DDMF
08.03.2026 19:39
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DDMF
DDMF
I put up the code on github.com/sfmlab/mole2d for anyone wanting to test it. It's full f bugs, but works if you just need to draw a molecule here and there. :) And I'm working on making it much better (and part of a bigger suite)
BIG UPDATES!
OCTRON now supports the new SAM3 models (alongside SAM2)!
We’ve also added a global switch for Detection vs. Segmentation: Use the same annotations to train either lightweight detection or full segmentation models. Plus, we’ve added support for the new YOLO26 models. ⤵️
1/12
spent some time last weekend getting higlass to play nicely inside @marimo.io
molab.marimo.io/notebooks/nb...
Graphical abstract that depicts the flow of experiments, showing the relation between different steps/protocols
We've redesigned a practical course on cell biology. This will run for the 1st time with 100+ students, starting next week. I've made a graphical abstract to help students (and myself) understand where we are in the process....
#TeachingTheNextGeneration
We have integrated the Allen Institute's BioFile Finder app with IDR. You can quickly Group and Filter all images in a study. Data is served by the IDR search engine and supports up to a million images at a time. BioFile Finder links are on each study page e.g. idr.openmicroscopy.org/study/idr0056/
This is a promotional image for #RSCPoster 2026. It features the text: "Last chance to register. #RSCPoster 2026 is next week (3-4 March). Don't forget to register to be eligible to win a prize! Register by 11:59pm (UK time) on 2 March 2026." The Royal Society of Chemistry and American Elements logos are present. The background is a digital network design.
#RSCPoster 2026 is next week (3-4 March). Don't forget to register to be eligible to win a prize! Go to our webpage and register today ➡️ https://rsc.li/3XGGvzS
DDMF
Indeed, indeed.
I'm sure there are plenty of papers around that were wrongly using cameras to monitor chemical reactions. Especially with the rise of the SDL, this is an extremely important topic....
Just because you see a color, it doesn't mean that your camera can quantify it....
Rewrote my Python bioformats wrapper (from aicsimageio/bioio) as a standalone package:
- fully bootstrapped Java setup (just pip install)
- lazy, repeatably-indexable Array object
- fully spec-compliant OME-Zarr group obj.
- xarray/dask exports
github.com/imaging-form...
v0.0.rc1 on PyPI
Woohoo! Return of #invertedLUT
😍
Videos are now available from the 2025 QuPath Training Course, from @iamichaelnelson.bsky.social, @zmikulski.bsky.social, and myself.
Watch for multiplex tutorials! For image analysis inspiration! Or just watch to hear me speak like an overcaffeinated squirrel!
www.youtube.com/playlist?lis...
📣 We are accepting applications for the 2026 Boston Bioimage Analysis Course (BoBiAC): bobiac.github.io! Join us this July at Harvard Medical School for a 6-day intensive hands-on course to learn bioimage analysis with Python!
Apply by May 18th! No prior Python experience required!
🧫->🔬->💻->📊
image of the OpenFlexure Microscope on the left. On the right, our adapted live-cell imaging openflexure microscope with cradle to negate vibrations inside an existing incubator
Unleashing live-cell imaging for the masses!
Adapting the OpenFlexure Microscope for Affordable Live-Cell Imaging www.biorxiv.org/content/10.6...
Fits into existing incubators for time-lapse experiments & feeds into existing bioimaging analysis pipelines.
Thanks @wellcometrust.bsky.social funding
We are hiring a Research Software Engineer to enhance and maintain the SpatialData framework.
We will work together with colleagues at EMBL, DKFZ, GSK, and across the scverse community.
🔗 Deadline: 15/02/2026
embl.wd103.myworkdayjobs.com/en-US/EMBL/d...
Gorgeous #InvertedLUT
🤩
Recruitment for the EMBL International PhD Programme is officially open! 🔊
At EMBL, we train young scientists to become skilled and creative future leaders in academia, industry and other sectors. Start your career in the life sciences with us!
🔎 Read more here:
tinyurl.com/4jdt2ra5
The OME meeting has followed me from New England to Germany! consistently my favorite scientific meeting of the year, with the nicest community anywhere. Join us there!
Monkey's paw? Wow.
Big news! The Data Management team/Data Science Centre at EMBL (i.e. my team) is hiring for a position based in Heidelberg (but working across all sites!). We are looking for a scientific workflows developer that will focus on multimodal pipelines. embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
BOOOOOOO
GO BILLS!
Epic! Congrats!! 🎉
Won best thesis award with this video! 4 years of research and play in 3 minutes :')
youtu.be/so0fPlK1-LM
Kind of flew under the radar, BUT we released napari-omero 0.6 recently 🥳 @openmicroscopy.org
You can now down-/upload ROIs from and to OMERO inside @napari.org 🤩Bringing the power of napari for annotation to the management of OMERO :)
Thanks @psobolewskiphd.bsky.social and other maintainers!
Very pleased to announce the release of #OMERO.figure 7.3.0 including ROI Labels, Colorbars and lots of bug fixes. Thanks to contributors: Rémy Dornier, @tom-bssnnt.bsky.social, Jens Wendt, Niraj Kandpal. www.youtube.com/watch?v=cUy5...
#Bills red helmets!
😍
It's new annual conference budget time! I've updated the public, filterable Chemistry Conference Database with hundreds of new conferences.
There are currently 564 conferences in the list.
supersciencegrl.co.uk/conferences #chemsky #chemchat
🚨 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/...
