📣 The first version of RFC-10: NGFF Governance and the Editorial Board is now live, and we are inviting the community to comment on the proposal and shape its final form. If you build or use OME-Zarr, we would love your feedback! Thread 🧵 📄 ngff.openmicroscopy.org/rfc/10/index...

I'll be speaking at the Open Bioimaging Practices meetup tomorrow - join us if you're curious about (3D) multiplexed protein image analysis! 🔬

Joel Lüthi@joelluethi.bsky.social · last wk.

Do you want to learn about multiplexed image analysis using OME-Zarr? Tomorrow, @rhornb.bsky.social , @nrepina.bsky.social & Flurin Sturzenegger will share their learnings about building workflows around multiplexed image analysis, see www.biovisioncenter.uzh.ch/en/events/Up...

Are you a biologist working with microscopy images? A computer scientist wanting to work with microscopy data? Their boss??? None of these, but curious how AI has transformed microscopy image analysis? 🔬🤖 This one's for you: 📄 doi.org/10.1146/annu... More in the thread! 🧵

From Pixels to Discovery: Microscopy Image Analysis in the Age of Artificial Intelligence

Modern microscopy generates data volumes that far exceed human analytical capacity. Over the past decade, artificial intelligence (AI) has transformed microscopy image analysis into an engine for quan...

doi.org

ICYMI: OME-Zarr 0.6 is out! 🎉 This is big, years in the making. @bogovicj.bsky.social & @jo-soltwedel.bsky.social perseverance brought transformations into this next major step on the road to OME-Zarr 1.0. 👏👏👏 Huge congratulations to the Johns — and to everyone who helped get us here! 🥳🙌

Johannes Soltwedel@jo-soltwedel.bsky.social · last mo.

🚨New release: NGFF specification 0.6 🚨 Last week, we formally released the latest version of the NGFF specification: 0️⃣.6️⃣( ngff.openmicroscopy.org/specificatio...) Let's take a small tour through the things possible with #ome-zarr 0.6 now that this is out! 👇

Research software is costly and time-consuming to produce because it requires focused time from developers who have invested years learning to master their craft, just like art. There is nothing to celebrate about relinquishing intellectual expertise and mastery in favor of fast and cheap.

@paveltomancak.bsky.social · 2mo ago

This article seems to celebrate the shift from poor support for #software #engineers in research to pretending they aren't needed at all. Did we spend 2 decades consolidating fragmented software ecosystems into platforms only to see them dissolve through "vibe coding"? www.nature.com/articles/s41...

Here we are, #BIC 2026 at @eccv.bsky.social is kicking off! Is this really the 11th time we’re doing this! 🥜 See full program here: bioimagecomputing.com

📢📢 We are hiring a Bioimage Analyst at the BioVisionCenter! 📢📢 Join our collaboration with the Flow Cytometry Facility and contribute back to the international efforts on open standards for bioimaging data! More information here, reach out if you have any question: jobs.uzh.ch/job-vacancie...

UZH: Bioimage Analyst

The University of Zurich is the largest university in Switzerland and one of the most prominent in Europe. For research purposes the Biovision Center and Flow Cytometry Facility offer services to supp...

jobs.uzh.ch

BIC is back guys 😎 Don't go on your summer holiday before sending us your best bioimage computing papers, submission deadline on July 13!

Anna Foix@afoix.bsky.social · 5mo ago

🔬 One more year! BioImage Computing has been accepted to @eccv.bsky.social 🎉 Show us your work at the intersection of computer vision, ML & biology! Check out our speaker lineup: @arratemunoz.bsky.social, @jakobtroidl.bsky.social & Juliette Griffié 👏 ⏳ Deadline: 13 July ℹ️ www.bioimagecomputing.com

💡 Introducing the Multimodal #AI Across Scales Research Programme with our @florianjug.bsky.social 🤖 The new HT Programme develops open, uncertainty-aware AI tools to connect biological data from molecules and cells to patients and populations. humantechnopole.it/en/news/intr...

