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Reposted by Josh Moore

Ignacio Arganda-Carreras @iarganda.bsky.social · 8d

📣 We’re hiring, please RT! Fully funded 4-year PhD position in our CVPD group at @informatikaehu.bsky.social!

Research at the intersection of AI, deep learning & bioimage analysis. 🧠🔬

📅 Applications open Oct 6 (deadline: ~Oct 27)
📍 San Sebastian, Spain.
👉 cvpd.github.io/post/2025-09...

📢 Open 4-year PhD Position in Deep Learning for Bioimage Analysis! | CVPD Research group

The Computer Vision and Pattern Discovery (CVPD) group at the University of the Basque Country (UPV/EHU) is offering a fully funded 4-year PhD position within the recently awarded project TOSBI: Towar...

cvpd.github.io

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Aafke Gros @aafkegros.bsky.social · 19d

I gave a talk at Blender Conference yesterday, showing how biological volumes work, and how to visualize them in Blender 😋 youtu.be/WPajSWX730o?... #bcon25

Microscopy Nodes: handling large biological volumes — Blender Conference 2025

YouTube video by Blender

youtu.be

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Ignacio Arganda-Carreras @iarganda.bsky.social · 20d

Day 5️⃣ of our @embo.org course on "Advanced methods in bioimage analysis"! 🔬🖥️📊 @embl.org

@tischi.bsky.social is already launching 🚀 Lecture 4: Introduction to working with OME-Zarr (Tutorial) @openmicroscopy.org @zarr.dev

Christian Tischer addresses the online participants of the EMBO Advanced methods in biomage analysis course before starting his tutorial on OME-Zarr.

Christian Tischer gets prepared to start his tutorial on OME-Zarr in front a full classroom.

Christian Tischer gives the first intructions to the onsite and the online participants of the EMBO Advanced methods in biomage analysis course for his tutorial on OME-Zarr.

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Joel Lüthi @joelluethi.bsky.social · 20d

Want to hack with ~40 motivated developers in the OME-Zarr space this fall in Zurich, November 12 - 14th? The application window for the 2025 OME-NGFF workflows hackathon is closing on September 30th! Apply here to be part of this exciting week about OME-Zarr: forms.gle/849cf2fBk1pJ...

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Joel Lüthi @joelluethi.bsky.social · 22d

Are you working with OME-Zarrs in Switzerland?
We're running a series of community events in the context of the BioFAIR project of the BioVisionCenter: Monthly Open Bioimaging Practices Meetups with presentations by us & community members. Starting off with 3 cool events this fall (see image) (1/6)

Flyer for the Open Bioimaging Practices Meetups.
1. September 24th at 4pm: Guest presentation by Charlotte Soneson & Silvia Barbiero
2. October 28th at 4pm: Guest presentation by Marvin Albert
3. November 26th at 4pm: Guest presentations by Giliane Rochat & Flurin Sturzenegger

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The BioImage Archive @bioimagearchive.bsky.social · 23d

🎉 Our paper “MIFA: Metadata, Incentives, Formats and Accessibility guidelines to improve the reuse of AI datasets for bioimage analysis” is out in @natmethods.nature.com!
Community-driven standards to make bioimage data AI-ready & reusable.
👉 www.nature.com/articles/s41... #AI #Bioimaging #FAIRdata

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de.NBI & ELIXIR Germany @denbi.bsky.social · Sep 3

🚀 Registration is open for BioHackathon Germany 2025! Join us 1–5 Dec in Walsrode for hands-on projects, networking, and innovation in #bioinformatics. 🧬🤝
🏨 Anders Hotel Walsrode | 🍽️ Social events | ✈️ Easy travel
🔗 Seats limited—register now! www.denbi.de/de-nbi-event...
#Hackathon

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NFDI4BIOIMAGE @nfdi4bioimage.bsky.social · Aug 28

