iiinova — where your digital self keeps evolving

CCP-volumeEM @ccp-volumeem.bsky.social · 24/09/2026

Now on YouTube: AI OnDemand (AIoD): An extendable, user-friendly framework for segmenting images at scale In this webinar, Dr Cameron Shand introduces AIoD and shows how it can make deep-learning image analysis more accessible, scalable and reproducible. Watch here: www.youtube.com/watch?v=2yWh...

youtube.com

AI OnDemand:An extendable, user-friendly framework for segmenting images at scale with Cameron Shand

YouTube video by CCP-volumeEM

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CCP-volumeEM @ccp-volumeem.bsky.social · 12/08/2026

Join us for the next #CCPvolumeEM Show & Tell! 🧠 Dr Kedar Narayan (NCI/NIH) on 'empanada: what’s cool, what’s new and what’s next' 📅 15 Sept, 1:30pm UK | Online 🔗 crick.zoom.us/webinar/regi...

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CCP-volumeEM @ccp-volumeem.bsky.social · 23/07/2026

Missed our June Show & Tell webinar? The recording of Rocco D’Antuono’s talk, 'Napari software for 3D segmentation with the napari-zelda plugin' , is now available 🎥 Catch-up here: www.ccp-volumeem.ac.uk/showandtell/...

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CCP-volumeEM @ccp-volumeem.bsky.social · 13/07/2026

Curious about AI for image segmentation, without installation headaches? Join our next Show & Tell with Dr Cameron Shand to discover AI OnDemand (AIoD), a framework for running deep learning models on local, HPC or cloud compute 🗓 21 July, 12:30pm BST 🎟 Register: crick.zoom.us/webinar/regi...

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CCP-volumeEM @ccp-volumeem.bsky.social · 17/06/2026

In March, CCP-volumeEM hosted an OME-NGFF hackathon, bringing the community together to collaborate, share ideas and advance tools for volume electron microscopy. 🔬💻 Read about what we worked on and hear directly from two attendees about their experiences: www.ccp-volumeem.ac.uk/hackathons/h...

ccp-volumeem.ac.uk

OME-NGFF Hackathon March 2026 — CCP in vEM

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CCP-volumeEM @ccp-volumeem.bsky.social · 03/06/2026

🔬 Would you like to learn more about image analysis for Correlative Light and Electron Microscopy? Join us at the Francis Crick Institute, London, for this CCP-volumeEM led initiative from 30 Nov–4 Dec 2026. 👉 Find out more: www.crick.ac.uk/whats-on/ima...

crick.ac.uk

Image analysis for Correlative Light and Electron Microscopy (CLEM)

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CCP-volumeEM @ccp-volumeem.bsky.social · 02/06/2026

Now available on our YouTube channel: Chris Barnes’ CCP-volumeEM Show & Tell webinar, “OME-Zarr: A Next Generation File Format for FAIR Bioimaging Data”. Catch up here: youtu.be/HsqH6RAcJps?...

youtu.be

OME-Zarr: A next generation file format for FAIR bioimaging data with Chris Barnes

YouTube video by CCP-volumeEM

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CCP-volumeEM @ccp-volumeem.bsky.social · 06/05/2026

Join our next CCP-volumeEM Show & Tell webinar! 'OME-Zarr: A Next Generation File Format for FAIR bioimaging data' with Chris Barnes 📅 Tuesday 19 May, 12:30pm BST 💻 60-minute online talk You can register here: crick.zoom.us/webinar/regi...

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CCP-volumeEM @ccp-volumeem.bsky.social · 05/05/2026

Missed our April Show & Tell? Watch Dr Piper Fowler-Wright’s talk, “Jupyter Notebooks for Shareable Research Outputs” : a practical introduction to using notebooks for reproducible, well-documented research 🧪 🎥 www.youtube.com/watch?v=wzh4...

youtube.com

Jupyter Notebooks for Shareable Research Outputs with Dr Piper Fowler-Wright

YouTube video by CCP-volumeEM

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CCP-volumeEM @ccp-volumeem.bsky.social · 14/04/2026

Join us for the next CCP-volumeEM Show & Tell webinar: Jupyter Notebooks for Shareable Research Outputs with Dr Piper Fowler-Wright (Rosalind Franklin Institute). 🗓 Tuesday 21 April 🕧 12:30pm BST 💻 60-minute online talk Find out more and register: www.ccp-volumeem.ac.uk/showandtell/...

