.bsky.social · Sep 16
Check out the PyCon Au talk from my team member: @ishratz25.bsky.social on the challenges and solutions(?) of cell counting in whole-brain light sheet images! Also give her a follow, she's new here.
www.youtube.com/watch?v=ccLn...
"Big Brains, Small Targets: Whole-Brain Image Analysis with Python" - Ishrat Zaman (PyCon AU 2025)
YouTube video by PyCon AU
www.youtube.com
September 17, 2025 at 9:00 AM
brainglobe.info
DeMBA (Developmental Mouse Brain Atlas) has now been added to BrainGlobe!

This includes every developmental stage from P4 to P56. Each of these 53 atlases includes MRI, LSFM and STPT templates.

For more details, see the blog:
brainglobe.info/blog/DeMBA

Paper:
doi.org/10.1038/s414...
Coronal sections of the DeMBA from anterior to posterior at five ages. Each section shows the STPT template on the left side and the transformed Allen Mouse Brain CCFv3 segmentations on the right side.
September 15, 2025 at 2:40 PM
Reposted by BrainGlobe
neuroinformatics.dev
In our next guest blog, GSoC participant Saarah Hussain talks about her summer working on @brainglobe.info.

neuroinformatics.dev/blog/gsoc_20...
Screenshot of the brainglobe-registration tool Saarah worked on during Google Summer of Code
September 15, 2025 at 1:36 PM
brainglobe.info
Have you built any software using a BrainGlobe package? We would love to feature your tool on our "Software built by the community" page.

Get in touch, we would love to hear about your work!

brainglobe.info/community/ex...
Software built by the community — BrainGlobe
brainglobe.info
September 15, 2025 at 10:50 AM
brainglobe.info
Version 2 of the "Enhanced and Unified Mouse Brain Atlas" has now been added to BrainGlobe. This popular atlas has been updated with corrected annotations and an isotropic 20um reference volume.

Thanks to Pavel Vychyk for adding this atlas!

brainglobe.info/blog/kim-iso...
Coronal and lateral views of the mouse brain, visualized using the napari viewer
September 12, 2025 at 10:07 AM
Reposted by BrainGlobe
neuroinformatics.dev
New guest blog by @marcodv.bsky.social about our open software summer school, held at @sainsburywellcome.bsky.social.

neuroinformatics.dev/blog/perspec...

Stay tuned for information about next years event, which will be bigger and better!
Some of the summer school participants, gathered after the summer school hackday.
September 12, 2025 at 9:36 AM
Reposted by BrainGlobe
neuroinformatics.dev
Thank you to everyone who came to Open Software Week. We had a great time, and we hope you all left with new knowledge, ideas or collaborations.

#niu_osw
August 15, 2025 at 8:12 PM
Reposted by BrainGlobe
neuroinformatics.dev
The third day of Open Software Week is underway. On the @brainglobe.info track, students are learning how to use the BrainGlobe Python ecosystem to write their own scripts.

Starting with creating visualisations using brainglobe-heatmap:
brainglobe.info/documentatio...

#niu_osw
August 13, 2025 at 9:51 AM
Reposted by BrainGlobe
neuroinformatics.dev
The BrainGlobe track started with an introduction to image analysis with @napari.org, and then tutorials on how to use @brainglobe.info to register data to atlases, and how to detect cells in whole-brain microscopy images.

All our tutorials are online: brainglobe.info/tutorials

#niu_osw
August 12, 2025 at 3:53 PM
Reposted by BrainGlobe
neuroinformatics.dev
Second day of Open Software Week starts soon! Today we split into two parallel tracks:

Animals in Motion: Using open source tools to track and analyse animal motion from videos

BrainGlobe: Using the @brainglobe.info ecosystem of tools to process and analyse whole-brain microscopy images

#niu_osw
Open Software Week schedule, showing the three main tracks "Animals in Motion", "BrainGlobe' and"Big Imaging Data".
August 12, 2025 at 7:23 AM
Reposted by BrainGlobe
neuroinformatics.dev
Today is the first day of the Neuroinformatics Unit Open Software Week, bringing together researchers from around the world for a week of training and collaborating on open source neuroscience software.

First day is a Python programming workshop.

neuroinformatics.dev/open-softwar...

#niu_osw
Open software week attendees in the lecture theatre at the Sainsbury Wellcome Centre, at an "Introduction to Python" workshop
August 11, 2025 at 3:22 PM
brainglobe.info
Version 2.3.0 of the BrainGlobe Atlas API released! Nothing exciting, but lots of minor bug fixes.

This release included work by 11 contributors. Thanks to everyone in the community for their hard work.

To update: "pip install brainglobe-atlasapi -U"

Release notes: github.com/brainglobe/b...
Release v2.3.0 · brainglobe/brainglobe-atlasapi
What's Changed Improve core test coverage by @stellaprins in #535 Update dependencies, add docstrings, fix url error handling by @stellaprins in #542 Add tests for atlas_gen annotation_utils by ...
github.com
August 6, 2025 at 9:36 AM
brainglobe.info
The brain atlas of the bumblebee Bombus impatiens created by the @kocherlab.bsky.social is now part of BrainGlobe!

This is our first insect brain atlas. Thanks to Scott Wolf for adding it!

More details: brainglobe.info/blog/bee-atl...

Original paper: doi.org/10.1016/j.cu...
A three-dimensional view of the Kocher lab’s bumblebee brain atlas visualised with brainrender-napari.
July 28, 2025 at 3:02 PM