Julia Thönnißen from @fz-juelich.de demonstrates how large-scale 3D imaging data from neuroscience research can be handled & analyzed without the need for data duplication. Leveraging #OME-Zarr, the #tiamat tool developed at FZJ enables seamless work at scale. @nfdi4bioimage.bsky.social #CoRDI2025

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Silvia Barbiero @silviabarbiero.bsky.social · Aug 15

We’re excited to share that ez_zarr now supports Zarr v3! 🚀 Huge thanks to @mbstadler.bsky.social & @csoneson.bsky.social who took on the challenge of creating this open-source tool for fast, programmatic access to OME-Zarr file sets + easy plotting 📊
📄 joss.theoj.org/papers/10.2110… (1/3)

ez-zarr: A Python package for easy access and visualisation of OME-Zarr filesets

Barbiero et al., (2025). ez-zarr: A Python package for easy access and visualisation of OME-Zarr filesets. Journal of Open Source Software, 10(109), 7882, https://doi.org/10.21105/joss.07882

joss.theoj.org

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CNG @cloudnativegeo.org · Aug 19

Are you using Zarr (or want to know more)? Join us in #Rome for Zarr Adopter Days on Oct 16-17! This is a great chance to learn from implementers, get hands-on support & collaborate w/ the @stacspec.bsky.social sprint folks. Register now to save your spot! zarr-summit-2025.netlify.app

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Joel Lüthi @joelluethi.bsky.social · Aug 25

You are an OME-Zarr developer yourself? Join us at the hackathon! Help push OME-Zarr towards 1.0, work on RFCs to the spec, contribute to tooling in Java or Python or build workflows using OME-Zarrs.

Find out more & apply to the hackathon here: biovisioncenter.notion.site/2025-OME-NGF...

2025 OME-NGFF Workflows Hackathon | Notion

Date: November 12th - 14th, 2025

biovisioncenter.notion.site

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will-j-moore.bsky.social @will-j-moore.bsky.social · Aug 29

Currently working on #OMERO web-based import of public #OME-Zarr images github.com/ome/omero-we...

Screenshot of OMERO.web showing OME-Zarr import page

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NFDI4BIOIMAGE @nfdi4bioimage.bsky.social · Aug 27

How to make bioimage analysis workflows #FAIR? Riccardo Massei shows how to use efficient RDM & analysis pipelines in #Galaxy. As a @nfdi4bioimage.bsky.social Data Steward, Riccardo supports the community with expertise in data handling for high-content screening, image analysis & more. #CoRDI2025

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NFDI4BIOIMAGE @nfdi4bioimage.bsky.social · Aug 27

Find Robert Wagner on the ground floor level or C.A.R.L at the #CoRDI2025 conference to learn how #OMERO helps with #FAIR data management in the field of low-temperature plasma science. @inpgreifswald.bsky.social @nfdi4bioimage.bsky.social

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NFDI4BIOIMAGE @nfdi4bioimage.bsky.social · Aug 27

Poster Session at #CoRDI2025. Here is @joshmoore.bsky.social presenting how cloud-ready next-generation file formats like #OME-Zarr enable federated repositories with large N-dimensional arrays at peta-scale.
#OME-NGFF @nfdi4bioimage.bsky.social
Find the poster on C.A.R.L level 2 @rwth.bsky.social

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Virginie Uhlmann @virginieuhlmann.bsky.social · Aug 25

Once is an exception, twice is a trend, thrice is a tradition!

Save the date for our now-traditional annual OME-NGFF extravaganza in Zurich!

Whether you’ve just heard about OME-NGFF and are curious to learn more or if you are working with it every day, there is something for everyone this year!

Joel Lüthi @joelluethi.bsky.social · Aug 25

We're happy to announce the 2025 International OME-NGFF workshop 🎉

📅 Dates:
- Symposium: Nov 10–11, 2025
- Hackathon: Nov 12–14, 2025

📍 Location: Zurich, Switzerland

Full details & registration: www.biovisioncenter.uzh.ch/en/events/Up...

