Robert Haase

I had a great time at Uni Copenhagen giving a talk about How Generative AI impacts Bio-Image Data Science this week. You find my slides online and a recording will be shared soon!
doi.org/10.5281/zeno...

Big thanks to @danishbioimaging.bsky.social, @claraprats.bsky.social and team for hosting me!

⚠️ 1 week left for Pasteur Course "Advanced Bioimage Analysis With AI"! 👩‍🔬💻

Intensive course (June 1-5, Paris): theory + hands-on, AI focus in bioimaging.

📍 Institut Pasteur
🗣️ English
⏰ Deadline: March 1

🔬 Beginner basics, batch scripts, interactive sessions

👉 Apply: https://bit.ly/4c8rFKZ

🏹 Job alert: Scientific Research Associate (Postdoc) in the Field of Agentic AI Systems for Scientific Workflows

📍 Hannover 🇩🇪
📅 Apply by March 25th
🔗 https://www.uni-hannover.de/en/jobs/id/8358/

2026 marks the 25th Anniversary of @mpi-cbg.de in Dresden. We invite all Alumni to reconnect and celebrate 25 years of science together August 24-25. Sign up, if you would like to receive further updates, formal registration will follow: www.mpi-cbg.de/25th-anniver...

iDiv Leipzig is organizing a symposium for early career researchers from all fields interested in scientific integrity & reproducibility.
Some good stuff, e.g.: @haesleinhuepf.bsky.social on generative AI for science, @rmcelreath.bsky.social on a guerilla approach to scientific workflow.>

I 🧡 this strategy. I also have a preprint out there that has 20 citations, and was never submitted to any journal. It's my simple proof that this strategy works 🙌
🧡💚💙 hoes to @biorxivpreprint.bsky.social

Image analysis is often treated as an individual skill—leading to irreproducible pipelines and bias. Sustainable #BioImageAnalysis must be an institutional responsibility: training, automation, standards, and GSP-aligned guidance. Read the full article on LinkedIn:

www.linkedin.com/feed/update/...

Wissenschaffende arbeiten intensiv daran, LLMs der Community zur Verfügung zu stellen, die lokal laufen und Code für spezifische Aufgaben produzieren. @haesleinhuepf.bsky.social hat „bia-bob“ gebaut, um Menschen beim Erstellen von Code für Bildanalyse zu helfen. 8/9

Ein Sticker aus der Bahn in Leipzig. Eine gelbe Katze sitzt vor einem gelbem Laptop auf dunklem Hintergrund. Über und Unter der Katze steht ebenfalls in gelb „I‘m a programmer, I make Computer beep boop beep boop“

Das Umwandeln von Bildern in Zahlen zur Quantifizierung wird als Bildanalyse bezeichnet. Das ist ein eigenständiges Forschungsgebiet, das von vielen Wissenschaffenden weiterentwickelt wird. (Das Bild ist ein Sticker, gefunden in einer Bahn der LVB) 1/9

Die Doktorandin Elena Nicolay forscht am mTox Lab des ufz.de in Leipzig; www.ufz.de/index.php?de...

The missing data for intelligent scientific instruments - Nature Methods Most scientific instruments currently discard rich streams of commands, data and metadata from which AI systems could learn to conduct experiments with expert-level decision-making and troubleshooting...

A Comment discusses how commands, data, and metadata currently discarded by scientific instruments could be used to train AI systems to learn to conduct experiments. @henrypinkard.bsky.social @nilsnorlin.bsky.social

www.nature.com/articles/s41...

Screenshot eines Instagram-Beitrags von funk. Darauf zu sehen ist ein Foto, das das Foyer der Bibliotheca Albertina zeigt, darauf der Text "Die schönste Uni-Bibliothek, Platz 1: Universität Leipzig, Bibliotheca Albertina".

Wir sind Platz 1! 🏆 Unsere #BibliothecaAlbertina ist die schönste Uni-Bib Deutschlands – so das Ergebnis der Instagram-Umfrage von funk. Dem haben wir nichts hinzuzufügen, oder @unileipzig.bsky.social? 🥳

On my way for my second guest lecture about the Secrets of LLMs @tudresden.bsky.social 🚅
Last week was about Vision Language Models, this week I'll talk about AI-agents. Thanks Michael Färber and Simon Razniewski @scadsai.bsky.social for having me! Slides #openaccess 🧑‍🏫💻🔓
zenodo.org/records/1829...

