Josh Moore
@joshmoore.bsky.social
Standardizing open bioimaging data infrastructure Technical Director – @gerbi-gmb.de Member & Co-Founder – @image.coop TA1 Lead – @nfdi4bioimage.bsky.social #OSS Maintainer for @openmicroscopy.org and @zarr.dev
📆 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! 🍻🏝️🚀
Johannes Soltwedel@jo-soltwedel.bsky.social · last mo.🚨Just out: #NGFF specification 0.6 (rc0): ngff.openmicroscopy.org/specificatio... What's new, what's what? Short thread 🧵👇
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
German BioImaging@gerbi-gmb.de · 2mo agoCall for Workshops: TiM2027! Expert in microscopy, image analysis, or AI? Propose a workshop for Trends in Microscopy 2027! ✅ Hands-on learning ✅ Access to labs & industry gear ✅ Network with researchers 📅 Deadline: June 30, 2026 🔗 Apply: t1p.de/zxwxx #TiM2027 #Microscopy #BioImaging
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...
OME-Zarr Pulse Check: Spec, Tooling, and Community – Image Cooperative
Feedback and insights from chatting to the community and analysing ecosystem data over the last six weeks.
image.coop
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!
Chris Schmidt@schmchris.bsky.social · 2mo agoTeam @gerbi-gmb.de and @nfdi4bioimage.bsky.social have arrived at #ELMI2026 in the beautiful city of Coimbra, Portugal! We're super excited about this event, now about to kick off with the Core Facility Day. 🔬
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 :) +
📢📢 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
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...
Join us for the next OME-NGFF Community Call on Tuesday May 26, 2026 9:00 CET and 17:00 CET!
Dear all, We are delighted to announce our Q2 OME-NGFF Community Call to be held on Tuesday May 26! As usual, we will repeat the agenda over two time slots to welcome participants from everywhere aro...
forum.image.sc
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...
NFDI4Microbiota@nfdi4microbiota.bsky.social · 3mo ago🚀 Register for the Boosting Biodata Bootcamp now! Join us to discuss #RDM and tools to accelerate your research. ✅ Free of charge 🎟️ Registration: events.hifis.net/event/3702/r... Co-hosted with @fairagro.bsky.social, @nfdi4plants.bsky.social, #NFDI4Biodiversity and @nfdi4bioimage.bsky.social.
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!
Postdoctoral Associate and Data Science Intern roles - Broad Institute, Cambridge MA USA
The Broad Institute Imaging Platform (the team behind CellProfiler, Piximi, and Bilayers) is currently hiring for postdoctoral and intern roles! Postdoc role: we are looking for 1-2 candidates who ha...
forum.image.sc
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
today we also saw the vision of a bioimage index project with AI-readiness at the raw data level a nice presentation by Chi-Li Chiu (@biohub.org), and right in time to share the hot news on the @os4science.org fund
