Loïc A. Royer 💻🔬🧪3d ago
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 @[email protected] from my team! #napari #bioimageanalysis #MCP @biohub
napariMar 11

🔬 Registration is open for our pilot Introduction to napari Workshop!

napari is a powerful open-source image viewer for scientific data analysis in Python. This hands-on workshop will get you exploring multi-dimensional datasets fast.

✅ Only $20 USD
✅ Limited to 20 people
✅ Perfect for biologists, imaging specialists & data scientists

Two workshops at two different times.

#napari #Python #ImageAnalysis #DataScience #OpenSource

NFDI4BIOIMAGEMar 5

🌟 MeetOurDataStewards

In our recent blog post, Cornelia Wetzker shares, how she led a project to make bioimage data from fluorescence lifetime imaging microscopy (FLIM) more #fair. In close collaboration with her @nfdi4bioimage colleagues and others, she created a workflow and a plugin for the open-source 3D viewer #Napari that enables the import and analysis of FLIM data.

👉 Learn more about the project and find inspiration to contribute to similar work: https://nfdi4bioimage.de/en/news/meet-our-data-stewards-cornelia-wetzker/

Albert CardonaFeb 25

Bioimage Analysis course at Pasteur in Paris, by Jean-Yves Tinevez and Jean-christophe Olivo-Marin.

Dates: June 1st-5th, 2026.

Deadline for application: March 1st, 2026.

With two tracks:

* ‘early career investigators track’: aims at mastering the most recent and common image analysis software tools.

* ‘analysts track’: focuses on the use of advanced algorithms and computing resources for bioimage analysis.

https://www.pasteur.fr/en/education/programs-and-courses/pasteur-courses?id_cours=32719

#ImageProcessing #BioimageInformatics #Fiji #Icy #QuPath #Napari #Ilastik #TrackMate

Pasteur courses

Institut Pasteur
Show threadLoïc A. Royer 💻🔬🧪Feb 9
11/ 🔬🧪 Try it today! pip install napari-chatgpt — GitHub: github.com/royerlab/napari-chatgpt — Paper: doi.org/10.1038/s41592-024-02310-w #Omega #napari #AI #BioImageAnalysis

GitHub - royerlab/napari-chatg...
GitHub - royerlab/napari-chatgpt: A napari plugin to process and analyse images with chatGPT!

A napari plugin to process and analyse images with chatGPT! - royerlab/napari-chatgpt

GitHub
Stephen RoyleNov 4

Adventures in Code VII: getting started with napari

https://quantixed.org/2025/11/04/adventures-in-code-vii-getting-started-with-napari/

#AdventuresInCode #computing #code #microscopy #napari #python

Albert CardonaAug 29, 2025
From @nvladimus : "We have opened the #mesoSPIM official User Forum" at https://forum.image.sc/tag/mesospim alongside #Fiji #ImageJ #ilastik #BiaPy #napari #DeepLabCut and many other open source softwares for bioimage informatics.
Show threadFabrizio MusacchioJul 13, 2025

To wrap this up: Both tools are easy to test. I highly recommend trying them on your own data to see what works best for your use case.

I’ll include #CellSeg3D in our next #Napari #bioimage analysis course (https://www.fabriziomusacchio.com/teaching/teaching_bioimage_analysis/). Curious what impressions and feedback the students will share. 🧪🔍

What I really like about @napari is how well it integrates modern #Python tools. Great to have such a flexible, evolving #opensource platform for (bio) #imageanalysis! 👌

Fabrizio MusacchioJul 11, 2025

✍️ New in #eLife: #CellSeg3D introduces #WNet3D, a self-supervised 3D #segmentation method for #microscopy data — no labels needed. Claims to outperform #Cellpose/#StarDist on 4 datasets. Includes #opensource plugin (#Napari) + full 3D annotated #cortex dataset. Will test it later.

🌍 https://elifesciences.org/articles/99848

#DeepLearning #Neuroscience

CellSeg3D, Self-supervised 3D cell segmentation for fluorescence microscopy

Self-supervised deep learning models can accurately perform 3D segmentation of cell nuclei in complex biological tissues, enabling scalable analysis in settings with limited or no ground truth annotations.

eLife
EuroSciPyJul 7, 2025

📸 Have spatial data from a microscope, telescope, or MRI? Learn to explore it with napari at #EuroSciPy2025!
🎓 By Grzegorz Bokota & Lorenzo

🧪 Tutorial: "Use napari for easier interactive extraction of knowledge from images and other spatial data"

✅ Use napari for image filtering, segmentation, and annotation
✅ Build custom widgets for your workflows
✅ Turn your tool into a plugin anyone can use!

🗓️ https://euroscipy.org/schedule
#napari #ScientificComputing #OpenSource

Sponsoring

The EuroSciPy meeting is a cross-disciplinary gathering focused on the use and development of the Python language in scientific research.