iiinova — where your digital self keeps evolving

Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 29/09/2026

The original #Luxar thread is way too long and most people missed most demos, so I will be slow-dripping demos in the next weeks... Here is how you can annotate anything drawn and have text, images, videos overlays displayed on-hover or links opened on-click!

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 23/09/2026

What if any dataset, any size, any number of dimensions, opened in a browser tab from a link? 🔬🧪💻 Luxar is out today: write it in Python, share it as a link, explore it in any browser. Open source. 🧵 @biohub.org Preprint: doi.org/10.5281/zen... Code: github.com/royerlab/luxar

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 18/09/2026

"Being too far ahead of your time is indistinguishable from being wrong", Howard Marks.

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 14/09/2026

AI has become such a powerful tool, enabling entire areas of science and biology. I got to talk about this as part of a new PBS special on how AI and biotech are transforming medicine. Overall, the documentary is quite interesting! It's worth a watch! www.pbs.org/video/data-c...

pbs.org

Data Cure: Stories of Healing and Hope | Episode 1

A race to stop superbugs before medicine enters an era where antibiotics no longer work.

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DrLachie @drlachie.bsky.social · 10/09/2026

Proud to present the publication of napari-lattice – our solution to the immense computational requirements of Lattice Light Sheet and Oblique Plane Microscopy. onlinelibrary.wiley.com/doi/10.1111/... Before I get into the thread, the important part is on github: github.com/BioimageAnal... (1/n)

onlinelibrary.wiley.com

napari‐lattice: A user‐friendly image processing tool for lattice light‐sheet microscopy data

Lattice light-sheet microscopy (LLSM) enables researchers to capture high-speed 3D videos of living cells with high definition and minimal damage. However, this technology generates terabytes of data....

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Tamas Nagy @tamasnagy.com · 06/09/2026

Even with all the advancements in automated cell tracking getting us to 90%+ accuracy...that's still a lot of broken tracks over long movies! Our brains are pretty good at this so I made Vizsla 🐕, a little @napari.org plugin, to help you fix your tracks manually. 👉 pypi.org/project/napa...

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hernanggarcia.bsky.social @hernanggarcia.bsky.social · 20/08/2026

MS2 in zebrafish @cp-cellsystems.bsky.social! Eck, Moretti and Schlomann, in collaboration with our friends in the of @loicaroyer.bsky.social and Oates labs, discovered that smooth protein oscillations in the segmentation clock are the result of transcriptional pulses: tinyurl.com/hwbf525m

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Merlin Lange @merlinlange.bsky.social · 30/07/2026

I found a Loic in Paris! Always great to catch up with my friend and mentor @loicaroyer.bsky.social, after 2hours of conversations I'm back in the lab full of motivation and fresh thoughts.

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 14/07/2026

📣 Tracking cells through time – including divisions – is a core problem in live-imaging microscopy. We built HOCT, an edge-centric Transformer that hits state-of-the-art on the Cell Tracking Challenge without a pretrained image encoder. Work led by @jookuma.bsky.social arxiv.org/abs/2607.11754 🧪🔬💻

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 07/07/2026

1/ 🧬🧪 New preprint! Do you actually need a biology-specific foundation model to predict how cells respond to perturbations? Surprising answer: a general-purpose tabular model - never trained on a single cell - matches or beats the specialists. 🧵 📄 doi.org/10.64898/2026.06.28.735106 @biohub

Tabular Foundation Models Are Competitive Cellular Perturbation Predictors Across Biological Scales

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 29/06/2026

1/ 🧬🔬 How does one cell become an entire animal? We can now film it in 3D 🐟, but turning those movies into accurate cell tracks is brutally hard. Enter our new #Kaggle challenge: $60K prize pool, to help crack 3D+time cell tracking at scale! 🧵👇 www.kaggle.com/competitions... @biohub.org

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Merlin Lange @merlinlange.bsky.social · 18/06/2026

🧬 🧪Our RNA velocity benchmark is out in PLOS Comp Biol We tested 5 methods on mouse & zebrafish data. They often disagree (just 1/100 driver genes shared 😬). A hypothesis tool, not ground truth. Open access 👉 doi.org/10.1371/jour... Led by the brilliant Sarah Ancheta (not on bsky)

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John Collins @logicallyjc.bsky.social · 09/06/2026

This one hits hard.