#bioimaging #openscience #OMENGFF #OMEZarr

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Visual of segmented human induced pluripotent stem cells with the key workshop dates: Symposium on November 10-11, Hackathon on November 12-14th in Zurich Switzerland

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Reposted by Josh Moore

Joel Lüthi @joelluethi.bsky.social · Aug 25

We're happy to announce the 2025 International OME-NGFF workshop 🎉

📅 Dates:
- Symposium: Nov 10–11, 2025
- Hackathon: Nov 12–14, 2025

📍 Location: Zurich, Switzerland

Full details & registration: www.biovisioncenter.uzh.ch/en/events/Up...

#bioimaging #openscience #OMENGFF #OMEZarr

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NumFOCUS @numfocus.bsky.social · Jul 16

Zarr is hiring again! Build scalable bioimaging solutions, collaborate globally, and join the Friedrich Miescher Institute for Biomedical Research as a Computational Scientist or Research Software Engineer
www.fmi.ch/education-ca...

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Teng-Leong Chew @scopeshifu.bsky.social · Feb 13

🧪Job opening at Janelia @hhmijanelia.bsky.social Integrative Imaging platform for a bioimage analyst. Please repost.

Integrative Imaging @ Janelia @i2janelia.bsky.social · Feb 12

We have an open #opportunity for a BioImage Analyst to join our team! This is an excellent role for a problem solver with an empathetic, collaborative mentality who enjoys partnering with interdisciplinary scientists. Read more and apply here: hhmi.wd1.myworkdayjobs.com/en-US/Extern...

BioImage Analyst

Primary Work Address: 19700 Helix Drive, Ashburn, VA, 20147 Current HHMI Employees, click here to apply via your Workday account. The Howard Hughes Medical Institute’s Janelia Research Campus is a pio...

hhmi.wd1.myworkdayjobs.com

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Josh Moore @joshmoore.bsky.social · Aug 6

This plays on repeat in my head. (So I might as well share.)

#OME #Bio-Formats #Memes

Tom Boissonnet @tom-bssnnt.bsky.social · Jun 4

Who does microscopy and has never heard of Bio-Formats? You probably used it anyway

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Virginie Uhlmann @virginieuhlmann.bsky.social · Jul 21

Our project BioFAIR: Towards FAIR Practices in Bioimaging has been selected for funding through the swissuniversities Open Science II Programme (www.swissuniversities.ch/en/topics/op...)!

More OME-Zarr and open microscopy community events on the horizon yay!!! 🔥🔥🔥

Funded Projects - swissuniversities

www.swissuniversities.ch

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Johannes Soltwedel @jo-soltwedel.bsky.social · Jul 18

As good as a time as any to announce: After a great time at @poldresden.bsky.social I'm looking forward to starting my new position at @gerbi-gmb.de as a software developer for @openmicroscopy.org 🔬😀!

Scalable #RDM solutions in the ome-zarr-verse, here we come!

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de.NBI & ELIXIR Germany @denbi.bsky.social · Jul 2

The deadline to submit proposals for BioHackathon Germany 2025 is approaching! Submit your project idea by July 15! More information is available here: www.denbi.de/de-nbi-event...

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ZB MED - Informationszentrum Lebenswissenschaften @zbmed.bsky.social · Jun 24

#OLSPub as an alternative to #PubMed:
Infrastructure made in Europe

The recording of our information event ‚Resilient and independent life science research infrastructure‘ is now online and can be watched here:
youtu.be/2vSkx07VyeM

OLSPub as an alternative to PubMed: Infrastructure made in Europe

YouTube video by ZB MED

youtu.be

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Josh Moore @joshmoore.bsky.social · Jun 16

Such good news for European data management 🇪🇺

Erick Ratamero @erickratamero.com · Jun 16

now that the ink has dried I can finally share this with the world: from mid-August I will be the new Data Management Coordinator at @embl.org - working across all six sites, with all data types (not only imaging)! It's a HUGE new challenge for me and I could not be more excited about it.

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