Martin Jones
Ex-physicist in a biology institute, working on image analysis and building new hardware at the Francis Crick Institute
ORCID: 0000-0003-0994-5652
- Reposted by Martin JonesUnleashing live-cell imaging for the masses! Adapting the OpenFlexure Microscope for Affordable Live-Cell Imaging www.biorxiv.org/content/10.6... Fits into existing incubators for time-lapse experiments & feeds into existing bioimaging analysis pipelines. Thanks @wellcometrust.bsky.social funding
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- Reposted by Martin Jones🔬UK researchers: Access cutting-edge bioimaging tech + expert support with our User Access Fund! 💷 £5k for imaging 💷 £2k for image analysis Choose from 6 top UK facilities, contact them, then apply! rms.org.uk/user-access-fund ⏰ Next deadline: 31 March ✅ Decision in 4 weeks Pls share!
- Reposted by Martin JonesiCASE PhD project available in my lab, combining microscopy method development with high throughput screening of bacteria. Applications to antibiotic drug discovery and screening for new cell division proteins. Collaboration with Cairn Research #microsky #bioimaging www.findaphd.com/phds/project...
- Reposted by Martin JonesWe Are hiring!! 👨💻👩💻 CALM's new Data and Systems Steward Role is live 🎉https://crick.wd3.myworkdayjobs.com/External/job/London/Data-and-Systems-Steward_R2551 closing date 8th Feb!
- Reposted by Martin JonesWe are hosting an #Ilastik workshop on March 27th, led by Dominik Kutra, senior research software engineer @ilastik-team.bsky.social The course is open to students and staff at @crick.ac.uk and partner universities (@ucl.ac.uk, @kingscollegelondon.bsky.social and @imperialcollegeldn.bsky.social)
- Reposted by Martin JonesThree of our early career participants wrote about their experiences at #CBIAS2025 on @focalplane.bsky.social. Check out the blog post!
- Jacqueline Chalakova, @afoix.bsky.social and @denzibubs.bsky.social share their highlights from #CBIAS2025 @cbias.bsky.social, with all three emphasising the welcoming atmosphere. Check out the reasons that #CBIAS2026 should be in your calendar⤵️ focalplane.biologists.com/2026/01/12/c...
- Reposted by Martin JonesThe #CBIAS2025 poster collection is now available, along with associated DOIs for further dissemination. Take a look! crick.figshare.com/collections/...
- Reposted by Martin JonesAnother brilliant #CBIAS2025 review is out, thanks to Virginia Silio, scientific ambassador for @eurobioimaging.bsky.social and Imaging Specialist at the Centre for Molecular & Cell Dynamics @ucl.ac.uk! www.eurobioimaging.eu/news/exchang...
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- Reposted by Martin JonesJacqueline Chalakova, @afoix.bsky.social and @denzibubs.bsky.social share their highlights from #CBIAS2025 @cbias.bsky.social, with all three emphasising the welcoming atmosphere. Check out the reasons that #CBIAS2026 should be in your calendar⤵️ focalplane.biologists.com/2026/01/12/c...
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- Reposted by Martin Jones✨New Year's resolutions involve learning something new?✨ Then apply for our “Introduction to Image Analysis” workshop in Cardiff in May 2026! Deadline for applications is January 16th. 🔗⬇️ www.rms.org.uk/rms-event-ca... @royalmicrosoc.bsky.social @david-j-barry.bsky.social @martinjones.bsky.social
- Reposted by Martin Jones*APPLY NOW* for Introduction to Image Analysis 2026! 😃🔬 Great workshop designed to empower researchers with the necessary skills and tools to confidently analyse their data. Apply by Fri, 16 Jan: ow.ly/hHRi50XNaG4
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- Reposted by Martin JonesNew video: more examples showing deep learning segmentation failure modes—and how to detect them with Napari. I show how Napari’s layer system compares images, ground truth, and results, and how Appose enables comparison across incompatible DL packages. www.youtube.com/watch?v=c369...
- Reposted by Martin JonesLess than a month to go before applications close for the Introduction to Image Analysis workshop in Cardiff (deadline 16th January)! @royalmicrosoc.bsky.social www.rms.org.uk/rms-event-ca...
- Applications for the next @royalmicrosoc.bsky.social “Introduction to image analysis” workshop are now open! Join us for 3 days in Cardiff in May to learn the foundations of #bioimageanalysis using Fiji, Python and @napari.org www.rms.org.uk/rms-event-ca...
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- Reposted by Martin JonesThis article suggests the possibility of training AI on pre-existing proposals and their review reports, scores and related decisions. I.e. training them on a system which is known to preferentially award larger amounts of money to white men. What could possibly go wrong?
- UKRI exploring use of AI in grant review - this will prompt debate but interested to know if people think it’d encourage novelty or the opposite? www.chemistryworld.com/news/ukri-op...
- Reposted by Martin JonesIf you or your trainees are just getting started with image analysis of cells & are #CellProfiler -curious, here is a fairly thorough walk-through demo I did recently. Loading files, extracting metadata (fun with Regex!), identifying objects, measuring, filtering, QC, exporting: youtu.be/fO5nJdhj_7I
- Reposted by Martin JonesHappy to share the first paper from my journey at @psich.bsky.social towards X-ray connectomics, now out in @natmethods.nature.com: www.nature.com/articles/s41...
- Reposted by Martin JonesOrganising 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!
- Reposted by Martin JonesResearchers at the Crick, @psich.bsky.social and @esrf.fr have developed a new way to look deeper into brain cell connections by using a particle accelerator and a kind of resin borrowed from the aerospace industry. www.crick.ac.uk/news/2025-11...
