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Guillaume Witz

@guiwitz.bsky.social
597 followers 277 following 53 posts

Curious scientist and classical music enthusiast. Currently Bioimage Analyst and Data Scientist at the Data Science Lab of the University of Bern. Previously @epfl, @harvard, @biozentrum

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Reposted by Guillaume Witz
napari @napari.org · 26/08/2026
🚨🚨🚨 napari 0.9.0 is out! 🚨🚨🚨 This is a huge release for us and for our community, with over 30 people contributing new features, improvements, and bug fixes in the 6 weeks since 0.8.0! Release notes here: napari.org/stable/relea... and some highlights in the thread below! 👇
napari.org
napari 0.9.0
Tue, Aug 25, 2026 We’re happy to announce the release of napari 0.9.0! napari is a fast, interactive, multi-dimensional image viewer for Python. It’s designed for browsing, annotating, and analyzing l...
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Guillaume Witz @guiwitz.bsky.social · 15/08/2026
This is really well written. I have to say I (probably like many others) experience the exact same ambivalent feelings between “this is fantastic” and “this destroys everything”. On a more technical level I found this one great too: blog.florianherrengt.com/ai-removing-...
blog.florianherrengt.com
AI is removing the middle class of software engineering
AI makes projects with weak engineering culture fail much faster.
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Guillaume Witz @guiwitz.bsky.social · 12/08/2026
Eclipseset?
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Reposted by Guillaume Witz
Joel Lüthi @joelluethi.bsky.social · 24/07/2026
Do you want to learn more about OME-Zarr viewers, where they stand today and what's being developed at the moment? On August 24th at 4pm CEST, we will hear about 3 different OME-Zarr viewers and user stories for each. www.biovisioncenter.uzh.ch/en/events/Up... (1/5 🧵)
biovisioncenter.uzh.ch
Open Bioimaging Practices Meetup August 2026
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SciPy Conference 2026 @scipyconf.bsky.social · 03/06/2026
🔬 Tutorial Spotlight: Build custom image analysis tools without starting from scratch. Tim shows you napari's power for microscopy, satellite data, and everything between 🛰️ Extend, visualize, annotate like a pro! #SciPy2026 🔗 scipy2026.scipy.org
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Guillaume Witz @guiwitz.bsky.social · 02/06/2026
Very interesting job with very nice people! What’s more to ask?
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Guillaume Witz @guiwitz.bsky.social · 27/05/2026
Uncle Petros and Goldbach’s Theorem by Doxiadis is a great one about mathematics.
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Guillaume Witz @guiwitz.bsky.social · 02/04/2026
I’m trying to figure out (like everyone else) how to reasonably use LLMs both for my work and teaching. This is fantastically written and clearly articulates a lot of ideas and concerns I had vaguely in mind. I’m considering suggesting this as a read to participants in my scientific coding courses.
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Reposted by Guillaume Witz
napari @napari.org · 11/03/2026
🔬 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. #napari #Python #ImageAnalysis #DataScience #OpenSource
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Jean-Yves Tinevez @jytinevez.bsky.social · 09/03/2026
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. 👇🎓
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Guillaume Witz @guiwitz.bsky.social · 07/02/2026
The violin concerto! Many great recordings but for me the best is this live from Hilary Hahn and Mikko Franck. Great chemistry, technical perfection, mesmerizing to watch! youtu.be/J0w0t4Qn6LY
youtu.be
Sibelius : Concerto pour violon (Hilary Hahn)
YouTube video by France Musique concerts
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Guillaume Witz @guiwitz.bsky.social · 21/01/2026
Sounds like this could be a very cool (in all meanings of the word 😅) postdoc!
