- A postdoc to work on cancer extravasation (4-year project). - A postdoc help in completing Filopodia-related lab projects (2-year). - Multiple Marie Curie postdoc positions that will open in the fall. - We will open a 5-year position to cover my teaching (70% research and 30% teaching).

Are you looking for a postdoc? I will be looking for 2-4 people after the summer to join the lab !! Do not hesitate to reach out and disseminate !!

Walking through streets of Helsinki. After-conference social events are the best way to finish the day. Sunny Helsinki summer night, good weather, good company, what else can one ask for? @florianjug.bsky.social @jwpylvanainen.bsky.social @turkubioimaging.bsky.social @ai4life.bsky.social

4th day on the go for #neubiaspasteur2025 with a @biapyx.bsky.social practical course by @jwpylvanainen.bsky.social and a #cellpose #dask and RNA2Seg (doi.org/10.1101/2025...) course with @gaellel.bsky.social and Alice Blondel

Perfect way to finish the day with ☀️ and warm evening. Thanks to the teachers and dear colleagues @jwpylvanainen.bsky.social @mambroset.bsky.social @gaellel.bsky.social @m-albert.bsky.social Carlos Garcia-Lopez & Heloise Monnet, and the students that join us !

Second day with Ilastik (@ilastik-team.bsky.social) covered by @MinhSonPhan, with @strigaud.bsky.social and @jytinevez.bsky.social as helpers. How to easily train a pixel classifier to segment focal adhesions..

Kick-starting the #neubiaspasteur2025 #BioImageAnalysis courses at @pasteur.fr and @pasteuredu.bsky.social

Just arrived to Institute Pasteur in Paris for Neubias Image analysis course. Todays opening talk about the future of bioimage analysis by @florianjug.bsky.social - very cool week ahead! #neubiaspasteur2025

Introducing warpfield, an open source Python library for GPU-accelerated non-rigid 3D registration. Warps and aligns gigavoxel volumes within seconds (not hours). For 3D microscopy, region-to-region and cell-to-cell matching. A collaboration with @mh123.bsky.social 🚀 github.com/danionella/w...

Second round of hashtag#GloBIAS Free Help (previously Call4Help) is happening in May. You can register for the sessions on our webpage: www.globias.org/activities/g... Registration deadline is 7. May 2025.

If you train people in ImageJ, Fiji, whatever, even if it isn't your day job, please let us know, and please share this post! Thanks a ton, we really appreciate it. (2/2) forms.gle/C8dUpg8qZkbD... #bioimaging #microscopy #bioimageanalysis

Joanna Pylvänäinen @jwpylvanainen.bsky.social Hanna Grobe and Guillaume Jacquemet @guijacquemet.bsky.social present their practical guidelines for data exploration in quantitative cell biology. journals.biologists.com/jcs/article/... #OpenAccess

Delighted to announce that @erinweisbart.bsky.social and I have teamed up to create a new bioimage analysis video podcast called Ask Erin/Dear Beth - you can check it out at the link below! It will highlight common challenges in #bioimageanalysis, as well as our favorite solutions to them. (1/x)

We wrote an opinion with simple, practical advice for building data exploration workflows in quantitative cell biology with @guijacquemet.bsky.social and @hanna09.bsky.social . I hope you find it useful!

Repost appreciated: Open #PhDposition in structural virology in my group! Join us in Umeå, 🇸🇪 to uncover how arboviruses remodel the cellular interior. In situ #cryoET combined with #virology, #cellbiology, and #biophysics. Deadline 4 May. More info: www.carlsonlab.se/join/

Jamie Hyneman's lecture on creative problem solving & climate innovation was packed, so we found a cozy spot in the streaming room to watch live with @ivanhcenalmor. @aboakademi.bsky.social

In their Essay, @jwpylvanainen.bsky.social, @guijacquemet.bsky.social and @lankylaste.bsky.social outline their practical recommendation for developing image analysis software for life science applications. journals.biologists.com/jcs/article/...

Excellent set of guidelines for anyone developing software for life scientists, from @jwpylvanainen.bsky.social, @lankylaste.bsky.social and @guijacquemet.bsky.social journals.biologists.com/jcs/article/...

Awesome to have @henriqueslab.bsky.social join us as a visiting professor!!!

Check this one out! This is a great read (I am bias). But Joanna and Stefania did an amazing job putting the article together.

And it’s out! Thanks to @bethcimini.bsky.social and all the participants in the @biologists.bsky.social “Effectively Communicating BioImage Analysis” workshop last year for the fruitful discussions that started the idea behind this paper. Get reading and let us know what you think!

Fresh from the press! @lankylaste.bsky.social, @guijacquemet.bsky.social and I put together a practical guide on how to develop software for life science applications.

Yet another throwback to my thesis work—digging into year-old data. For once, past me did future me a favor: everything nicely documented in one place! 💪🏻

To publish or not to publish? And where to publish? Hopefully @guijacquemet.bsky.social can answer some of these questions in his presentation today. @aboakademi.bsky.social

And with that the first ever @v4sdb.bsky.social Student Winter School came to the end. Thanks for all for coming, and you will be able to find all the course material on the website: danio-elte.github.io/2025V4SDBStu...

