Martin Jones
@martinjones.bsky.social
Ex-physicist in a biology institute, working on image analysis and building new hardware at the Francis Crick Institute
ORCID: 0000-0003-0994-5652
ORCID: 0000-0003-0994-5652
Reposted by Martin Jones
THANK 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
#CBIAS2025
November 26, 2025 at 10:45 AM
THANK 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
#CBIAS2025
Reposted by Martin Jones
Happy 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)
📄 arxiv.org/pdf/2507.01009 (1/N)
September 23, 2025 at 8:32 AM
Happy 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)
📄 arxiv.org/pdf/2507.01009 (1/N)
Reposted by Martin Jones
An immense thank you again to @cbias.bsky.social committee, sponsors and fellow imaging friends for this fantastic symposium!
It's is not the end but the beginning of tons of papers to read, colleagues to contact, new collaborations to form. And most importantly, it's a 'see you soon' #CBIAS2026 🔬🥰
It's is not the end but the beginning of tons of papers to read, colleagues to contact, new collaborations to form. And most importantly, it's a 'see you soon' #CBIAS2026 🔬🥰
November 25, 2025 at 6:26 PM
An immense thank you again to @cbias.bsky.social committee, sponsors and fellow imaging friends for this fantastic symposium!
It's is not the end but the beginning of tons of papers to read, colleagues to contact, new collaborations to form. And most importantly, it's a 'see you soon' #CBIAS2026 🔬🥰
It's is not the end but the beginning of tons of papers to read, colleagues to contact, new collaborations to form. And most importantly, it's a 'see you soon' #CBIAS2026 🔬🥰
Reposted by Martin Jones
Another brilliant #CBIAS2025. Now I know the rest of my week will be testing out all those cool new analysis tools!
November 25, 2025 at 7:18 PM
Another brilliant #CBIAS2025. Now I know the rest of my week will be testing out all those cool new analysis tools!
Reposted by Martin Jones
Congratulations 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.
November 25, 2025 at 3:56 PM
Congratulations 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 Jones
Had 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...
If you’d like to learn more about movement, the Python package I presented, my slides are live at neuroinformatics.dev/slides-movem...
November 25, 2025 at 5:01 PM
Had 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...
If you’d like to learn more about movement, the Python package I presented, my slides are live at neuroinformatics.dev/slides-movem...
Reposted by Martin Jones
It 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
November 25, 2025 at 3:29 PM
It 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 🔬
Reposted by Martin Jones
Second #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
November 25, 2025 at 3:00 PM
Second #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 Jones
Last but not least: Samantha Ahern from the Society of Research Software #CBIAS2025
November 25, 2025 at 2:47 PM
Last but not least: Samantha Ahern from the Society of Research Software #CBIAS2025
Reposted by Martin Jones
The TrackMate helper is there to do just that. #CBIAS2025
November 25, 2025 at 2:31 PM
The TrackMate helper is there to do just that. #CBIAS2025
Reposted by Martin Jones
Lots of new features in TrackMate but with that comes increased uncertainty: which one is the right one? #CBIAS2025
November 25, 2025 at 2:27 PM
Lots of new features in TrackMate but with that comes increased uncertainty: which one is the right one? #CBIAS2025
Reposted by Martin Jones
Second speaker is @jytinevez.bsky.social from @institutpasteur.bsky.social introducing TrackMate 8 #CBIAS2025
November 25, 2025 at 2:18 PM
Second speaker is @jytinevez.bsky.social from @institutpasteur.bsky.social introducing TrackMate 8 #CBIAS2025
Reposted by Martin Jones
Jean-Yves @jytinevez.bsky.social showcases the new #Trackmate version and the breadth of image analysis done at @pasteur.fr
#CBIAS2025
#CBIAS2025
November 25, 2025 at 2:17 PM
Jean-Yves @jytinevez.bsky.social showcases the new #Trackmate version and the breadth of image analysis done at @pasteur.fr
#CBIAS2025
#CBIAS2025
Reposted by Martin Jones
Some more information and background reading #CBIAS2025
November 25, 2025 at 2:13 PM
Some more information and background reading #CBIAS2025
Reposted by Martin Jones
On 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
November 25, 2025 at 2:06 PM
On 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 Jones
November 25, 2025 at 1:06 PM
Reposted by Martin Jones
Overcoming Nyquist-Shannon limitation with deep learning #CBIAS2025
November 25, 2025 at 12:21 PM
Overcoming 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...
