We build open source computational neuroanatomy software that works across species.
BrainGlobe has a new atlas, the "CCFv3 augmented mouse atlas"!
This atlas is an extended version of the CCFv3, designed to cover the rostral and caudal tips of the mouse brain and includes Nissl templates.
More details: https://brainglobe.info/blog/CCFv3BBP.html
Original paper: https://doi.org/10.1162/imag_a_00565
Join us for the @neuroinformatics Open Software Week at SWC this summer!
This event will bring together researchers, developers and users of open-source software for some hands-on training, community-building and hacking.
Find out more and apply:
https://neuroinformatics.dev/open-software-week/
Reminder to register for our @neuroinformatics "Open Software Week" this August in London, for some hands-on training and hacking on open-source Python tools for analysing animal motion, whole-brain microscopy (with @brainglobe), or big imaging data.
Spaces are limited but registration and food are "free as in beer". We'll be able to provide travel stipends for several participants, thanks to generous support from @SoftwareSaved @SWC_Neuro @ResearchSoftEng and AIBIO UK.
https://neuroinformatics.dev/open-software-week
#neuroscience #python #opensource
https://mastodon.online/@neuroinformatics/114348660994777557
We’ve received additional funding for our "Open Software Week", so we expect to be able to fully fund the travel and accomodation for most participants outside of London.
Full details:
https://neuroinformatics.dev/open-software-week
Fully funded (including travel and accomodation) BrainGlobe course in London. Applications close June 6th.
Any questions, get in touch.
Applications to our "Open Software Week" close on June 6th.
Apply now for a week of training, community building and hacking on open-source neuroscience software tools.
Stipends available for travel/accomodation etc.
https://neuroinformatics.dev/open-software-week
Get in touch with any qu's.
If you'd like to learn how to use BrainGlobe, we're part of @neuroinformatics's "Open Source Week" at @SWC_Neuro!
There will be a two-day hands-on BrainGlobe course with a focus on whole-brain image data analysis and visualisation, along with a series of satellite events and a hackday!
Attendance is free and travel stipends are available.
Full details and application:
The second is about @brainglobe.info. This course is designed for researchers and students interested in learning about open-source tools for analysing and visualising whole-brain microscopy data.
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We're excited to announce the Neuroinformatics Unit Open Source Week, August 11-15 2025 in London, UK.
Bringing together researchers and developers of open-source software for training, community-building and hacking.
No cost and travel stipends available.
https://neuroinformatics.dev/open-software-week
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New version of brainglobe-heatmap (v0.6.0) released, with automated region annotations.
A new high-resolution 3D brain atlas for the Eurasian blackcap is now available via @brainglobe This new, open-source map will support research into magnetoreception, migration, and navigation 🧭
Blog ⤵️
https://www.sainsburywellcome.org/web/blog/mapping-migratory-bird-brain
Preprint⤵️
https://www.biorxiv.org/content/10.1101/2025.03.04.641293v1
A non-model organism “renaissance” has been discussed, but these fields also need experimental tools.
Our new blog describes our work building brain atlases for novel species.
Get in touch if you're interested in making an atlas for the species you study!
New version of brainglobe-workflows released (v1.4.1)!
Includes a fix for a brainmapper bug in which the analysis results for users with 3D tiffs was incorrect.
Full documentation: https://brainglobe.info/documentation/brainglobe-workflows/brainmapper
We're branching out. Rather than just packaging existing atlases, we've started creating new ones!
We've started with a 3D brain atlas for the migratory and magnetoreceptive Eurasian blackcap.
Get in touch if you're interested in collaborating to create a new high-quality brain atlas.
Full details:
https://brainglobe.info/blackcap
Preprint:
https://www.biorxiv.org/content/10.1101/2025.03.04.641293v1
New preprint! We built a 3D brain atlas for the migratory and magnetoreceptive Eurasian blackcap.
The atlas is available in @brainglobe and is hopefully the first of many!
Full details:
https://brainglobe.info/blackcap
Preprint:
https://www.biorxiv.org/content/10.1101/2025.03.04.641293v1
Short thread:
BrainGlobe has a new atlas, for the dwarf cuttlefish (Sepia bandensis).
Thanks to UCL student Jung Woo Kim for packaging this atlas!
For more details about this (and the rest of BrainGlobe), please see the blog:
https://brainglobe.info/blog/cuttlefish-atlas-added
Original paper: https://doi.org/10.1016/j.cub.2023.06.007
BrainGlobe has a new (c)atlas, for the domestic cat, Felis catus. 🐱
For more details about this (and the rest of BrainGlobe), please see the blog:
Excited to announce that we will be taking part in the Google Summer of Code this year!
If you'd like to get paid to contribute to open-source computational neuroanatomy software, please get in touch.
Applications will be accepted via https://mastodon.online/@neuroinformatics
Full details here:
https://neuroinformatics.dev/get-involved/gsoc
Excited to announce that we will be taking part in the Google Summer of Code this year!
If you'd like to get paid to contribute to open-source neuroscience software, please get in touch.
Full details here:
https://neuroinformatics.dev/get-involved/gsoc
Nice package to load BrainGlobe atlases into Blender - "BlenderBrain".
