Ricardo Henriques

Let's get ready for a full month of training in image analysis in @pasteur.fr , this summer!

Are you interested in learning how to do bioimage analysis? For light microscopy? for cryo-EM? And for cellular cryo-EM?

Stay tuned, Pasteur offers access to THREE courses, this June.

👇🎓

#quarto template for bioRxiv preprints, inspired by @henriqueslab.bsky.social

github.com/chi-raag/bio...

❤️

Delighted to share our latest preprint "Filopodia-mediated trans-endocytosis"

www.biorxiv.org/content/10.6...

Work driven by many people including Hanna, Marcela, Sujan, Marie-Catherine, Anna and Monika. Fantastic collaboration with Johanna Englund, Emilia Peuhu, and Eija Jokitalo

As always preprint formated using the #RxivMaker engine created together with @henriqueslab.bsky.social
github.com/HenriquesLab...

Thank you for bringing us along in the journey =)

Spatiotemporal coordination of Slit-Robo repulsion and neurturin-Gfrα attraction guides multipolar migration during retinal lamination Multipolar migration is a conserved neuronal migration mode in the developing brain, enabling emerging neurons to navigate in crowded environments and…

Check out the tour de force by @jalehtimaki.bsky.social in its final form: www.sciencedirect.com/science/arti... . An elegant combination of transcriptomics, F0 screens and high end imaging unravels the cues that guide cells (here retinal horizontal cells) in an increasingly crowded tissue. #proudPI

Fill out our community survey to help shape the future of JCS Journal of Cell Science logo Line drawing of a group of people with speech bubbles above their heads

After 15 years as Editor-in-chief (EiC), Michael Way @drmichaelway.bsky.social will be stepping down at the end of 2026 & we are seeking feedback from the cell biology community as part of the consultation process for appointing a new EiC.
We'd love to hear from you: www.surveymonkey.com/r/GZCC9F9

The Microscopists interviews Christophe Leterrier YouTube video by The Microscopists

I made sausage pasta on Tuesday night and @manuelthery.bsky.social approves
youtu.be/ZutJ8fzIDRQ?...

If you run the ezgui code in the terminal it gives you a TUI, if in Jupyter a notebook GUI (same code), meaning that the UI adapts to you run context. Plus it remembers your settings and dynamically reloads/saves them

We have been thinking a lot recently on how to share and interact with code when doing image analysis. This is one piece of the puzzle. Awesome work driven by Bruno S.

Always a delight to work with @henriqueslab.bsky.social 🫶
More to come soon 😄.

Congratulations, @bioimagearchive.bsky.social! This pubic data repository has received @elixir-europe.org’s CDR and EDD status! Great recognition for a great resource! 🎉
Learn more🔽
www.eurobioimaging.eu/news/bioimag...

EZInput: A Cross-Environment Python Library for Easy UI Generation in Scientific Computing Researchers face a persistent barrier when applying computational algorithms with parameter configuration typically demanding programming skills, interfaces differing across environments, and settings...

Huge kudos to the team that made this happen: the brainchild of Bruno Saraiva, with contributions from Iván Hidalgo-Cenalmor, António Brito, Damián Martínez, and Tayla Shakespeare! 🙌 We built this to simplify how we interact with our own tools. Hope you find it useful too! 👇
arxiv.org/abs/2601.08859

We also needed something flexible for modern AI workflows 🤖. With EZInput, you get cross-environment support: same code, same interface. It works as a widget in Jupyter/Colab OR as a TUI in the terminal. 🖥️ Perfect for prototyping and then accelerating experimentation on the cluster 🚀

We always loved how ImageJ "remembers" your last used values. We missed that in notebooks! 🧠 EZInput gives your Python scripts that same memory. It handles validation and persists inputs between sessions. This reduces manual repetition and makes reproducibility much easier 📝✨

📯👨‍🚀 Calling all #bioimage analysis aficionados. #EZInput is out! We wanted to bring #ImageJ’s capacity to record settings to the #Python ecosystem 🐍. It is a declarative library for generating UIs that just work. Done with @guijacquemet.bsky.social lab

arxiv.org/abs/2601.08859 #ScientificComputing

a man is looking out of a window with the words come home soon written on the screen behind him . ALT: a man is looking out of a window with the words come home soon written on the screen behind him .

The SMLM people reading...

Direct labeling of microtubule turnover reveals in-lattice repair and stabilization patterns in developing neurons The microtubule cytoskeleton is the backbone of neuronal morphogenesis, driving the development of the dendrites and axon, and supporting trafficking to distant compartments. How neuronal microtubules...

🚨The Neurocyto lab is branching out in our latest preprint! We used tubulin microinjection to directly visualize microtubule turnover in developing hippocampal neurons, demonstrating the presence of in-lattice repair and a selective stabilization in the nascent axon. Check below, or read on 🧵 1/9

Congrats to the newest PhD graduate at our lab, supervised by
@henriqueslab.bsky.social, now Dr. @afonsomendes92.bsky.social!👨🏼‍🎓👏

His research work culminated in the publication of #SReD in
Nature Communications. Read here: tinyurl.com/NatureSRed

@gimmfoundation.bsky.social
@itqbnova.bsky.social

👁️I spy our Scientific Advisory Board members on the @jcellsci.bsky.social cover.
FocalPlane is a youngster at 5 years old, but we're looking forward to continuing our development in 2026 with the help of the #microscopy and #cellbio communities.

One of my favorites features is that you can now cite using DOI in line with the text. #RxivMaker automatically fetches the citation and update your documents. No more messing around with Biblitex ❤️

Many of these are from @guijacquemet.bsky.social lab, who is rocking side by side as we develop #RxivMaker together

#Linux and #Windows (using wsl), if you have #pipx you can just:

# Install
pipx install rxiv-maker

# Verify
rxiv check-installation

# Create test manuscript
rxiv init test-paper
cd test-paper

# Generate PDF
rxiv pdf

If you want to give it a try and you're using #MacOs with #brew, its as easy as running:

# Install
brew tap henriqueslab/formulas
brew install rxiv-maker

# Create test manuscript
rxiv init test-paper
cd test-paper

# Generate PDF
rxiv pdf

Check out rxiv-maker.henriqueslab.org/examples/sho... to have a look at the preprints already using #RxivMaker

🚀📰 End-of-year news for #RxivMaker =). Now it generates both #pdf and #docx from #markdown. Docx makes it easier to collaborate on a document for non-markdown users, making it simple to loop between docx and #RxivMaker to a professional-looking #preprint

Preprint updated: arxiv.org/abs/2508.00836

Wuhuuu!!!
I miss you Christophe! Lets gather the peeps after new year over zoom and have a very awkward virtual-beer together

On my last day in the lab for 2025… I sneak into the h-index 40 club to join @henriqueslab.bsky.social!
#celebrateallthethings

🧬 @itqbnova.bsky.social has 15 BRIDGE fellowships for Master's graduates pursuing PhDs!

We have a spot: "Decoding the morphological language of infection using AI". Build AI to map how viruses hijack cells & bacteria survive antibiotics.

Deadline: 05/01/2026
www.itqb.unl.pt/education/br...

Sure, if cells obey well-defined temporal distributions between states (cell cycle, differentiation, ...) you can expect phototoxicity to modulate their timing, both in vitro and in vivo. @jytinevez.bsky.social has a nice book chapter showing this in live c elegans microscopist.co.uk/files/wp-con...