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 03/06/2026

Want to build some of the most advanced light-sheet microscopes in the world to watch life assemble itself cell by cell? The Royer Lab @ Biohub is hiring an Optical Engineer (Advanced Light Sheet Microscopy). 🧪🔬💻🔧 #Hardware + #Python + Advanced #Optics job-boards.greenhouse.io/biohub/jobs/...

job-boards.greenhouse.io

Optical Engineer, Advanced Light Sheet Microscopy

San Francisco, CA (Hybrid)

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 03/06/2026

"Do not ask what comes next; ask what must not be left undone."

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Zebrafish Rock! @zebrafishrock.bsky.social · 02/06/2026

"We present DanioDecima, a zebrafish-specific model leveraging transfer learning from human and mouse-trained models to predict tissue- and cell-type-specific gene expression during zebrafish embryogenesis." New work from @loicaroyer.bsky.social that's sure to (Danio)decimate the competition 🐟

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Zebrafish Rock! @zebrafishrock.bsky.social · 17/05/2026

#Lightsheet imaging of early #zebrafish development. Credit to @loicaroyer.bsky.social. #ZebrafishZunday 🧪

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 06/05/2026

"No one is remembered for the hills they climbed, but for the mountain they dared scale."

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 05/05/2026

"Under the tired rocks of time, truth awaits."

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 04/05/2026

“If it is not nearly impossible, it is not worth it”

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paveltomancak.bsky.social @paveltomancak.bsky.social · 04/09/2025

We are all super happy and proud to see our work on the function and evolution of the #cephalic #furrow published in @nature.com. Let me say a few things about the background and history of this work on the #Evolution_of_Morphogenesis (1/12)

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Brandy A Freitas @brandy-syglass.bsky.social · 09/04/2026

#UMAP in VR for #3DThursday! In this zebrafish embryogenesis dataset, RNA-seq + ATAC-seq across 94k+ cells reveal changing regulatory programs over time. 🥼 Yang-Joon Kim, Loic Royer @loicaroyer.bsky.social , Matthias Haury 📝 www.biorxiv.org/content/10.1... 🏛️ Biohub @biohub.org 🎬 #syGlass v2.6.0

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 24/03/2026

1/ 🚀 Excited to release: napari-mcp - agentic control of napari from any MCP-capable AI assistant! Use it for interactive image processing, analysis, and visualisation! Really cool project from @ilan-theodoro.bsky.social from my team! #napari #bioimageanalysis #MCP @biohub

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Martin Weigert @maweigert.bsky.social · 02/03/2026

Excited to share our new paper (CVPR 2026 🚀): "MuViT: Multi-Resolution Vision Transformers for Learning Across Scales in Microscopy" which enables local predictions to use global context. Great work led by @albertdm.bsky.social & another fun collab w @gioelelamanno.bsky.social! @scadsai.bsky.social

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 20/02/2026

Our symposium on ‘AI applications in Biology’ is about to start in 30 minutes! Great lineup of speakers for what promises to be a fantastic meeting! 🧪

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 09/02/2026

1/ 🚀🧪🤖 Big update for #Omega — the LLM-powered autonomous agent for bioimage analysis in @napari.org ! Custom LLM endpoints, layer actions, plugin extensibility, agentic widget maker, modernized UI, & 30+ fixes. Here's what's new in version *2026.2.8.2*:

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 23/01/2026

📡🧵 Excited to release an updated version of our preprint: Zebrahub-Multiome: Uncovering Gene Regulatory Network Dynamics During Zebrafish Embryogenesis 🧪🧬🖥️🐠 doi.org/10.1101/2024... A tour-de-force by @yangjoonkim with an unexpected discovery!