- Reposted by Martin JonesWant to automatically analyse your microscopy images but have no idea where to start? 👇
- Applications for the next @royalmicrosoc.bsky.social “Introduction to image analysis” workshop are now open! Join us for 3 days in Cardiff in May to learn the foundations of #bioimageanalysis using Fiji, Python and @napari.org www.rms.org.uk/rms-event-ca...
- Reposted by Martin JonesGet your #bioimageanalysis journey started with this workshop! 📍Cardiff, UK 🗓️18-20/05/2026
- Applications for the next @royalmicrosoc.bsky.social “Introduction to image analysis” workshop are now open! Join us for 3 days in Cardiff in May to learn the foundations of #bioimageanalysis using Fiji, Python and @napari.org www.rms.org.uk/rms-event-ca...
- Reposted by Martin JonesApplications for the next @royalmicrosoc.bsky.social “Introduction to image analysis” workshop are now open! Join us for 3 days in Cardiff in May to learn the foundations of #bioimageanalysis using Fiji, Python and @napari.org www.rms.org.uk/rms-event-ca...
- Reposted by Martin JonesTHANK YOU ALL for making another edition of CBIAS so special! Stay tuned for next year’s dates, we look forward to seeing you all again soon #CBIAS2025
- BIOIMAGE ANALYSTS ASSEMBLE!!! #CBIAS2025
- Reposted by Martin JonesHappy to share that ShapeEmbed has been accepted at @neuripsconf.bsky.social 🎉 SE is self-supervised framework to encode 2D contours from microscopy & natural images into a latent representation invariant to translation, scaling, rotation, reflection & point indexing 📄 arxiv.org/pdf/2507.01009 (1/N)
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- Reposted by Martin JonesCongratulations to @aafkegros.bsky.social for winning the Best Poster Award at #CBIAS2025! 🎉 Their Microscopy Nodes Blender plugin not only makes visualisation easier, but also shines as a brilliant link between computer vision, mathematics, and biology.
- Reposted by Martin JonesHad such a blast at #CBIAS2025 — a meeting full of image-analysis nerds (what more could you want?). If you’d like to learn more about movement, the Python package I presented, my slides are live at neuroinformatics.dev/slides-movem...
- Important question: what happens after the tracking? Lots of individual developments which don’t scale, are not maintained, and result in lots of unanalysed data. Or maybe not - movement fills that void #CBIAS2025 pypi.org/project/move...
- Reposted by Martin JonesIt was brilliant having the opportunity to chair this session at #CBIAS2025. Thank you to all the wonderful speakers discussing new tools for morphological analysis and event detection in microscopy 🔬
- Day two of #CBIAS2025 kicked off by @lankylaste.bsky.social from @crick.ac.uk and the first session is on physical and mathematical modelling chaired by @natalieah.bsky.social , with the first presenter Ewa Paluch from @cam.bsky.social
- Reposted by Martin JonesSecond #CBIAS2025 panel discussion on Interdisciplinary collaboration in bioimage analysis chaired by @virginieuhlmann.bsky.social panellists are @candiceroufosse.bsky.social from @imperialcollegeldn.bsky.social Andy French from @uniofnottingham.bsky.social and Amir Patel from @ucl.ac.uk
- Reposted by Martin JonesLast but not least: Samantha Ahern from the Society of Research Software #CBIAS2025
- Reposted by Martin JonesThe TrackMate helper is there to do just that. #CBIAS2025
- Reposted by Martin JonesLots of new features in TrackMate but with that comes increased uncertainty: which one is the right one? #CBIAS2025
- Reposted by Martin JonesSecond speaker is @jytinevez.bsky.social from @institutpasteur.bsky.social introducing TrackMate 8 #CBIAS2025
- Reposted by Martin JonesJean-Yves @jytinevez.bsky.social showcases the new #Trackmate version and the breadth of image analysis done at @pasteur.fr #CBIAS2025
- Reposted by Martin JonesSome more information and background reading #CBIAS2025
- Reposted by Martin JonesOn to session six of #CBIAS2025 chaired by @olatznv.bsky.social from @imperialcollegeldn.bsky.social first speaker is Kimberly Meechan from @ucl.ac.uk introducing the HEFTIE project: tools and training for getting started with OME-ZARR
- Reposted by Martin JonesBIOIMAGE ANALYSTS ASSEMBLE!!! #CBIAS2025
- Reposted by Martin JonesOvercoming Nyquist-Shannon limitation with deep learning #CBIAS2025
- Reposted by Martin Jones#CBIAS2025 Checklists to improve figures for publications derived from community consensus www.nature.com/articles/s41...
- Reposted by Martin JonesLast speaker of the session Ilaria Testa of @scilifelab.se from @kthuniversity.bsky.social on imaging very small things with high dynamics. #CBIAS2025
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- Reposted by Martin JonesOur very own @teunhuijben.bsky.social from the @loicaroyer.bsky.social lab at the Biohub gave a brilliant overview of their journey to improve tracking and visualisation (and our lives in general 😝) at #CBIAS2025 👩🏻💻🔬👩🏻🔬 #tracking #interdisciplinary #bioimageanalysis
- Reposted by Martin JonesSecond speaker is @teunhuijben.bsky.social from @loicaroyer.bsky.social group at @czbiohub.bsky.social #CBIAS2025 Tracking is hard because segmentation is hard, especially in whole zebra fish embryos: Ultrack can help github.com/royerlab/ult...