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eurobioimaging.bsky.social @eurobioimaging.bsky.social · 10/04/2026

Analyse public OME‑Zarr images using models from the BioImage Model Zoo! 🦒 Join us April 16 🕐️ 13:00–15:00 CEST — a perfect fit for Python 🐍 users ready for hands‑on work. @ai4life.bsky.social #OMEZarr #AIinScience #ImageAnalysis #Workshop forms.gle/5hQh1BoACPaF...

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Crick BioImage Analysis Symposium @cbias.bsky.social · 09/04/2026

🚨🔬🚨🔬🚨 We are pleased to announce that registration for the 7th edition of the Crick BioImage Analysis Symposium #CBIAS 2026 is now open! 🕐November 23rd-24th, 2026📍The Francis Crick Institute, London. We look forward to seeing as many of you as possible there (or online 😀)

crick.ac.uk

Crick BioImage Analysis Symposium 2026

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eurobioimaging.bsky.social @eurobioimaging.bsky.social · 10/04/2026

⏳️ Have you registered yet? #EuroBioImaging's Image Data Community Days event is happening next week. If you're curious about biological & preclinical #imagedata analysis, management, tools & more this event is for you. Registration is FREE & open to all⤵️ www.eurobioimaging.eu/events/image...

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CCP-volumeEM @ccp-volumeem.bsky.social · 25/03/2026

Missed our latest CCP-volumeEM Show and Tell webinar? Dr Kimberly Meechan’s talk on Good practices for image analysis software is now available to watch on YouTube: www.youtube.com/watch?v=HHJJ...

youtube.com

Good practices for image analysis software with Dr Kimberly Meechan

YouTube video by CCP-volumeEM

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Martin Jones @martinjones.bsky.social · 25/03/2026

Dominik Kutra from @ilastik-team.bsky.social presenting the latest updates to #ilastik for #BioImageAnalysis at the @zeiss-microscopy.bsky.social "From 3D Light to 3D Electron Microscopy“ symposium at @crick.ac.uk - very brave live demo with TB scale data! @em-stp.bsky.social #VolumeEM

A male researcher standing on stage in front of a large presentation screen with the text "ALL GOOD!??" showing

A male presenter on stage in front of a screen showing electron microscopy image data, with colourful overlays denoting a segmentation

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eurobioimaging.bsky.social @eurobioimaging.bsky.social · 11/03/2026

🔬 We highlight the #TechEM seminars in an interview with @drtranfield.bsky.social, @vibbioimagingcore.bsky.social, part of Flanders BioImaging Node, written by our Scientific Ambassador Muriel Mari. #ElectronMicroscopy Check out this great initiative ⤵️ www.eurobioimaging.eu/news/techem-...

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Martin Jones @martinjones.bsky.social · 17/03/2026

Enjoying @k-meech.bsky.social's #ShowAndTell talk in the @ccp-volumeem.bsky.social series while on holiday, with suitable holiday lunch 😄 The talk will be uploaded to the #CCPvolumeEM YouTube channel, link from the website: www.ccp-volumeem.ac.uk/showandtell #BioImageAnalysis #CoSeC #VolumeEM

View of a laptop on a small table, with a plate of scones with jam and clotted cream and a cup of tea next to it

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Dave Barry @david-j-barry.bsky.social · 02/02/2026

Did you know that if you are based in the UK, you can apply for funding to access #BioImageAnalysis services via the UK node of @eurobioimaging.bsky.social ? Next application deadline is March 31st! www.rms.org.uk/community/ne...

rms.org.uk

UK Bioimaging User Access Fund

Up to £5000 funding available to access imaging technologies and analysis services at the UK Node of Euro-BioImaging

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Caterina Fuster Barceló @cfusterbarcelo.bsky.social · 15/03/2026

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...

arxiv.org

Are Vision Foundation Models Foundational for Electron Microscopy Image Segmentation?

