📢 Release alert! This one lets *all* Intel GPUs use BoneJ+ 🤖 If you have an Intel Iris Xe, UHD or Arc, support is more robust. Background: Intel omitted 64-bit floating point precision (double) in their GPUs since c. 2020: this update uses the universally-supported single-precision float type.

Happy holidays from an amazing team.

🔬 Honoring Spencer Shorte's legacy Jan 28, 2026 Institut Pasteur symposium celebrating a pioneering figure in bioimaging & core facilities. Scientists worldwide will share how his visionary work continues to shape research. Free registration: forms.cloud.microsoft/pages/respon...

I was invited by @focalplane.bsky.social to write a short description about it: focalplane.biologists.com/2025/12/12/a...

#Mastodon, the Command Center for Large-Scale Lineage-Tracing Microscopy Datasets, is finally heading for publication (well, let's see). To #cite or not to cite shall no longer be the question 🙃, because the #preprint. Software is available in every #Fiji near you. www.biorxiv.org/content/10.6...

If you want to learn more about Appose, check out the hands-on Appose workshop from "Halfway to I2K" 2025: fiji.github.io/i2k-2025-app... – along with the reference implementation of the demo project at github.com/ctrueden/uns.... New releases of python and java flavors coming before year's end.

🚀⭐️ Trackastra update 🚀⭐️ We just released a new model that uses pre-trained image features from Meta’s SAM2 model. This improves performance on many datasets, most notably for bacteria tracking. To give it a try, simply install with the new optional dep `etultra` github.com/weigertlab/t...

The new version of TrackMate, the v8.1 has just been released. It builds upon the recent v8, linked below, and offers two main improvements 👇

Here is a presentation by Samuel Panze on ManVR3D (Manfred), PhD student extraordinaire in the unit of Ulrik Gunther, and that built an eye tracker, VR based tool for tracking cells. ManVR3D uses Mastodon as the tracking backbone 🎉 youtu.be/02WpqQypVig?...

Come to be our colleague! Center of Paris, excellent facilities, research spanning the whole range of basic and biomedical life science topics, enthusiastic and collaborative colleagues, crème brûlée every Friday... What else could one want?

🚨 Je cherche des chercheur-ses de toutes disciplines pour un doc radio pour parler de leur sujet de recherche mais aussi de leur quotidien (une journée type au labo). Contrainte supplémentaire, le labo doit être hors de Paris. Plus d'infos : forms.gle/hw9wH2p5UH4A...

🏆 4 Institut Pasteur scientists awarded by French Academy of Sciences @academiesciences.bsky.social 🥇 Romain Levayer 🥇 Pierre-Jean Corringer 🥇 Eduardo Rocha 🥇 Hervé Bourhy Congratulations !

Paris 13eme now.

Participez à l'étude #POPCORN lancée par l'équipe "Épidémiologie des maladies émergentes" de l'Institut @pasteur.fr pour comprendre l’évolution des attitudes et des comportements à l’égard des mesures préventives si nous devions faire face à une nouvelle #pandémie redcap.link/popcorn-past...

This looks great! OrganoidTracker 2.0 performs tracking AND returns estimate of the tracking error rate **locally**. Interesting for frameworks that guide users towards plausible tracking mistakes www.nature.com/articles/s41...

Interested in Zebrafish brain imaging? We released a 3D printed mold that's is super helpful for us. Check it out Customizable FDM-based zebrafish embryo mold for live imaging www.biorxiv.org/content/10.1... Work by Marcela and Jaakko in the lab

Eurostar: it’s a train but you’ll be as miserable as in an airport

Second speaker is @jytinevez.bsky.social from @institutpasteur.bsky.social introducing TrackMate 8 #CBIAS2025

BIOIMAGE ANALYSTS ASSEMBLE!!! #CBIAS2025

🎥 Discover the Institut Pasteur Education Center! We’re excited to unveil the new presentation video of our Education Center, a space dedicated to training the next generation of scientists, health professionals, and researchers from around the world ➡️ www.pasteur.fr/en/education... @pasteur.fr

Classical aftermath

#CBIAS 2025 let’s go!!

Recently out: “Uniform dynamics of cohesin-mediated loop extrusion in living human cells”. In this study led by brilliant former PhD student Thomas Sabaté we use live cell microscopy and polymer simulations to characterize how DNA loops and TADs form in human cells by cohesin-driven extrusion. (1/4)

Finally, the first public release of #BigVolumeBrowser, so after teasers, you can try it yourself. For details, please check the announcement post (1/2) forum.image.sc/t/bigvolumeb...

Trackastra is part of the brand-new TrackMate v8. It is the first deep-learning-based ("AI") drop-in replacement for TrackMate's regular LAP-Track algorithm. Tracks out of the box for many types of datasets (bacteria, fluorescent nuclei, phase contrast cell culture etc), zero parameters to tune 🤖

Give it a try following the tutorial made by @jytinevez.bsky.social imagej.net/plugins/trac...

We just released a new major version of TrackMate (v8), the cell and organelle tracking plugin of Fiji. It ships many new features, detailed below, but that are articulated around the following:

Scientific fois gras is on the way

From PhD in Hong Kong to @institutpasteur & back to Australia @wehi-research.bsky.social. An enlightening #TheMicroscopists with Kelly Rogers incl the challenges of balancing research/facilities/& staff. + wanting to be a forester & passions outside of work. Stream: bit.ly/microscopist...