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Reposted by Guillaume Witz
Guillaume Jacquemet @guijacquemet.bsky.social · 15/01/2026
🚨 Job Alert! 🚨 We have an opening at our Microscopy Core Facility in Turku 🇫🇮. If you love imaging 🔬 and helping scientists succeed, we want you! 👇 abo.rekrytointi.com/paikat/index... #Microscopy #ScienceJobs #CoreFacility #Imaging @turkubioscience.bsky.social
abo.rekrytointi.com
Laboratory Engineer (Senior), in Advanced Imaging, 1.5.2026-31.12.2028
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Dave Barry @david-j-barry.bsky.social · 15/01/2026
Time is running out to apply for this year's @royalmicrosoc.bsky.social Intro to Image Analysis course in Cardiff - deadline is tomorrow! Spread the word!
media.tenor.com
two men are sitting in front of a large clock that shows a time of 11:55
ALT: two men are sitting in front of a large clock that shows a time of 11:55
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Lucien Hinderling @lhinderling.bsky.social · 18/12/2025
Tracking coordinated cellular dynamics directly from images -- New method paper by labmates @bgraedel.bsky.social & @macdobry.bsky.social ! Python package & @napari.org plugin, all the good stuff: Paper: doi.org/10.1242/jcs.... Code: github.com/pertzlab/arc... Plugin: github.com/pertzlab/arc...
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Jacob Tomlinson @jacobtomlinson.dev · 18/11/2025
For Python package management I use a mixture of pixi, uv and conda depending on the task I'm doing. I wrote up a long form post about the history of these tools, why each one exists, and why I settled on these choices in my workflow. jacobtomlinson.dev/posts/2025/p...
jacobtomlinson.dev
Python package managers: uv vs pixi?
When I talk to people about Python package management in 2025 I see the following tools in active use; uv, pixi, pip, conda, mamba, micromamba and poetry. There may be others, but I don’t hear much ab...
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Joel Lüthi @joelluethi.bsky.social · 17/11/2025
We had an amazing OME-NGFF hackathon last week, Wednesday to Friday, following the inspiring OME-NGFF symposium. What a fantastic week! It’s hard to describe how motivating it is to be surrounded by so many talented, curious & friendly people who care deeply about open, FAIR bioimaging data. 1/14 🧵
Hackathon participants group picture
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Yohsuke T. Fukai @fukaity.bsky.social · 31/10/2025
Community information is here napari.org/stable/commu...
napari.org
Community
There are several different ways to be a part of the napari community. From being a code or documentation contributor, to creating educational content or examples, you are welcome to help develop and ...
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Reposted by Guillaume Witz
napari @napari.org · 31/10/2025
Happy Halloween from the napari team!
Special edition of the napari logo for Halloween. The island is white and looks like a ghost, and there are spiderwebs.
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Guillaume Witz @guiwitz.bsky.social · 30/10/2025
It was a fantastic opportunity to finally meet the people behind this software that I have been using for years and is so important for my work! A big thank you to all core developers who were so welcoming, and patiently guided participants in their attempts to contribute back to napari!
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Guillaume Witz @guiwitz.bsky.social · 13/10/2025
This was a very interesting talk! If you work in a core facility you’ll find plenty of good ideas about organisation and/or be reassured that certain things, like planning workload, are difficult for everyone, even the best organized.
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Reposted by Guillaume Witz
Jean-Yves Tinevez @jytinevez.bsky.social · 13/10/2025
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... ⬇️
research.pasteur.fr
Image Analysis Hub - Research
The Image Analysis Hub is an open-access / equal-access core facility committed to sharing bioimage analysis services expertise with the scientific community. What we do The IAH works by collaborating...
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Jean-Yves Tinevez @jytinevez.bsky.social · 07/10/2025
Job alert! We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks? See also on the forum: forum.image.sc/t/research-e...
forum.image.sc
Research engineer in Bioimage Analysis for the researchers of the inIdEx FORMULA
Hi all We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks? The position is in the Instit...
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napari @napari.fosstodon.org.ap.brid.gy · 02/10/2025
napari 0.6.5 is out! 🚀 Rapid-fire highlights are: colorbar overlay, custom startup script, and better and prettier documentation! Check out the full release notes here: napari.org/dev/release/release_0_6_…
Image depicting the napari viewer in grid mode with scale bars and color bars enabled
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Siân Culley @superresolusian.bsky.social · 29/09/2025
BioImage analysis friends - King's are recruiting for a full-time, permanent facility position! Come and work with fun microscopes and fun people (and me!) - please share! www.kcl.ac.uk/jobs/126345-...
