Josh Moore

📣 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...

Are you curious about current developments in OME-Zarr? Want to get an overview of how the specification is evolving through the current RFCs? Or hear what people are working on with OME-Zarrs? Join us virtually next Monday, November 2nd, 2pm CET for the intro talks of the OME-Zarr hackathon

#HappyFluorescenceFriday #microscopycommunity - Congrats to the winner of the Wayne S. Rasband Open Source Imaging Award! Wayne S. Rasband Open Source Imaging Award – Curtis Rueden Learn more: buff.ly/hwKCCwU

I believe that more diverse and high quality data is the most important thing we need for creating better AI models for bioimage analysis. That's why we proposed BioImageNet, and now got it funded!

We took a break from advertising these but we are still holding weekly OME-Zarr office hours! Ask @jni.codes or @joshmoore.bsky.social anything about OME-Zarr on Thu Oct 22 at 9am Paris / 12:30pm Delhi / 6pm Sydney. Full details and zoom link at: ngff.openmicroscopy.org/community#of...

@bogovicj.bsky.social‘s the #warpiest 🤩

We are glad to announce that the @dfg.de has funded our #BioImageNet proposal! 🤩

Curious to see what a malaria parasite looks like during different stages of cytokinesis? 🫣 In this month’s @nfdi4bioimage.bsky.social calendar, we present a dataset of Plasmodium falciparum in EMPIAR and available as OME-Zarr via the @bioimagearchive.bsky.social, both hosted by @ebi.embl.org.

Last call for abstracts (deadline Tue Oct 6) for the 29th Australian Conference on Microscopy & Microanalysis! www.acmm29.org Feb 1-4, 2027 in Sydney, Australia! 🐨 #ACMM29

czitools 0.20.1 is out! 🎉 Improved CZI/HCS → OME-Zarr export, lazy Dask reading, lighter imports, better napari notebook support, and NDV visualization. Github: github.com/sebi06/czito... PyPi: pypi.org/project/czit...

I'm always very happy to see the #Fiji gang & co, this time during the OME-Zarr Java hackathon in Dresden (imglib2/BDV motherland?). My personal progress: increasing max # of volumes in #BigVolumeViewer from 15 to ~200. Still not high enough, but there was not enough time.

Here's a whimsical example of what you can achieve with #bigwarp and the brand new #ome-zarr 0.6!

Multichannel rendering in Kiln v0.4.1 beta. This is a fruit fly brain. Unlike the ones currently all over your feed, it doesn't play Beat Saber. It just sits there, streamed from OME-Zarr in native WebGPU and rendered at full 16-bit precision across four fluorescence channels. #OME-Zarr #WebGPU

It's @perlman.bsky.social representing the @image.coop at #i2kbina2026!

Hi all, prototype of a napari-zenapi-streaming plugin is working using @zeiss-microscopy.bsky.social and @napari.org. - stream pixels from ZEN into multi-dim array and display live - stream pixels from ZEN directly into OME-ZARR (see video) For viewing I used: find-nuclei.github.io

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! 🥳🙌

🔬🧪 We're hiring postdocs&engineers at Institut de la Vision in AMAZING Paris 🇫🇷!! Join a dynamic team working at the nexus of retina developmental biology, spatial omics & advanced imaging Ambitious science in a supportive & young inclusive team 🚀 DM me for more info & please share 🙏 #academicsky

"What the heck is…OME-zarr/NGFF" Demystifying bioimaging tech: no jargon, no judgment, just real conversation with @jo-soltwedel.bsky.social on the latest tools & trends. 📅 Sept 3, 1–2:30 PM (Zoom) Register: t1p.de/0byxl | Infos: t1p.de/zkcnd #opensource #ngff #ome #bioimaging

The next OME-Zarr Office Hours is coming up in just over 2h! 8am SFO / 11am NYC / 5pm Paris. Come ask any questions about OME-Zarr, and/or watch @kevinyamauchi.bsky.social live-convert an HCS (High Content Screening) dataset to RFC-8 syntax! ngff.openmicroscopy.org/community/#o...

Join the Open Bioimaging Practices Meetup all about OME-Zarr viewers on Monday, August 24th, 4pm CEST. Learn about ViZarr, napari & VolE & hear user stories on how they handle OME-Zarrs. More info here: www.biovisioncenter.uzh.ch/en/events/Up...

Our next office hours session is coming up in just under 22h! 2026-08-20 at 9am Paris/12:30pm Delhi/5pm Melbourne. Ask us anything about OME-Zarr and/or watch @jni.codes attempt to live-release the experimental 0.9dev1 version (including RFCs 3 & 4) with @joshmoore.bsky.social's help!

We're excited to announce the 2026 OME-Zarr hackathon 🎉 📅 Date: November 2nd - November 6th 2026 📍 Location: University of Zurich, Zurich, Switzerland 💻 Virtual participation: possible for Monday afternoon, 1:00 PM CET 6:00 PM CET biovisioncenter.notion.site/2026-ome-zar... (1/6 🧵)

📆 New month – new data publication featured in the @nfdi4bioimage.bsky.social wall calendar! The calendar image for July, taken by Pauline Wanjiku Kibui, shows testicular tissue, with the seminiferous tubules depicted in red, the cell nuclei in green, and the actin in the smooth muscle in blue.

Johannes joined @gerbi-gmb.de with a clear first major task: help lead the completion of #NGFF RFC-5. Today, just before heading off on a well-earned holiday and just shy of his one-year anniversary, 0.6 has a release candidate. Kudos, @jo-soltwedel.bsky.social! 🍻🏝️🚀

That's one satisfying github notification list to end the day with 🏝️ Now just one more thing to do...