DAFT: minimal principles for reproducible research papers - Bruno C. Vellutini DAFT principles are a minimal set of principles I've been using to organize my research papers that foster good scientific practice.

I wrote a post describing a minimal set of principles that I've been using to make my research papers a bit more reproducible. Would love hearing what you think! #OpenScience

brunovellutini.com/posts/daft-p...

A screenshot of an AI Agent app (Jan) where the user asks for the vegetarian lunch menu, the agent thinks about it for some steps and presents the correct menu.

For teaching purposes, I vibe-coded an MCP server that querys the meal plan of the canteens at @tudresden.bsky.social 🍲🤖
And yes, I will be giving the related lecture just before lunch 😋
github.com/ScaDS/mensa-...

The new stackview (0.19.1) comes with a zoom() function. 🔍🚀 Give it a try using
pip install stackview==0.19.1
(Example image licensed CC-BY 4.0 by Alexandr Khrapichev, Oxford)
pypi.org/project/stac...

There are hardly any tutorials about this dialect afaik. It's more or less an internal thing. Just #opensource 😃

Absolutely! I'm a bit surprised though that I can ask for code in "The CLIJ OpenCL Dialect" and it knows what to do...

GPU accelerated image processing for everyone

Just adding a link to #clij, from the time when things were written by humans 😊
clij.github.io

I'm glad I open-sourced all these CLIJ OpenCL kernels back in the days, not expecting that LLMs may come one day and use them as training data
github.com/clEsperanto/...

Years ago, I spent endless time to write hundreds of image processing filters so that they run on GPUs; resulting in the #clij library. Today, I asked claude to write the Kuwahara Filter in the CLIJ OpenCL dialect and it worked in the first attempt. Mind-blow-ing. 🤯

I am looking for two postdocs to join our lab
- One (bio)image analyst
- One cell biologist interested to work on lymphatics!

The positions will open soon, be in touch!

Luftaufnahme von Bremen

We're happy to announce that the IJCAI-ECAI 2026 - the leading academic conference on #ArtificialIntelligence - will take place in #Bremen, Germany from 15th of August 'til 21st of August 2026!

More details about Calls for Papers/Proposals and Special Tracks 👉 2026.ijcai.org

Under greedy/low-temp decoding, reasoning LLMs get stuck in loops repeating themselves, wasting test-time compute and sometimes never terminating!

They find that:

- Low temps => more looping
- Smaller models => more looping
- Harder problems => more looping

Quantitative Imaging: From Acquisition to Analysis Cold Spring Harbor Laboratory Meetings & Courses -- a private, non-profit institution with research programs in cancer, neuroscience, plant biology, genomics, bioinformatics.

🔬 🖥️ Applications are open for the CSHL course Quantitative Imaging: From Acquisition to Analysis (April 6–21, 2026)!

An intensive, hands-on course covering advanced fluorescence microscopy and quantitative image analysis using open-source tools.

🗓️ Apply online by Jan 30, 2026

If you have time tomorrow, join my online talk about LLS/single molecule/microtubules and 3D data at @bioimagingna.bsky.social user group (18:00 CET for Europe).
I hope I manage to fit 25 movies into 20 cohesive slides and connection will be ok.

Apply for a PhD in Singapore at NUS! Deadline Jan 12. I'm recruiting:

Here with Mechanobiology Institute: www.mbi.nus.edu.sg/education/gr...

and

Here with Biomedical Engineering dept: cde.nus.edu.sg/bme/

How your email from mid December finds me

Deep Learning for Microscopy Image Analysis Topics The following will be covered extensively during lectures, exercises, and project work: Image denoising and restoration (fully supervised and self-supervised) Image translation (e.g.,

🚨 Alarm!!! 🚨
AI/ML course for microscopy image analysis!!! 🧐
In 2026 at Janelia (@hhmijanelia.bsky.social), no tuition, housing and meals provided! Isn’t that borderline unbelievable?!?

20 students, ~14 TAs and lecturers
🗓️ June 4-18 2026

✍️ Jan 15 2026 ✍️

🔁 pls!!

www.janelia.org/you-janelia/...