Loïc A. Royer 💻🔬🧪
@loicaroyer.bsky.social
Director of Imaging AI & Sr. Group Leader @czbiohub SF. Researcher at the meeting point of #AI, #Microscopy, and #Biology using #zebrafish as model — co-creator of @napari_imaging and #Omega. #devbio #zebrahub #deeplearning #lightsheet #Imaging #dataviz
You are going to have a blast!!
October 6, 2025 at 1:15 AM
You are going to have a blast!!
Reposted by Loïc A. Royer 💻🔬🧪
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
✨ Featured Panelists:
Kexin Huang - Stanford University
Vega Shah, PhD - NVIDIA
Loic Royer - Chan Zuckerberg Biohub Network
Jonah Cool - Anthropic
October 3, 2025 at 3:43 PM
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
✨ Featured Panelists:
Kexin Huang - Stanford University
Vega Shah, PhD - NVIDIA
Loic Royer - Chan Zuckerberg Biohub Network
Jonah Cool - Anthropic
On the neighbor's roof, not listening to his dad asking him to come back...
September 17, 2025 at 4:00 AM
On the neighbor's roof, not listening to his dad asking him to come back...
🙏 Last but not least, this work was funded by @czbiohub.bsky.social @cziscience.bsky.social , and by our founders and funders: Priscilla Chan and Mark Zuckerberg, Merci!
August 25, 2025 at 9:06 AM
🙏 Last but not least, this work was funded by @czbiohub.bsky.social @cziscience.bsky.social , and by our founders and funders: Priscilla Chan and Mark Zuckerberg, Merci!
🤝 And collaborators: @adrianjacobo.bsky.social, Akilandeswari Balasubramanian, Tiger Lao, @edhirata.bsky.social @mattersoflight.bsky.social , @lammerdinglab.bsky.social Richa Agrawal, Alexandre X. Falcao @alexandredizeux.bsky.social Andrew Sweet and @aganders3.bsky.social @cziscience.bsky.social
August 25, 2025 at 9:06 AM
🤝 And collaborators: @adrianjacobo.bsky.social, Akilandeswari Balasubramanian, Tiger Lao, @edhirata.bsky.social @mattersoflight.bsky.social , @lammerdinglab.bsky.social Richa Agrawal, Alexandre X. Falcao @alexandredizeux.bsky.social Andrew Sweet and @aganders3.bsky.social @cziscience.bsky.social
💙 All of this would not have been possible without the awesome team @czbiohub.bsky.social : @jookuma.bsky.social @ilan-theodoro.bsky.social @teunhuijben.bsky.social @hoover_zhao, @shengxiao_, @merlinlange.bsky.social Shruthi VijayKumar
August 25, 2025 at 9:06 AM
💙 All of this would not have been possible without the awesome team @czbiohub.bsky.social : @jookuma.bsky.social @ilan-theodoro.bsky.social @teunhuijben.bsky.social @hoover_zhao, @shengxiao_, @merlinlange.bsky.social Shruthi VijayKumar
📄 Ultrack in Nature Methods: www.nature.com/articles/s41...
🌐 inTRACKtive in Nature Methods: www.nature.com/articles/s41...
📦 Code:
github.com/royerlab/ult...
github.com/royerlab/inT...
🧬 Zoo: embryozoo.org
🌐 inTRACKtive in Nature Methods: www.nature.com/articles/s41...
📦 Code:
github.com/royerlab/ult...
github.com/royerlab/inT...
🧬 Zoo: embryozoo.org
www.nature.com
August 25, 2025 at 9:06 AM
📄 Ultrack in Nature Methods: www.nature.com/articles/s41...
🌐 inTRACKtive in Nature Methods: www.nature.com/articles/s41...
📦 Code:
github.com/royerlab/ult...
github.com/royerlab/inT...
🧬 Zoo: embryozoo.org
🌐 inTRACKtive in Nature Methods: www.nature.com/articles/s41...
📦 Code:
github.com/royerlab/ult...
github.com/royerlab/inT...
🧬 Zoo: embryozoo.org
🚀 Explore the Virtual Embryo Zoo! Built with Intracktive!
Six tracked embryos across species: zebrafish, Drosophila, mouse, C. elegans, ascidian, Tribolium.
View online, download data, use in teaching or analysis.
👉 embryozoo.org
Six tracked embryos across species: zebrafish, Drosophila, mouse, C. elegans, ascidian, Tribolium.
View online, download data, use in teaching or analysis.
