Great university with great people doing great science! checkout Weisong Zhao's lab if you're interested in low-cost super-res solution!

#Cellpose 3! Not all images are perfect. Restore your images with Cellpose3 to get better segmentations, w/ Marius Pachitariu @[email protected] biorxiv.org/content/10.110…

🧬🤖 Job Opportunity (RT plz)! Omer Ali Bayraktar & I are on the hunt for passionate individuals at the crossroads of Machine Learning & Spatial Biology. Join us for innovative collaborations between labs at Wellcome Sanger Institute. Open to various levels: Postdoc/PhD & Predoc. Questions?

My lab is hiring a postdoc! We use state-of-the-art genomics, single-cell and spatial approaches to explore cancer initiation and evolution. Come join us at MD Anderson Cancer Center! Please share and RT. jobs.mdanderson.org/search/jobdeta…

(1/5) Attention, Cellular Imaging Enthusiasts! Thrilled to share that our Analysis "The Multi-modality Cell Segmentation Challenge: Towards Universal Solutions" has been published in Nature Methods (@NatureMethods) 🎉🎉🎉 Cell segmentation is a critical component of

1/7 Here is a technical update for the latest release of the #SpatialData package from last week. We thank the core developers and contributors for helping us refine the framework, and the users for the precious feedback and discussions. GitHub repository: github.com/scverse/spatia…

Looking for a way to share your spatial omics datasets? If you haven't checked out the #SpatialData article (link) or code (quoted tweetorial), now may be the time. #OMENGFF images🔬integrated with #AnnData tables 📑 all wrapped into #Zarr packages. 🥰 doi.org/10.1038/s41592…

Our lab, in collaboration with partners from Genentech, Sanofi, @gsk, Pfizer Inc., Wellcome Sanger Institute, and EMBL-EBI, has been awarded £2M by Open Targets to generate novel perturbation data across multiple disease models and develop large generative models to facilitate the discovery

1/5 Looking to analyse 10x Genomics Visium HD datasets in Python? Check out Bin2Cell Teichlab! It joins 2μm spots into cells based on morphology images via nuclear segmentation and smart expansion. GitHub and Preprint: github.com/Teichlab/bin2c… biorxiv.org/content/10.110…

#preprint alert 🚨 Can Large Language Models solve common #BioImageAnalysis coding tasks? And which #LLM performs best? 🙃🤓 Great collaboration with Christian Tischer, Jean-Karim Hériché, nico scherf and ... YOU? 🔬🖥️🅰️ℹ️🤝🚀 biorxiv.org/content/10.110…

I am excited to announce the new @MetaAI Segment Anything Model 2 (SAM) for videos as a napari🔬 plugin. Try it! github.com/JoOkuma/napari…

🚨𝐇𝐞 𝐋𝐚𝐛 job opportunity UC San Francisco 🚨: I'm hiring TWO postdocs - an experimentalist and a computational biologist. Join us to use cutting-edge single-cell and spatial technologies to unravel the mysteries of human tissues. opportunities.ucsf.edu/content/open-p…

Spatial data has its challenges to be visualized specifically together with single cell data, our neighbor labs Omer Ali Bayraktar Muzlifah Haniffa, and the team Tong LI 李彤 Dave Horsfall have cracked it with WebAtlas. nature.com/articles/s4159…

The NFDI4BIOIMAGE proposal is now on Zenodo! 🎉 With thanks to Christian Schmidt for herding the authorial cats and to said cool cats for making all of this happen. bit.ly/n4bi-proposal #bioimaging #rdm #FAIR #NFDI

WebAtlas for visualising single cell & spatial data online is out: rdcu.be/dRsKu With Muzlifah Haniffa Tong LI 李彤 Dave Horsfall+co, we aimed to open up sc/spatial data to biologists & clinicians without coding experience/infrastructure. Rambling🧵on why this matters

Out last week from the Bayrakter and Hannifa labs! WebAtlas offers user-friendly sharing and interactive navigation of integrated single-cell and spatial transcriptomic datasets. nature.com/articles/s4159…

It's great to be at #EMC2024 and learn more about all the different microscopy techniques. I will be presenting a poster on Fractal, our framework for scalable image analysis in OME-Zarrs on Wednesday afternoon (poster 58), feel free to stop by if you're there as well!

In case you missed this: we are hosting the #OME_NGFF_workflows_hackathon in November! Save the date and come have some bioimage analysis fun with us in Zürich!

Interactive analysis is considered one of the most challenging bioinformatics steps. 💡Seqera's #DataStudios makes this easier by bringing reproducible, containerized and interactive analytical notebook environments to your data in real-time. 👉Dive in: seqera.io/blog/data-stud…

Kota Miura is #ImagingTheFuture by working toward a more profound understanding of biology through increased access to bioimage analysis education