Although vision foundation models (VFMs) are increasingly reused for biomedical image analysis, it remains unclear whether the latent representations they provide are general enough to support effecti...

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Image Cooperative @image.coop · 16/03/2026

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

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CCP-volumeEM @ccp-volumeem.bsky.social · 12/03/2026

Our first #CCPvolumeEM #hackathon is underway, with some amazing merch! We're looking at building community resources and knowledge for the use of #NGFF in #volumeEM #BioImageAnalysis #OMEZarr #OMENGFF @cosec-ukri.bsky.social

View of the back of a laptop with a holographic sticker saying "CCP-volumeEM". In the background, out of focus, are a group of people sat at desks

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CCP-volumeEM @ccp-volumeem.bsky.social · 10/03/2026

Looking forward to learning more about this and how it can be used for #volumeEM at the #CCPvolumeEM #NGFF hackathon at @ebi.embl.org this week! #BioImageAnalysis @cosec-ukri.bsky.social #OMEZarr

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VolumeEM @volumeem1.bsky.social · 09/03/2026

New Web Page - Volume EM Industrial Partners www.volumeem.org/industrial-p... We’re excited to introduce our newly curated Industrial Partners page, showcasing organizations recognized by the volumeEM Community as key contributors in the field.

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BioImagingUK @bioimaginguk.bsky.social · 06/03/2026

📢 UK RESEARCHERS - Ever wished you could try a completely different imaging approach on your sample but lacked access to equipment or funds? That's exactly what the Euro-BioImaging UK Node User Access Fund is for! Applications are open year-round, with 3 deadlines/yr: 📅 31 Mar | 31 July | 30 Nov

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CCP-volumeEM @ccp-volumeem.bsky.social · 02/03/2026

Our first 'Show & Tell Series' webinar, presented last week, is now available on YouTube. Watch here: www.youtube.com/watch?v=E-pi... We hope it’s useful to the community - please share with anyone who may be interested #VolumeEM #Bioimaging

youtube.com

A brief introduction to the use of containers for reproducible image analysis with Dr Martin Jones

YouTube video by CCP-volumeEM

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CCP-volumeEM @ccp-volumeem.bsky.social · 26/02/2026

An important focus of @cosec-ukri.bsky.social activities like #CCPvolumeEM and other CCPs is the environmental impact of scientific computing. @epcc.bsky.social have teaching materials at epcced.github.io/2026-02-26_G... Comic image from xkcd.com/1379/ #GreenHPC #GreenComputing

A comic from the XKCD webcomic showing the effects of CO2 emissions, with a temperature scale indicating the effect of temperature changing in 4.5 degree centigrade steps, from an ice age 20,000 years ago to possible future scenarios.

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eurobioimaging.bsky.social @eurobioimaging.bsky.social · 11/02/2026

💖 We join #LoveDataWeek2026 by sharing the recordings from Image Data Community Days 2025! Follow the “Where’s the data?” theme with on-demand sessions on FAIR principles, analysis tools, AI & preclinical imaging. 🎬 Watch anytime here youtube.com/playlist?lis...

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eurobioimaging.bsky.social @eurobioimaging.bsky.social · 11/02/2026

❤️#LoveData26 Show your data some love! Register for 2026 Image Data Community Days for live talks, workshops and networking. All are welcome! 🗓️ Apr 13–17, online Register 🔽 www.eurobioimaging.eu/events/image...

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Minyu Chan @minyuchan.bsky.social · 10/02/2026

So excited for @ccp-volumeem.bsky.social OME-NGFF Hackathon 2026 at Hinxton!