kcl.ac.uk
Bioimage Analysis Specialist | King's College London
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Ignacio Arganda-Carreras @iarganda.eurosky.social · 30/09/2025
📣 We’re hiring, please RT! Fully funded 4-year PhD position in our CVPD group at @informatikaehu.bsky.social! Research at the intersection of AI, deep learning & bioimage analysis. 🧠🔬 📅 Applications open Oct 6 (deadline: ~Oct 27) 📍 San Sebastian, Spain. 👉 cvpd.github.io/post/2025-09...
cvpd.github.io
📢 Open 4-year PhD Position in Deep Learning for Bioimage Analysis! | CVPD Research group
The Computer Vision and Pattern Discovery (CVPD) group at the University of the Basque Country (UPV/EHU) is offering a fully funded 4-year PhD position within the recently awarded project TOSBI: Towar...
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Reposted by Guillaume Witz
Gaëlle Letort @gaellel.bsky.social · 04/09/2025
We (with @nicolasdray.bsky.social @zenlabpasteur.bsky.social) are happy to release officially FishFeats, our #napari plugin to streamline 3D smFish/RNA quantification! 🎊 Available here: github.com/gletort/Fish... user documentation: gletort.github.io/FishFeats/
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Joel Lüthi @joelluethi.bsky.social · 16/09/2025
Are you working with OME-Zarrs in Switzerland? We're running a series of community events in the context of the BioFAIR project of the BioVisionCenter: Monthly Open Bioimaging Practices Meetups with presentations by us & community members. Starting off with 3 cool events this fall (see image) (1/6)
Flyer for the Open Bioimaging Practices Meetups.
1. September 24th at 4pm: Guest presentation by Charlotte Soneson & Silvia Barbiero
2. October 28th at 4pm: Guest presentation by Marvin Albert
3. November 26th at 4pm: Guest presentations by Giliane Rochat & Flurin Sturzenegger
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Guillaume Jacquemet @guijacquemet.bsky.social · 10/09/2025
Come and work with us 5-year position available for a University Researcher in Bioimaging 1.11.2025-31.12.2030 abo.rekrytointi.com/paikat/index...
abo.rekrytointi.com
University Researcher in Bioimaging / Universitetsforskare med inriktning bioimaging, 1.11.2025-31.12.2030
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Guillaume Witz @guiwitz.bsky.social · 12/09/2025
I think even beyond the fact that it’s easier to get work done in-person, for a lot of people (including me) it’s much easier to interact with people online *after* having met them in person. Something to do with getting people’s behavioral cues.
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Guillaume Witz @guiwitz.bsky.social · 31/08/2025
Post an image from your summer that confers peace
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Lucien Hinderling @lhinderling.bsky.social · 21/08/2025
Automated optogenetic control of hundreds of cells in parallel. Each cell is individually steered, collectively acting as a "tissue printer". Preprint & code out! www.biorxiv.org/content/10.1...
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Olivier Pertz @olivierpertz.bsky.social · 22/08/2025
“New paper out 🎉 We built a system to automate optogenetic cell control across scales. For the demo, we made the cells spell my name — because if you can’t use science to feed your ego, what’s the point? 😎🧫✨”
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Guillaume Witz @guiwitz.bsky.social · 14/07/2025
Have fun! Wishing you the same success and longevity as you had with ZIDAS (9th edition last week!)
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Guillaume Witz @guiwitz.bsky.social · 30/06/2025
A very good idea! I’m deeply skeptical current models can find “new physics” but this would be a good test. Surprised nobody has done this yet. Probably not in the interest of most model trainers to highlight their limits and dehype them. Clarification: I do think that LLMs can be very useful tools!
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Guillaume Witz @guiwitz.bsky.social · 10/06/2025
You thought the publication business had reached the bottom with predatory journals, insane publication fees, data harvesting etc? No, it can dig deeper 🎉! #justpreprint
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Richard Sever @richardsever.bsky.social · 04/06/2025
"a fascinating case study on the limits of AI in biology and the harms of current publishing incentives" rachel.fast.ai/posts/2025-0...
rachel.fast.ai
Rachel Thomas, PhD - Deep learning gets the glory, deep fact checking gets ignored
an AI researcher going back to school for immunology
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Guillaume Witz @guiwitz.bsky.social · 16/05/2025
I second that!