Introducing the Multimodal AI Across Scales Programme with Florian Jug - Human Technopole

The new Multimodal AI Across Scales Research Programme, within Human Technopole's Computational Biology Research Centre, develops AI methods that connect biological data across modalities and scales, ...

humantechnopole.it

#OME2026 has come to an end—what an inspiring and collaborative few days. Huge thanks to @nfdi4bioimage.bsky.social for documenting the meeting so thoroughly—definitely worth a look back through their posts! But first, enjoy the wrap-up video presented already during the closing session! 🤩

NFDI4BIOIMAGE@nfdi4bioimage.bsky.social · 6mo ago

#OME2026 is coming to an end. It has been a truly welcoming, motivating, and inspiring experience full of intensive exchange and shaped by an exceptionally open and collaborative spirit. Grateful for the many insightful discussions, new connections, and shared ideas. Thank you!

If you missed this because, like me, you were busy at #OME2026, please check it out! @kevinyamauchi.bsky.social and I wrote a thing on how we can all do our part to enable the next generation of microscopy-data-driven biological discoveries. Enjoy the read!

EMBL-EBI@ebi.embl.org · 6mo ago

Sharing imaging data drives discovery🔬 Modern microscopy generates huge imaging datasets but turning this data into biological findings remains a challenge. @virginieuhlmann.bsky.social explains how shared, annotated data is accelerating image analysis and discovery. www.cell.com/patterns/ful...

Thank you all for the incredible energy and inspiration! The OME community is a real treasure ❤️

NFDI4BIOIMAGE@nfdi4bioimage.bsky.social · 6mo ago

#OME2026 is coming to an end. It has been a truly welcoming, motivating, and inspiring experience full of intensive exchange and shaped by an exceptionally open and collaborative spirit. Grateful for the many insightful discussions, new connections, and shared ideas. Thank you!

Back from ICLR 2026 in Rio! 🇧🇷 Highlights: presenting my poster at the LMRL workshop, Copacabana sunsets☀️, and the best coincidence: finding out my best friend got in too without us even planning it! 👯‍♀️ So grateful to @virginieuhlmann.bsky.social for the support. Where to next? 🚀

Amazing to be at #OME2026 & talk about the future of OME-Zarr. @virginieuhlmann.bsky.social @lorenzocerrone.bsky.social & I were very happy to present the BioVisionCenter, ngio and Fractal yesterday. If you want to learn more, check out today’s ngio workshop: github.com/BioVisionCen...

A significant moment at #OME2026: Thanking Prof. Jason Swedlow, the founder of OME, who shaped this remarkable community work since the beginning of the millenium. His work & leadership were honored - even with a nod to his famous blue shirts by OME's Interim Board, nominated by Jason in Oct '25.

🔬 Next Open Bioimaging Practices Meetup (OBPM) – Mar 31, 16:00 CET Hybrid: FMI Basel & Zoom Talk by @jo-soltwedel.bsky.social : Transforming OME-Zarr: What’s coming in v0.6 Plus short updates from the BVC & time for discussion www.biovisioncenter.uzh.ch/en/events/Up...

Open Bioimaging Practices Meetup: March 2026

biovisioncenter.uzh.ch

One week left for the OME2026 Community Survey! 📣 If you haven't filled it out, please do so. We'll be discussing it live at the #OME2026 meeting in April. bit.ly/ome2026-comm...

OME 2026 Community Survey

This year in April, the 19th OME Community Meeting will be gathering to determine the "Future and Governance of OME" during the final meeting day's guided Discussion Forum / "Unmeeting". This survey...

bit.ly

Things that bring me joy, episode #372: THIS!

Image Cooperative@image.coop · 8mo ago

Hello, world! We are starting a worker cooperative to build, maintain, teach, and support open source scientific imaging software. image.coop/blog/posts/2...