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eurobioimaging.bsky.social @eurobioimaging.bsky.social · 18/12/2025

🙌 The Image Data Community Days are back! Join us for 5 online days packed with lectures, hands-on workshops & networking sessions from 🗓️ April 13-17. ✅ Mark your calendars ✅ Fill in our “Collection of Interest” form Learn more 🔽 www.eurobioimaging.eu/our-events/i...

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cake-dri.bsky.social @cake-dri.bsky.social · 18/12/2025

👀Looking to connect with the CAKE community?👀 Jump into our Slack workspace and mailing list to exchange ideas and collaborate. 👉 www.cake.ac.uk/involved/ #KnowledgeExchange #DRI

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Nature Methods @natmethods.nature.com · 08/12/2025

Our Method of the Year 2025 is...drumroll please...EM-based connectomics!! Our Editorial introduces our choice and highlights six Comments and other related content in this special issue. Please join us in celebrating EM-based connectomics! 🎉🧠🔬 www.nature.com/articles/s41...

nature.com

Method of the Year 2025: electron microscopy-based connectomics - Nature Methods

A large network of interconnected neurons serves as the basis of brain function and of behavior. Methodological advances have enabled the reconstruction of large-scale and even whole-brain connectomes...

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Moritz Helmstaedter @mhlab.bsky.social · 08/12/2025

Connectomics is Method of the Year 2025!! @natmethods.nature.com just released the news nature.com/articles/s41... In my perspective piece, I afford some predictions into the future and compare how we are doing vs. genomics www.nature.com/articles/s41...

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CCP-volumeEM @ccp-volumeem.bsky.social · 21/11/2025

Let's see how many computational volume EM talks we can get on the programme! Abstract submission deadline Friday March 6th 2026 #BioImageAnalysis #vem #volumeem

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Beth Cimini 🔬💻📊 @bethcimini.bsky.social · 14/10/2025

Big news! Our week-long #bioimageanalysis bootcamp is BACK! Learn how to think about bioimage analysis like the pros do, learn what corrections you should (and shouldn't!) apply to your images, learn open source tools, and more. Apply NOW at broad.io/BAB3 for our January 2026 course!

A flyer for the Bioimage Analysis Beginnings Bootcamp - blue and white with a picture of cells on the top. It says "Learn core bioimage analysis skills using open-source tools for light microscopy. Open to participants at all skill levels." It also says it will be held a the Broad Institute, 415 Main Street, Cambridge MA USA, on Monday to Friday January 12th-16, 2026, from 9-5pm. Registration is $750 academic, $1250 industry, and applications are open at broad.io/BAB3

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David Stansby @dstansby.bsky.social · 04/11/2025

Today I'm announcing a new digital textbook 📖🖥️, "An Introduction to OME-Zarr for Big Bioimaging Data". ome-zarr-book.readthedocs.io

ome-zarr-book.readthedocs.io

An Introduction to OME-Zarr for Big Bioimaging Data

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Crick Image Analysis Team @crick-ia-team.bsky.social · 03/11/2025

A day in the dark side, from light to electron microscopy image analysis! We're attending today the @ccp-volumeem.bsky.social meeting, discussing approaches to build a collaborative computational community for volume electron microscopy

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Constantin Pape @cppape.bsky.social · 17/10/2025

Are you studying synapses in electron microscopy? Tired of annotating vesicles? We have the tool for you! SynapseNet implements automatic segmentation and analysis of vesicles and other synaptic structures and has now been published: www.molbiolcell.org/doi/full/10....

SynapseNet is a deep learning based software tool that automates the segmentation of vesicles, mitochondria, synaptic compartments, and the active zone. This is visualized in three panels. On the left, a section of an electron tomogram with a synaptic compartment densely filled with vesicles, which appear as round structures with dark boundary and light body in the image, is shwon. The top right panel shows the segmentation result of vesicles, visualized by masks with an individual color per vesicle and outlines for the segmented compartment (red) and active zone (blue). The bottom right panels shows a 3D rendering of the segmentation with vesicles shown as yellow spheres.

