🔥The 9th Round of Easy Loan, Earn $40 Reward is in progress❗️ ⏰ Promotion Period: January 15th - Feburary 15th, 2025 👉 Register now and check more details at gate.io/campaigns/358

Ever wanted to visualize the results of your experiments on top of full resolution images directly in #JupyterNotebook? Now you can do so using TissUUmaps 3.0! Visit our website for more information: tissuumaps.github.io

If you need access to lots of single-cell data for benchmarking & prototyping methods, check out this workshop. It's also an opportunity to learn how to make your own data more re-usable and accessible.

JOB alert. Help us find a staff scientist to map cell states in glioblastoma with sc/spatial omics. Fantastic post for a PhD/postdoc to generate massive brain cancer datasets for cell2location & more. Work with Oliver Stegle Rowitch, Behjati & James Briscoe labs. Link👇and pls RT

About 3 weeks ago I defended my PhD thesis (🥳); it still feels kinda surreal... While writing the whole thesis was a blast, expressing my own reflections and predictions in the Epilogue was my favorite part. For the curious, I put this into a blog post: almaan.github.io/post/2022-04-0…

📢Workshop: "Spatial transcriptomics data analysis in Python" 💬Speakers tagged on picture 🔧Tools: squidpy, ncem, cell2location, eggplant Basic Python & scanpy knowledge required! ⏰ May 23 & 24, 1-5pm CEST ✏️Register: bit.ly/spatialWS22 💡More: singlecell.de

squidpy 1.2 is now available for download! This release features static plotting for diverse spatial technologies, reading functions, load remote zarr stores in ImageContainer and better support for anndata objects with multiple libraries. pypi.org/project/squidp…

A question for all the #spatialomics people, what's your favorite term for the spatial locations and why? I see so many different options: bead, spot, feature, pixel, gexel, etc. Can't we just agree on one?😤🙏 Some thoughts👉 almaan.github.io/post/2022-05-0…

🎉🎉 Extremely proud and grateful that our Tissue Immune Cell Atlas is out in Science Magazine bit.ly/Sci_abl5197 A thread 🧵 (1/12)

We are very excited to announce scverse (scverse.org), a new consortium around the core Python packages for single-cell omics data analysis. scverse is a cross-lab effort to ensure the longevity and interoperability of the single-cell analysis ecosystem in Python.

Today we’d like to highlight features from functorch, a beta PyTorch library that provides JAX-inspired function transformations like vmap. (pytorch.org/functorch/) If you’re not sure what sort of cool new things vmap allows you to do, read on to learn more! (1/n)

We've also just published new squidpy release, with several bugfixes for readers and new tutorials for @nanostringtech cosmx, 10x Genomics Xenium and Vizgen MERSCOPE, check them out squidpy.readthedocs.io/en/latest/tuto…

This is a must read for anyone interested in spatial omics! 🤩 To me, this is a landmark paper and an example of really intelligent use of spatial data. Beautiful work, I've been waiting on this since the preprint - congrats to everyone involved!🥳

Are you, like us, wondering WHERE’S that CLONE? On behalf of the ‘Spatial VDJ’ team, here's full-length BCR and TCR mapping in human tissue using spatial transcriptomics (Visium). biorxiv.org/content/10.110… Kim Thrane Qirong Lin @Jeff_Mold Jonas Frisén Joakim Lundeberg thread 1/n

Not sure what to do this summer? Join our AI/ML team here at Genentech in beautiful SF as an intern! If you're interested in method dev. for spatial-omics or phenotypic screening, we have two kick-ass projects where some extra hands are needed! 🤩 roche.wd3.myworkdayjobs.com/ROG-A2O-GENE/j…

Pls RT! We are hiring a senior computational biologist to work on large sc/spatial datasets of human brain cancer. High potential for career dev & long term opportunities with the lab. We are drowning in cool data & you get to look at pretty ST as a bonus tinyurl.com/d3kwc74x

Super excited to present our algorithm, Mellon for computing densities in single-cell landscapes. biorxiv.org/content/10.110…

JOIN OUR TEAM CNAG! WANTED: Spatial Genomics Team Leader. Help us bringing #singlecell research to the next level! Projects: Human Cell Atlas #immunooncology #autoimmune Technology: @nanostringtech 10x Genomics @BGI_Genomics Bruker Apply: cnag.eu/jobs/spatial-g…

From yesterday's exhibits in US v. Sam Bankman-Fried: The prosecution shows that the "insurance fund" that FTX bragged about was fake, and just calculated by multiplying daily trading volume by a random number around 7500

Supercharge your summer by joining our team at Genentech as an intern! I'll be mentoring one intern focusing on representation learning for omics data. Sounds interesting? Read more and apply here 👉 roche.wd3.myworkdayjobs.com/ROG-A2O-GENE/j…

🚨 Alert 🚨 Any1 with an interest in the intersectional space of AI/ML and omics-related stuff should have a look at this workshop 👉 mlgenx.github.io It's designed to bring people from both domains together and has a stellar committee! I'm super stoked 🙌🙌