Earlier in June, we had our first in-person meeting at @embl.org (thank you for hosting us!), joined by representatives from Glencoe, Fideus Labs, @gerbi-gmb.de, and @scalableminds.com (+Dundee & Janelia on zoom) to start our OME-Zarr 1.0 project. More details to come, but it was fun and productive!

🚨 TiM2027 Deadline Extended! More time to submit your workshop! New deadline: July 14, 2026 Don’t miss your chance. 🔗 Apply now #TiM2027 #DeadlineExtended #Microscopy

You can't spell AI without FAIR❗ Here are the presentation slides from @jo-soltwedel.bsky.social talk, "You Can't Spell AI Without FAIR: How Data Management Leaves Footprints in Image Analysis," presented at the #ELMI2026 conference. 👉 Find the presentation on Zenodo: doi.org/10.5281/zeno...

🚨New release 🚨 We just released ome-zarr-py 0.18 (pypi.org/project/ome-...), which brings an all new, shiny API for reading and writing #OME-ZARR data. Check out the documentation 📚 for more hints: ome-zarr.readthedocs.io/en/stable/ @openmicroscopy.org @will-j-moore.bsky.social

At the #ELMI2026 Core Facility Day, @schmchris.bsky.social presented the BAND (BioImage Analysis Desktop) service by @nfdi4bioimage.bsky.social on behalf of its core developer Yi Sun from EMBL Heidelberg: low-barrier access to powerful compute resources for bioimage analysis available in the cloud.

Great interactive talk about surveys/interactive survey about talks and cognitive biases from my colleague @lisa-schaefer.bsky.social from @gerbi-gmb.de at #ELMI2026

@jo-soltwedel.bsky.social presenting about how important FAIR data management is for efficiently leveraging AI in a trustworthy manner. Small differences in underlying data annotation and metadata can effect AI-based analysis output a lot. #ELMI2026 @gerbi-gmb.de #OME-Zarr

Just gave a talk at #ELMI2026 and a panel discussion about how #FAIR data impacts #AI and its use in #bio-image-analysis 🔬🧪- and what we at @gerbi-gmb.de do about it 👷👷‍♀️ Slides available here: zenodo.org/records/2070...

Keeping track of OME-Zarr support across the ecosystem isn't always easy. Over the past few weeks, we've been speaking with stakeholders about experiences, successes, and remaining gaps. Here is our snapshot of where things stand and where effort may be most valuable next: image.coop/blog/posts/2...

So excited for #ELMI2026 getting started! First act: The core facility day full of enlightening talks tailored around the world of Core Facilities. We’re happy to having contributed to make this day happen!

this is a map of the OME-Zarr contributors so far! nice to see different regions — and the opportunities for the community growth are you in one of the gray countries and interested in advanced microscopy data projects? talk to me :) +

Just some #ngff enthusiasts out in #dresden @perlman.bsky.social

📢📢 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...

Some initial results from the live survey at the recent #OME-Zarr Community Call for you to ponder over the weekend. Thoughts, as always, welcome! 🤔

Getting to know who's in the room at the first session of the #OME-Zarr Community Call. If you missed it, join for the second session to share your thoughts. Let's grow that 'curious' bubble! 🫧 forum.image.sc/t/join-us-fo...

📅 Find the story behind the May image in the @nfdi4bioimage.bsky.social wall calendar and read more about what it takes to make bioimaging data truly reusable here: 👉 nfdi4bioimage.de/en/community... To the corresponding dataset on @bioimagearchive.bsky.social: 👉 www.ebi.ac.uk/biostudies/b...

We want to hear from you about your experience using the OME-Zarr ecosystem and how we can improve it! We are joining the upcoming OME-NGFF community call to introduce ourselves to the community and to collect your feedback (May 26, 9AM and 5PM CET). See you there! forum.image.sc/t/join-us-fo...

New release of #BigVolumeBrowser (0.1.1) adds support for (multiscale) OME-Zarr (thanks to libraries from @bogovicj.bsky.social, Stefan Hahmann, Vladimir Ulman). And midi gizmo navigation (from @herrsaalfeld.bsky.social ), shown below.

You can now register for the Boosting Biodata Bootcamp 2026! Gain insights into research data management and data analysis, and learn how to advance your research and make your data and tools #FAIR. To the registration: 👉 events.hifis.net/event/3702/r...

Global BioImaging & German BioImaging launch Spotlight on DATA: 💡 Built by the Image Data Management WG 📊 Featuring a practical “10 Steps” framework 🌍 Community-driven, real-world focus 📅 Live: 28 May | 17:00 CEST 🔁 Replay:29 May | 08:00 CEST 👉 Register/contribute: docs.google.com/forms/d/e/1F...

The Cimini lab is hiring for both postdocs and interns! The postdoc role will cover bioimage analysis projects and educational material creation; the intern will be working on our Bilayers project for helping distribute and access deep learning tools for bioimage analysis. Click below to learn more!

Erin Diel now presenting on the mutualistic relation of Glencoe Software and the Open Microscopy Environment and the contributions of Glencoe towards OME-Zarr 1.0 #GIDE2026

Tim Olsen from XNAT showing the 27 years of progress of a platform used all over the world for clinical and pre-clinical imaging (a "DICOM repository" and much more) #GIDE2026

What's new in Ome-Zarr 0.6? Ome-Zarr is a cloud-optimised next-generation file format #NGFF for bioimaging, aiming to increase #FAIR access and remove barriers in the scientific process. The latest version offers numerous improvements and features. 👉 Find out more on Zenodo: doi.org/10.5281/zeno...

Member Eric Perlman takes the stage at @embl.org to announce our launch as an international worker co-op for #OSS scientific imaging software. First task supported by @biohub.org is accelerating #OMEZarr towards a 1.0 alpha early 2027. Stay tuned! image.coop #GIDE2026 @gideproject.bsky.social