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Teun Huijben @teunhuijben.bsky.social · 09/12/2025

Join us for the AI Applications in Biology Symposium at @biohub.org! A full day of talks on ML for structural biology, imaging, single-molecule & multimodal/omics data 🗓️ Feb. 20, 2026 (1 day before BPS) 📍San Francisco 🔗 shorturl.at/uQerL Attend in-person or virtual. Submit abstracts by Jan. 20!

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 27/11/2025

Sometimes you have to push your favourite AI model beyond its comfort zone, encourage it, and show support. 😂 💻

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Anna Foix @afoix.bsky.social · 25/11/2025

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

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 19/11/2025

Almost the whole team, the best team ever :-)

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Biohub @biohub.org · 14/11/2025

Stunning cover to celebrate the incredible work from @loicaroyer.bsky.social's team. Learn more about Ultrack, a powerful tool for fast, accurate and scalable cell tracking: biohub.org/life-science... 🧪

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Nature Methods @natmethods.nature.com · 13/11/2025

Our November issue is now live! 🎉 www.nature.com/nmeth/volume... On the cover, cell tracking in a developing zebrafish embryo visualized using Ultrack. Cover by Alexandre Dizieux, Jordão Bragantini, Loic Royer, Merlin Lange, CZ Biohub. Paper here: www.nature.com/articles/s41...

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 13/11/2025

Mind-bender: The observable universe has ~10^80 atoms. But even a simple 1000×1000 black‑and‑white image has 2^{1,000,000} ≈ 10^{301,030} possibilities — and 24‑bit color explodes to ~10^{7,224,720}. The space of (small) images dwarfs the cosmos. 🔬🧪💻

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scverse @scverse.bsky.social · 06/10/2025

ICYMI! 🚀 NEW PANEL ANNOUNCEMENT: Agentic Workflows in Bioinformatics at scverse 2025! 🚀 We're thrilled to introduce an exciting panel discussion at the upcoming scverse Conference 2025! More information in 🧵 #scverse2025 #Bioinformatics #AgenticAI #Conference

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scverse @scverse.bsky.social · 03/10/2025

Join us as we explore emerging trends in agentic AI applications across bioinformatics workflows. ✨ Featured Panelists: Kexin Huang - Stanford University Vega Shah, PhD - NVIDIA Loic Royer - Chan Zuckerberg Biohub Network Jonah Cool - Anthropic

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scverse @scverse.bsky.social · 03/10/2025

🚀 NEW PANEL ANNOUNCEMENT: Agentic Workflows in Bioinformatics at scverse 2025! 🚀 We're thrilled to introduce an exciting panel discussion at the upcoming scverse Conference 2025! More information in 🧵 #scverse2025 #Bioinformatics #AgenticAI #Conference

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 01/10/2025

We miss you Merlin! I wish you the best in your new adventure!

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Merlin Lange @merlinlange.bsky.social · 01/10/2025

Update I'm back in France 🇫🇷! Joining Inserm to build a multi-omics team on retinal development, at the nexus of live imaging, omics & human embryology. Huge thanks to CZ Biohub SF folks, esp. my mentor, friend & science soulmate @loicaroyer.bsky.social for the amazing time. More cool science soon🧪

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Loïc A. Royer 💻🔬🧪 @loicaroyer.bsky.social · 25/08/2025

🧬🔬🧪 🎉 Our team at @czbiohub is thrilled to share TWO companion papers out today in @NatureMethods! 📦 Ultrack — robust, scalable nD cell tracking 🌐 inTRACKtive — a beautiful, open-source web viewer for lineage exploration Let’s dive in! 👇 www.nature.com/articles/s41... www.nature.com/articles/s41...

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Jesse Veenvliet @jesseveenvliet.bsky.social · 14/08/2025

This was magical — @loicaroyer.bsky.social live on piano @mpi-cbg.de. Made my day! It’s always amazing to learn about unexpected talents apart from the amazing science.

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