Check out @cfusterbarcelo.bsky.social's latest cool work! Domain shift, we are watching you 👀👀👀

Caterina Fuster Barceló@cfusterbarcelo.bsky.social · 8mo ago

Are FMs actually FMing? ⛓️🔬 Thrilled to share that our paper on Foundational Models for mitochondria segmentation in EM is heading to the @iclr-conf.bsky.social 2026 LMRL Workshop! 🚀 Check out the full work here: 📄 ArXiv: arxiv.org/abs/2602.08505 📄 OpenReview: openreview.net/forum?id=Bba...

Calling all OME Community members, contributors, and lurkers! Please take a minute to answer the OME 2026 Community Survey (docs.google.com/forms/d/e/1F...) to help us prepare for discussing the future of OME governance during the OME 2026 Community Meeting at the end of April.

If you've been wondering what our current obsession with OME-Zarr and lego blocks is about, I have good news for you: the Fractal preprint is out! Thanks to @joelluethi.bsky.social , all co-authors, and the Fractal developers and users community for making this beautiful project a reality ❤️

Joel Lüthi@joelluethi.bsky.social · 8mo ago

We’re excited to share our latest preprint on Fractal: our approach towards FAIR bioimage analysis at scale with OME-Zarr-native workflows. Fractal defines interoperable tasks on OME-Zarr and provides a platform for TB-scale image analysis. (1 / 10🧵) www.biorxiv.org/content/10.6...

🚨 Alarm!!! 🚨 AI/ML course for microscopy image analysis!!! 🧐 In 2026 at Janelia (@hhmijanelia.bsky.social), no tuition, housing and meals provided! Isn’t that borderline unbelievable?!? 20 students, ~14 TAs and lecturers 🗓️ June 4-18 2026 ✍️ Jan 15 2026 ✍️ 🔁 pls!! www.janelia.org/you-janelia/...

Deep Learning for Microscopy Image Analysis

Topics The following will be covered extensively during lectures, exercises, and project work: Image denoising and restoration (fully supervised and self-supervised) Image translation (e.g.,

janelia.org

The new ShapeEmbed deep learning method helps quantify shapes in bioimages 🔬 It learns to encode 2D object outlines into descriptors that are invariant to several geometric transformations. Great for robust cell shape analysis, classification & exploring phenotypes. neurips.cc/virtual/2025...

Somehow this made me smile more than it should reasonably have

Randall Munroe@xkcd.com · 11mo ago

Apples xkcd.com/3180/

Crank up the sound and come sing "self-supervised, we rise" with me: paper2song.com/virtual/2025... May the genius who created this be blessed with an eternity of good review karma.

Paper2Song - Hear Every NeurIPS 2025 Paper as a Song

Hear research differently. 5000+ NeurIPS 2025 papers transformed into songs. Search by topic, discover ideas through music, and share what inspires you.

paper2song.com

Virginie Uhlmann@virginieuhlmann.bsky.social · last yr.

You may have heard me talk about learned shape representations for a long time, but it took @afoix.bsky.social's hard work to bring it to life 🍾 Catch her at @neuripsconf.bsky.social to find out more!!

Organising symposia is a whole lot less work and more fun when you've got an enthusiastic group of fellow organisers to help out. But #CBIAS2025 was my 6th and I think it's now time to step back a little. So from next year, @lankylaste.bsky.social will be taking the lead. Roll on #CBIAS2026!

If you are attending @neuripsconf.bsky.social in San Diego, go check out Anna's beautiful work on learning shape representations!

Anna Foix@afoix.bsky.social · 11mo ago

We’ll be at @neuripsconf.bsky.social on Wednesday, 3 December, from 11 a.m. to 2 p.m. (San Diego time). Come and chat with us about why distance matrices and invariances are cool! 🎉 #InterdisciplinaryML #neurips2025 #bioimageanalysis #shapequantification

BIOIMAGE ANALYSTS ASSEMBLE!!! #CBIAS2025

So nice to see this!!!

Sebi@sebi06.bsky.social · 12mo ago

I am still digesting all the info from the OME-NGFF hackathon last week. So I decided to make a little UI for some of the code created there (just to play around), which one can easily show to interested colleagues 😜. CZI --> OME-ZARR with some options ... By far not perfect but still fun!