November 25, 2025 at 11:38 AM
#CBIAS2025 Checklists to improve figures for publications derived from community consensus www.nature.com/articles/s41...
Reposted by Martin Jones
Last speaker of the session Ilaria Testa of @scilifelab.se from @kthuniversity.bsky.social on imaging very small things with high dynamics. #CBIAS2025
November 25, 2025 at 12:10 PM
Last speaker of the session Ilaria Testa of @scilifelab.se from @kthuniversity.bsky.social on imaging very small things with high dynamics. #CBIAS2025
Reposted by Martin Jones
New release of the TrackMate single particle tracking plugin for ImageJ by @jytinevez.bsky.social looks amazing! forum.image.sc/t/trackmate-...
Loads of new features, most excitingly to me deep learning segmentation algorithms including Omnipose (for cells), and Spotiflow (for spots) #bioimaging
Loads of new features, most excitingly to me deep learning segmentation algorithms including Omnipose (for cells), and Spotiflow (for spots) #bioimaging
TrackMate v8 - segmentation editor and Python CLI integration
TrackMate v8: 2D Segmentation Editor & Python CLI Integration Hi everyone, I am excited to announce TrackMate v8, a major update introducing key improvements for both end-users and developers. Mai...
forum.image.sc
November 24, 2025 at 2:14 PM
New release of the TrackMate single particle tracking plugin for ImageJ by @jytinevez.bsky.social looks amazing! forum.image.sc/t/trackmate-...
Loads of new features, most excitingly to me deep learning segmentation algorithms including Omnipose (for cells), and Spotiflow (for spots) #bioimaging
Loads of new features, most excitingly to me deep learning segmentation algorithms including Omnipose (for cells), and Spotiflow (for spots) #bioimaging
Reposted by Martin Jones
Our 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
November 25, 2025 at 11:52 AM
Our 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 Jones
Second 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...
Tracking is hard because segmentation is hard, especially in whole zebra fish embryos: Ultrack can help github.com/royerlab/ult...
November 25, 2025 at 11:51 AM
Second 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...
Tracking is hard because segmentation is hard, especially in whole zebra fish embryos: Ultrack can help github.com/royerlab/ult...
Reposted by Martin Jones
Once the tracking is done, visualise in inTRACKtive github.com/royerlab/inT... #CBIAS2025
GitHub - royerlab/inTRACKtive: Interactive visualization and sharing of cell tracking data in the browser
Interactive visualization and sharing of cell tracking data in the browser - royerlab/inTRACKtive
github.com
November 25, 2025 at 11:53 AM
Once the tracking is done, visualise in inTRACKtive github.com/royerlab/inT... #CBIAS2025
Reposted by Martin Jones
Emotional response is invoked before the cognitive response which can be harnessed to make graphs and data more memorable #CBIAS2025
November 25, 2025 at 11:30 AM
Emotional response is invoked before the cognitive response which can be harnessed to make graphs and data more memorable #CBIAS2025
Reposted by Martin Jones
It’s wonderful when a venue feels like home. Thanks to #CBIAS2025 organisers for welcoming established researchers and supporting so many early-career scientists year after year. Grateful for the amazing bioimage analysis community in the UK, Europe and beyond 🔬👩🏻💻👩🏻🔬. #bioimage #interdisciplinary
Next to @afoix.bsky.social from @virginieuhlmann.bsky.social lab @ebi.embl.org talking about data-driven shape qualification for 2D microscopy Images
November 25, 2025 at 11:37 AM
It’s wonderful when a venue feels like home. Thanks to #CBIAS2025 organisers for welcoming established researchers and supporting so many early-career scientists year after year. Grateful for the amazing bioimage analysis community in the UK, Europe and beyond 🔬👩🏻💻👩🏻🔬. #bioimage #interdisciplinary