I won't talk about NMeth @natmethods.nature.com forever (probably), but I do want to brag a bit about the November focus issue on cell segmentation and tracking, which is many ways is my last hurrah (and final editorial) for the journal. I am so proud of these papers!! www.nature.com/nmeth/volume...

137 years ago today 🎂 Institut Pasteur opened in Paris (Nov 14, 1888 🏛️) Funded by 100K+ donors after the rabies vaccine success, it launched a scientific legacy: 🔬 10 Nobel Prizes 🌍 32 Pasteur Network Institutes 💉 Countless lives saved From rabies to COVID-19, the mission continues.

Copenhagen I am in you!

Master colocalization! Join our webinar Nov. 11 for multiple time zones: svi.nl/WebinarSched...

My new ImageJ / Fiji toolkit is out 🔥! The goal is to make image handling & visualization easy, with an intuitive interface! Install it on Fiji with the "Image Viewer" update site #microscopy #ImageJ #FluorescenceFriday #microscopyMonday imagej.net/plugins/imag...

When in Rome, do as the Romans do Go teams!

Registration for Halfway to I2K is now OPEN! And workshop submission is still too (for a bit)! Join 20+ presenters and counting, and hundreds of attendees in learning about image analysis, whether you're a complete beginner or a total pro.

Some good news

Nouvelle vidéo ! LES MACHINES DE TURING, où l’on essaye de comprendre pourquoi, en un certain sens, tous les ordinateurs de l’Univers se valent, et ont tous les mêmes points aveugles. youtu.be/o_swEgbBhMU

👩‍🔬 Cette semaine, 5 chercheuses de l’Institut Pasteur font la Une des médias ! De la santé des femmes au cancer, de la psychiatrie à l'intelligence artificielle... Leurs recherches font avancer la science. Thread ⤵️ 1/6

#JobOffer 💼 Postdoctoral Researcher (M/F) in Biophysics of Bacterial Infection 📆 January 1st, 2026 📍Institut Jacques Monod, Bonazzi Lab Apply before November 6th 🔗 emploi.cnrs.fr/Offres/CDD/U...

🦠🔬🤖🧑‍💻 #mAIcrobe interface preview, a platform for #DeepLearning enabled bacterial image-based phenotyping. Check it out 💻: github.com/HenriquesLab... 📄: www.biorxiv.org/content/10.1...

What are these? You are looking at embryos of a sea squirt. Each of the 'soap bubbles' is a living cell, about a fourtieth of a millimetre in size. The outlines of the cells are visible thanks to fluorescent markers identified by Hitoyoshi Yasuo @hitoyas.bsky.social see doi.org/10.1101/2024... 🧵

Want to automate workflows in #FIJI? Don't know where to start? We (@lankylaste.bsky.social, Alicja Skórkowska and Sara Salgueiro Torres) have added a step-by-step tutorial to the wiki to get you started. Thanks @ctrue.bsky.social for adding! imagej.github.io/tutorials/ba...

🇬🇧 Are you based in the UK? 💻 Do you spend a significant amount of time working on #BioImageAnalysis? 🧑‍🤝‍🧑 Want to spend time supporting external users? The UK BioImage Analysis Network (UK-BIAS) might be for you. Apply below before November 5th. forms.gle/XhP15nxg2ZgW...

The next @unileipzig.bsky.social's  #LunchLectures will take place on October 23, this time featuring @haesleinhuepf.bsky.social  from @scadsai.bsky.social . He will give a lecture on “How generative AI influences research and teaching.” 👉 https://f.mtr.cool/srahlhpary

New paper finally out on @natcomms.nature.com! Led by first author Maria Dramé with the collaboration of Francisco Garcia, @cbuch.bsky.social and @jytinevez.bsky.social at @pasteur.fr. Early mitochondrial signals in single human macrophages predict later Legionella replication. Link + details👇🧵

Six Pasteur scientists win 2025 L’Oréal-UNESCO Young Talents! 🌟 Yolène: Caribbean plants vs dengue mozzies; Leah: gastruloid biophysics; Marion: cancer immunotherapy; Eulalie: menstruation genetics; Sabrina: fixing hearing nerve; Marie: TB & sarcoid immunity. #WomenInScience

Hi all. This is the recording of the online seminar I gave following the kind invitation of #GLOBIAS. I share what we have learned delivering #BioimageAnalysis services in the IAH core facility of the @institutpasteur.bsky.social research.pasteur.fr/en/team/imag... ⬇️

The connectome of the entire male Drosophila central nervous system is out!! Acquired using FIB-SEM @ 8x8x8nm, we aligned 7.5 mio 2D images aligned into one seamless 3D volume, which was used to segment & proofread neurons and synapses. @hhmijanelia.bsky.social www.biorxiv.org/content/10.1...

📢Apply now – Mother-Child Dyad: Current Evidence in a Global Perspective Pasteur Course This 1 week intensive course provides an up-to-date overview of maternal & child health in a global context, with a focus on the first 1,000 days of life, a critical period for lifelong health 👉 bit.ly/46ZKZpj