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Johannes Soltwedel @jo-soltwedel.bsky.social · 12/05/2025
New release: napari-omero 0.5.0 😀@openmicroscopy.org @napari.org thanks to some big contributions from @psobolewskiphd.bsky.social , @will-j-moore.bsky.social and of course @talley.codes. Some features in spotlight 👇 First: napari-omero now supports lazy loading of image pyramids from OMERO🔺:
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Adam Glaser @adamkglaser.bsky.social · 02/05/2025
To look into: a Python alternative to ZEMAX... github.com/HarrisonKram...
github.com
GitHub - HarrisonKramer/optiland: Comprehensive optical design, optimization, and analysis in Python, including GPU-accelerated and differentiable ray tracing via PyTorch.
Comprehensive optical design, optimization, and analysis in Python, including GPU-accelerated and differentiable ray tracing via PyTorch. - HarrisonKramer/optiland
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napari @napari.org · 01/05/2025
And it's finally here! napari 0.6.0 is out on PyPI and conda-forge! 🥳 We've had a few threads about this release already but let's recap with some highlights: 🧵
media.tenor.com
a woman in a hat is crying and says " i 've traveled a good many miles to get here "
Alt: Charlotte from the Sanditon TV series, emotionally exclaiming, "I've traveled a good many miles to get here!"
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Peter O'Toole @yorkbioimaging.bsky.social · 28/04/2025
CellPhePy is now available 🎉🎉🎉 in the journal of #microscopy. A python version for #CellPhe. See doi.org/10.1111/jmi.... Thanks @ukri.org and @wellcometrust.bsky.social for funding @globias.bsky.social @globalbioimaging.bsky.social @eurobioimaging.bsky.social @bioimaginguk.bsky.social
doi.org
CellPhePy: A python implementation of the CellPhe toolkit for automated cell phenotyping from microscopy time‐lapse videos
We previously developed the CellPhe toolkit, an open-source R package for automated cell phenotyping from ptychography time-lapse videos. To align with the growing adoption of python-based image anal...
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Guillaume Witz @guiwitz.bsky.social · 06/04/2025
Just bought your book so that your sales are now at least >0 in Switzerland! Already enjoyed a lot your two previous science books for kids!
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Joel Lüthi @joelluethi.bsky.social · 11/03/2025
🚀 We’re very excited to share our latest preprint on OME-Zarr! 🚀 Our report on the 2024 OME-NGFF Workflows Hackathon is a deep dive into the status of OME-Zarr and the great work that happened last November at the BioVisionCenter in Zurich. 🔗 Read the preprint: osf.io/preprints/bi... 🧵 (1/15)
osf.io
OSF
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Guillaume Witz @guiwitz.bsky.social · 27/02/2025
The best Bohème ever of course!
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Lucien Hinderling @lhinderling.bsky.social · 23/02/2025
PREPRINT OUT ✨ "hack" your microscope to work as a 3D printer! print micrometer sized features at cm scale. a method for easy and cheap microfabrication, with a focus on biological applications. THREAD ↓ www.biorxiv.org/content/10.1...
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Constantin Pape @cppape.bsky.social · 11/02/2025
Announcing PathoSAM, our foundation model for nucleus segmentation in histopathology. PathoSAM supports interactive and automatic nucleus segmentation (instance and semantic). See segmentation on a WSI from openslide, check out arxiv.org/abs/2502.00408 or read on for details.
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Guillaume Witz @guiwitz.bsky.social · 06/02/2025
Multi-language workflows tend to break down because of even worse issues with dependencies than with a single language where this is already a problem. I prefer to have “closed” workflows in different languages that import/export data than to try to integrate everything.
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Guillaume Witz @guiwitz.bsky.social · 30/01/2025
There are a few truly magical recordings by Kyung-Wha Chung. Her Bruch concerto is perfect. In the Adagio she produces I think the warmest sound and feeling I have ever heard from a violin.
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Guillaume Witz @guiwitz.bsky.social · 26/01/2025
Every time I reach the end of this thrilling Don Giovanni by Gardiner, I just want to start all over again!
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