BIG UPDATES!
OCTRON now supports the new SAM3 models (alongside SAM2)!
We’ve also added a global switch for Detection vs. Segmentation: Use the same annotations to train either lightweight detection or full segmentation models. Plus, we’ve added support for the new YOLO26 models. ⤵️
1/12
Drawing of the "Aeon" project, an open-source platform to study the neural basis of ethological behaviours over naturalistic timescales.
Are you a neuroscientist with great coding skills, or a software engineer interested in the brain?
We are recruiting for a research software engineer to help us build pipelines to process weeks of neural and behavioural recordings from freely moving animals.
More details: bit.ly/rse-2026a
A cochlea imaged in light-sheet microscopy (right) with staining for spiral ganglion neurons (red) and inner hair cells (blue). You will develop AI-based methods to analyze these structures, for example via segmentation of the individual cells (right) that will support gene therapy development for hearing loss and a better overall understanding of the anatomy of hearing.
Looking for a PhD position at the intersection of AI, imaging, and gene therapy? Apply for this position in my lab: tinyurl.com/2a2v6tvx
Part of sfb1690.uni-goettingen.de to study hearing, vision, and more.
Plus, you can create pretty pictures as the one below :).
Apply to join #BoBiAC2026 this summer! You'll learn how to use Python to segment fluorescence images w/tools like @ilastik-team.bsky.social & CellposeSAM, & even learn how to measure cell features, neighborhood relationships, & colocalization. No coding experience needed! More info: bobiac.github.io
Excited to share our new paper (CVPR 2026 🚀): "MuViT: Multi-Resolution Vision Transformers for Learning Across Scales in Microscopy" which enables local predictions to use global context.
Great work led by @albertdm.bsky.social & another fun collab w @gioelelamanno.bsky.social! @scadsai.bsky.social
A screenshot showing the "Friends don't let friends make bad graphs" repo has 7000 stars and 284 forks on GitHub.
"Friends don't let friends make bad graphs" repo has reached 7000 stars on GitHub! When I created it back in 2022, I'd never imagine it will become this popular. #DataVis
github.com/cxli233/Frie...
One week left to register to the Bioimage Analysis with AI course in Pasteur!
This June, 1 - 5.
I give a bit more details in the thread below
👇
In the #BigVolumeBrowser news, there is a new awesome video tutorial about it made by certified magician Johanna M. Dela Cruz.
Check it out: www.youtube.com/watch?v=c0fr... (1/2)
BrainGlobe is part of this, so get in touch if you'd like to spend the summer working with us!
smart microscopy postdoc position in Montpellier, France. Could definitely do worse. With @glyg
https://forum.image.sc/t/up-to-4-year-postdoc-position-in-montpellier-smart-microscopy/119201
#FOSS #Microscopy #GetFediHired
The recording of my talk at BINA lattice light-sheet meeting is online
www.youtube.com/watch?v=MWtk...
📣 We are accepting applications for the 2026 Boston Bioimage Analysis Course (BoBiAC): bobiac.github.io! Join us this July at Harvard Medical School for a 6-day intensive hands-on course to learn bioimage analysis with Python!
Apply by May 18th! No prior Python experience required!
🧫->🔬->💻->📊
reading about organisms that aren’t your specialty is like
margins of the quorbus eplungulate, ploobular processes bent posteriorly towards the foobulum
define term “eplungulate”
- lacking plungae. synonym: thubulous
PIs & Group Leaders, do your trainees need to learn light microscopy and image analysis? Send them to us! Financial aid is available! Applications due Friday 1/30. meetings.cshl.edu/courses.aspx...
🚨 Job Alert! 🚨
We have an opening at our Microscopy Core Facility in Turku 🇫🇮.
If you love imaging 🔬 and helping scientists succeed, we want you! 👇
abo.rekrytointi.com/paikat/index...
#Microscopy #ScienceJobs #CoreFacility #Imaging
@turkubioscience.bsky.social
Big news! The Data Management team/Data Science Centre at EMBL (i.e. my team) is hiring for a position based in Heidelberg (but working across all sites!). We are looking for a scientific workflows developer that will focus on multimodal pipelines. embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
Last chance to apply for 'Ultrastructure expansion microscopy: from cells to tissue' yet? #EMBOExM
🔬 Advance your microscopy skills by joining us to explore U-ExM techniques and gain hands-on expertise in applying this powerful approach to mammalian cells.
Apply now: s.embl.org/uex26-01-bl
Kind of flew under the radar, BUT we released napari-omero 0.6 recently 🥳 @openmicroscopy.org
You can now down-/upload ROIs from and to OMERO inside @napari.org 🤩Bringing the power of napari for annotation to the management of OMERO :)
Thanks @psobolewskiphd.bsky.social and other maintainers!
It's honestly a bit surprising how much more complex image analysis gets once you're in the regime of images too big to fit in memory.
All of the solutions you do (use zarr! Split the image!) come with a whole host of issues that you've never had to think about until you run into them.
#HappyMicroscpyMonday #microscopycommunity - Join us tomorrow, Tue Jan 6 for a talk by Eugene Katrukha on "Single molecule imaging using LLS7", hosted by the BINA Lattice Lightsheet User Group
Learn more & register here: buff.ly/US5Xd2q
If you have time tomorrow, join my online talk about LLS/single molecule/microtubules and 3D data at @bioimagingna.bsky.social user group (18:00 CET for Europe).
I hope I manage to fit 25 movies into 20 cohesive slides and connection will be ok.
Do you love quantifying animal behavior as much as we do? We have just the tool for you! Presenting #OCTRON - a pipeline that helps you create rich annotation data and enables training of custom segmentation models. Have a look, particularly if you work with non-model / invertebrate organisms!
Has napari helped your research this year? Why not say thank you to free and open source software by making a small donation? Every bit helps your friendly core team fix bugs and bring new features to life! CZI will match up to $75K in donations! opencollective.com/napari/donate
I will be recruiting two postdocs early next year.
- One image analyst
- one biologist interested in working on lymphatics!
Reach out if you are interested 👍
New video: more examples showing deep learning segmentation failure modes—and how to detect them with Napari. I show how Napari’s layer system compares images, ground truth, and results, and how Appose enables comparison across incompatible DL packages. www.youtube.com/watch?v=c369...
🛑 ⚠️ Registration Deadline: December 12th! ⚠️
Don’t miss your chance to join! 🔬👷♀️🛠️
You'll need a Motivation Letter, CV, and a Reference Letter 📝
👉 Course details & registration: meetings.embo.org/event/26-mic...
#Microscopy #OpenScience #Bioimaging #EMBOmicroscope
We are hiring!
We are looking for a Postdoc to drive our efforts on using tissue clearing for 3D histopathology.
@erturklab.bsky.social
#Histopathology #TissueClearing #PostDoc
www.linkedin.com/feed/update/...
Meet Our Speakers – IBIAM 2025
We are delighted to announce our speaker for the India BioImaging Annual Meeting 2025 (IBIAM, 2025)
Pallavi Deolal,
Post-doc, Max Perutz labs (@maxperutzlabs.ac.at )
University of Vienna (@univie.ac.at)
Date: December 11–12, 2025
Venue: JSS AHER Mysuru, India
Public service announcement: strongly recommend adding your names to ALL slides, helps us here reporting on social media and find you again..😉
#cbias2025