We just released and uploaded a new version of *Mastodon*, the large-scale tracking and track-editing framework for large, multi-view images. Mastodon is available via Fiji, via a dedicated update site. mastodon.readthedocs.io/en/latest/do... Below is a thread that survey some of the novelties ⏬️

2025 is now well underway and we are happy to announce that ZIDAS is coming to Basel this year ! 2025.zidas.org

Great talks and hands-on sessions at @v4sdb.bsky.social's Winter School 2025 in beautiful Budapest! 🤗 Yesterday, @jekely.biologists.social.ap.brid.gy and @jwpylvanainen.bsky.social guided us through CATMAID, TrackMate, and CellTracksColab. 🧫 More imaging data analysis and programming ahead! 🧑‍💻

The second day of the @v4sdb.bsky.social WinterSchool started again with @jekely.biologists.social.ap.brid.gy and some nice CATMAID-based analysis of the Platynereis connectome, followed by @jwpylvanainen.bsky.social talking about TrackMate and CellTracksColab (danio-elte.github.io/2025V4SDBStu...).

I put together a small guide on how to get started with Fiji. Please distribute to anyone who might benefit form this! zenodo.org/records/1477... #imageanalysis #fiji #imagej #training

Call 4 Help Pilot Event by GloBIAS, 22 Jan–5 Feb 2025! Offering life scientists a chance for hands-on guidance & support for #bioimage_analysis using Napari, Ilastik & CellProfiler. 💡 Details: www.globias.org/activities/c... 🔗 Sign up! Application until Friday 17 Jan: forms.gle/7hsJgramrFXB...

Yesterday we celebrated the lab's 5th anniversary (a few months late) and welcomed our new lab members 🎉🎉

From the Henriques lab comes NanoPyx, which optimizes bioimage analysis by dynamically selecting code variations based on input data and hardware to ensures maximum computational efficiency. www.nature.com/articles/s41...

Synchronized filopodial formation for #FluorescenceFriday 💥 #CellBiology #Microscopy @vucellimaging.bsky.social

There are now 24 step-by-step guides, explaining how to create these ⬇️ data visualizations with R/ggplot2 - I hope this is a useful resource. Find them all here: joachimgoedhart.github.io/DataViz-prot...

Microscope image drifting is an everyday headache in my job. Why not try to find some beauty in it?! Also, it would be nice if microscopes were made stable 😜 #fluorescenceFriday

Sometimes, a simple message can inspire the development of a new custom image analysis tool. 🌟 Since our xCELLigence doesn't support standalone image analysis, we built one tailored to the research needs of @ivaskalab.bsky.social. github.com/CellMigratio... #Collaboration

📣 Many #EuroBioImaging Nodes, facilities & friends are on BlueSky🦋! Here are some to follow 🔽 @bioimaginguk.bsky.social @france-bioimaging.bsky.social @danishbioimaging.bsky.social @sln-icfo.bsky.social Don't miss the starter pack 🔽 go.bsky.app/VoeAfuN Join us - Nominate yourself or reply here!

Trying something new: For our recent preprint: Fast label-free live imaging reveals key roles of flow dynamics and CD44-HA interaction in cancer cell arrest on endothelial monolayers www.biorxiv.org/content/10.1... I made an online presentation: www.beautiful.ai/player/-ODGe...

Pro-tip for PIs: How to keep your lab members happy? Thanks again @guijacquemet.bsky.social 😁

Don't miss the final Postdocs in Flames Café of the year! 🔥 This Friday, join Prof. Tapani Viitala (ÅAU, UoH) on how niche research drives industrial success. 🧪📈 MediCity Seminar Room, BioCity 4th Floor. Coffee & pulla—first come, first served! ☕🍩 #PiFCafe #InFlames_flagship

We are happy to report that our journals and community sites now have Bluesky accounts. Follow them at: @dev-journal.bsky.social @jcellsci.bsky.social @jexpbiol.bsky.social @dmmjournal.bsky.social @biologyopen.bsky.social @the-node.bsky.social @prelights.bsky.social @focalplane.bsky.social

Don't miss the last Postdocs in Flames Café of the year this Friday! 📢 Speaker: Prof. Tapani Viitala (ÅAU,UoH) 🎯 Topic: How niche research can lead to successful industrial collaboration 📅 Fri 29 Nov, 13–14 📍 MediCity Seminar Room, BioCity 4th Floor #PiFCafé InFlames_flagship

Some fun adventures to wait for next year, thanks for the kind invitation @mvargam.bsky.social :)

Check this recent talk from collaborator and pal @guijacquemet.bsky.social at UCL: fundamental cell biology tackled with cutting-edge image analysis methods www.youtube.com/watch?v=KTdZ...

Another day, another #BigDataViewer video. This time an orthoviewer + a BigVolumeViewer. Dataset = Allen Brain Atlas CCFv3. #Fiji #ImageJ All those demos will be accessible in Fiji with the PTBIOP update site soon.

We are looking for a Professor or Associate Professor (Level 2) in Biochemistry at @AboAkademi #Turku abo.rekrytointi.com/paikat/index... Please RT and tell your friends!! Any questions do not hesitate to ask!

Register! Free webinar March 5: "Figure making best practices" by BINA (Bioimaging North America) www.bioimagingnorthamerica.org/events/figur...

Biennial, free microscopy bootcamp at Janelia. Learn how hypothesis formulation, quantitative experimental design, advanced microscopy and data analysis facilitate exploration across biological length scales. Please circulate! Apply by Feb. 15 @ www.aicjanelia.org/imagingacros...