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VolumeEM @volumeem1.bsky.social · 29/09/2025

🌟 Awesome vEM Images Competition deadline extended to Oct 6, 5 PM CT! 🌟 Submit to one or both categories: 1️⃣ The Power of EM 2️⃣ Bringing Meaning to the Data 🏆 $250 for 1st, $100 for 2nd & 3rd (each category) 🔗 www.volumeem.org/awesome-imag... Details and last year's winning images ⬇️

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VolumeEM @volumeem1.bsky.social · 24/08/2025

📣 The Awesome vEM Images Competition is back! Submit your images in one of two categories: 🖼️ The Power of vEM 🧠 Bringing Meaning to the Data (New!) 🏆 Prizes: $250 for 1st place, $100 for 2nd & 3rd in each category 📅 Deadline: Oct 2, 5PM CT 🔗 More details: www.volumeem.org/awesome-imag...

volumeem.org

Awesome image competition - 2025

📸 We are seeking impressive volume EM (vEM) images as part of our mission to promote our Volume EM Community Initiative and vEM techniques to the world! We'd love to offer you the opportunity to...

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VolumeEM @volumeem1.bsky.social · 23/08/2025

📣 Join Us for the 6th Annual Volume EM Community Initiative Town Hall Meeting on October 9th, 2025 from 3-6pm BST / 10am-1pm ET. A key theme of this year’s Town Hall is strengthening connections across the global community. 👉 Register now on our website: www.volumeem.org/2025-town-ha...

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Kyle Harrington @kyleharrington.com · 26/08/2025

Better ML for cryo-ET starts with better benchmarks. We built a phantom cryo-ET dataset (~500 tomograms) + hosted a Kaggle challenge. The result: community models beat expert tools. Read more in the @natmethods.nature.com article that just came out: 🔗 doi.org/10.1038/s415...

doi.org

A realistic phantom dataset for benchmarking cryo-ET data annotation - Nature Methods

A standardized, realistic phantom dataset consisting of ground-truth annotations for six diverse molecular species is provided as a community resource for cryo-electron-tomography algorithm benchmarki...

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Crick BioImage Analysis Symposium @cbias.bsky.social · 08/08/2025

Abstract submission #CBIAS2025 is closing on August 31st - we invite submissions on all topics related to #bioimageanalysis: new tools, biological discoveries using existing methods, and anything in between. Early-career researchers especially encouraged to submit! www.crick.ac.uk/whats-on/cri...

crick.ac.uk

Crick BioImage Analysis Symposium 2025

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Sali Davis @becomingsali.bsky.social · 28/07/2025

Great to see one of our own Lucy Collinson picking up the Distinguished Scientist Award at M and M this year. Well deserved and a wonderful accolade. Congratulations Lucy! @royalmicrosoc.bsky.social

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The Francis Crick Institute @crick.ac.uk · 14/07/2025

If you’ve ever wondered how we get high resolution images of incredibly tiny things, check out our latest video with @em-stp.bsky.social They discuss how electron microscopes use beams of electrons to see things that light microscopes can’t. www.youtube.com/watch?v=YMAe...

youtube.com

Seeing the Invisible with Electron Microscopy

YouTube video by Francis Crick Institute

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Nature Methods @natmethods.nature.com · 14/07/2025

As life sciences research becomes enmeshed in the age of AI, real experimental data are more valuable than ever. Read more in this month's Editorial. www.nature.com/articles/s41...

nature.com

Calling all data - Nature Methods

As life sciences research becomes enmeshed in the age of AI, real experimental data are more valuable than ever.

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CCP-volumeEM @ccp-volumeem.bsky.social · 09/07/2025

🚨 SAVE THE DATE 🚨 Inaugural CCP-volumeEM Community Meeting, 3rd November 2025 at @crick.ac.uk in London "Towards a collaborative computational community for volume EM" Timings: 12pm - 5.30pm, followed by networking reception #volumeEM #BioImageAnalysis #VEM #CCPvolumeEM #CoSeC

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