👉 embryozoo.org
August 25, 2025 at 9:06 AM
🚀 Explore the Virtual Embryo Zoo! Built with Intracktive!
Six tracked embryos across species: zebrafish, Drosophila, mouse, C. elegans, ascidian, Tribolium.
View online, download data, use in teaching or analysis.
👉 embryozoo.org
Six tracked embryos across species: zebrafish, Drosophila, mouse, C. elegans, ascidian, Tribolium.
View online, download data, use in teaching or analysis.
👉 embryozoo.org
Now what do you do with all those tracks?
Say hello to inTRACKtive:
🧬 Navigate complex lineages
🔍 Select cells, trace ancestry
🎨 Color by gene, lineage, division
🔗 Share with a link
No installs. Just your browser.
github.com/royerlab/inT...
Led by @teunhuijben.bsky.social
Say hello to inTRACKtive:
🧬 Navigate complex lineages
🔍 Select cells, trace ancestry
🎨 Color by gene, lineage, division
🔗 Share with a link
No installs. Just your browser.
github.com/royerlab/inT...
Led by @teunhuijben.bsky.social
August 25, 2025 at 9:06 AM
Now what do you do with all those tracks?
Say hello to inTRACKtive:
🧬 Navigate complex lineages
🔍 Select cells, trace ancestry
🎨 Color by gene, lineage, division
🔗 Share with a link
No installs. Just your browser.
github.com/royerlab/inT...
Led by @teunhuijben.bsky.social
Say hello to inTRACKtive:
🧬 Navigate complex lineages
🔍 Select cells, trace ancestry
🎨 Color by gene, lineage, division
🔗 Share with a link
No installs. Just your browser.
github.com/royerlab/inT...
Led by @teunhuijben.bsky.social
🔥 In one test (500-frame light-sheet dataset), Ultrack reduced manual corrections by >2× !
Built to work with tools like Cellpose, Stardist, Ilastik.
Open-source, napari-compatible, GPU-accelerated.
awesome data from @adrianjacobo.bsky.social !
Built to work with tools like Cellpose, Stardist, Ilastik.
Open-source, napari-compatible, GPU-accelerated.
awesome data from @adrianjacobo.bsky.social !
August 25, 2025 at 9:06 AM
🔥 In one test (500-frame light-sheet dataset), Ultrack reduced manual corrections by >2× !
Built to work with tools like Cellpose, Stardist, Ilastik.
Open-source, napari-compatible, GPU-accelerated.
awesome data from @adrianjacobo.bsky.social !
Built to work with tools like Cellpose, Stardist, Ilastik.
Open-source, napari-compatible, GPU-accelerated.
awesome data from @adrianjacobo.bsky.social !
💡Ultrack is a robust tracking framework based on multi-hypothesis segmentation & integer linear programming.
It reduces errors dramatically, scales to full embryos, and supports multicolor, 2D/3D, HPC workflows.
More here: github.com/royerlab/ult...
A tour de force by @jookuma.bsky.social
It reduces errors dramatically, scales to full embryos, and supports multicolor, 2D/3D, HPC workflows.
More here: github.com/royerlab/ult...
A tour de force by @jookuma.bsky.social
August 25, 2025 at 9:06 AM
💡Ultrack is a robust tracking framework based on multi-hypothesis segmentation & integer linear programming.
It reduces errors dramatically, scales to full embryos, and supports multicolor, 2D/3D, HPC workflows.
More here: github.com/royerlab/ult...
A tour de force by @jookuma.bsky.social
It reduces errors dramatically, scales to full embryos, and supports multicolor, 2D/3D, HPC workflows.
More here: github.com/royerlab/ult...
A tour de force by @jookuma.bsky.social
We built these tools because modern light-sheet microscopy generates massive datasets—millions of cells, terabytes of data, hours of embryonic development.
🧠 But data is only half the story. We need to track, explore, and share.
That’s where Ultrack and inTRACKtive come in.
🧠 But data is only half the story. We need to track, explore, and share.
That’s where Ultrack and inTRACKtive come in.
August 25, 2025 at 9:06 AM
We built these tools because modern light-sheet microscopy generates massive datasets—millions of cells, terabytes of data, hours of embryonic development.
🧠 But data is only half the story. We need to track, explore, and share.
That’s where Ultrack and inTRACKtive come in.
🧠 But data is only half the story. We need to track, explore, and share.
That’s where Ultrack and inTRACKtive come in.