Lukas Heumos
@LukasHeumos
Research software engineer @laminlabs | Steering council @scverse_team | Postdoc at @fabian_theis lab
One of the few companies that you're rooting for to put out a nice product to ensure that you can continue developing all the great tools that you've shipped
🚨🚨🚨 Rare opportunity alert 🚨🚨🚨 We're hiring engineers to build our first hosted product. Small team (me included). Significant impact on technical direction. Building for world-class companies and the broader Python ecosystem. Link in thread (or DM me).
Zoom registration link: scverse.zulipchat.com/#narrow/channe… To get a preview, check out the latest docs and bring questions! anndata.readthedocs.io/en/latest/
We will have our next community meeting on Tuesday, 2025-06-24 at 18:00 CEST! Sneha Mitra (@sneha__mitra) will speak about SCARlink. (Zoom registration link and more information in thread!)
U have repeatedly claimed that scGPT can predict effects of perturbations. Yet there have been plenty of benchmarks showing otherwise. It would be great to see a formal rebuttal to those benchmarks showing evidence that scGPT can infact reliably predict perturbation effects.
Tuesday, 2025-05-27 at 18:00 CEST, we will have our next community meeting! Yuan Gao will speak about Forseti and introduce the Patro lab's upcoming tool, QCatch. (Zoom registration link in thread!)
I am excited to announce the winners of our @tahoe_ai Tahoe Deep Dive hackathon with @huggingface. We created and released Tahoe-100M to start a movement and a community. And Tahoe Deep Dive Hackathon was the first occasion for this community to get together physically and…
scverse turns 3! What started as a shared vision for interoperable single-cell analysis has become a vibrant, global community. From AnnData to full multimodal pipelines, we’re building the future of everything single-cell and spatial omics, together. Here’s to what’s next!
The next edition of the scverse conference is going to be later this year — mark your calendars and keep an eye on the announcements in the next few months! It's coming to the bay! 🌁
📣 Mark your calendars! The 2025 edition of the scverse conference will take place on 17-19 November at Stanford University (US) scverse.org/conference2025/ Call for abstracts and registrations coming soon!
This Tuesday, 2025-05-13 at 18:00 CEST, we will have our next community meeting! Gregor Sturm will present on scirpy! Check out more information here: scirpy.scverse.org/en/latest/ , and register for the zoom link.scverse.zulipchat.com/#narrow/channe…
The popular DNA test kit company 23andMe has filed for bankruptcy and is looking for a buyer. And while the company has promised to continue protecting customer data amidst a possible sale, Wirecutter’s tech experts think you should delete your data now. nyti.ms/4hP4CE5
Today, 2025-03-04 18:00 CET, Benjamin Rombaut will speak about Harpy, a spatial proteomics tool, as well as other tools from the Saeys lab! Find the zoom link here: buff.ly/3CArAjJ !
🎉 Scanpy 1.11.0 is out! 🎉 just after reaching 2000 stars on GitHub! - sc.pp.sample replaces subsample with many new features - Sparse Dask support pca - session-info2 package for more reproducible notebooks See the release notes: buff.ly/4gJJSNv
Thrilled to share LUNA🌕 – our new generative AI model that reassembles tissues from dissociated cells! Think of it as AlphaFold for cells 🧬 From the MERFISH mouse brain atlas to the scRNA-seq atlas & Slide-tags datasets, LUNA is widely applicable. Bringing us closer to virtual…
To figure out what it takes to make flow matching models solve single-cell biology questions, I discussed with Alessandro Palma, Doron Haviv, and Lazar Atanackovic. The insights they shared are presented here: tinyurl.com/278s5m58 @ale__palmaa @DoronTheViking @lazar_atan
Don't forget to apply to the upcoming @scverse_team x @OwkinScience hackathon - applications due this Friday, February 7th! 📆March 17-19, 2025 📍Owkin Office, Paris docs.google.com/forms/d/e/1FAI…
On Tuesday at 2025-02-04 18:00 CET, @jkobject will talk about scPrint, a transformer model that infers gene networks from scRNA-seq data, at our 2nd community meeting of 2025! For more information, check out the GitHub: buff.ly/40RJ3gT & pre-print buff.ly/4hwK4Av
Finally!
We’re building a new static type checker for Python, from scratch, in Rust. From a technical perspective, it’s probably our most ambitious project yet. We’re about 800 PRs deep!
Looking for a PhD position? Interested in precision medicine in COPD and Asthma using single-cell genomics and machine learning? Looking for a good excuse to travel across Europe (and to Australia)? We are looking for PhD candidates! respire-excel.eu/vacancies
Owkin and @scverse_team are excited to announce their upcoming hackathon, focused on spatial omics data analysis. 📅 March 17-19, 2025 📍 Owkin office, Paris If you are a bioinformatician interested in spatial biology, this is your chance to make a contribution to open-source…
Join us in Paris at the @OwkinScience headquarters to work together on spatial omics! #scverse
Owkin and @scverse_team are excited to announce their upcoming hackathon, focused on spatial omics data analysis. 📅 March 17-19, 2025 📍 Owkin office, Paris If you are a bioinformatician interested in spatial biology, this is your chance to make a contribution to open-source…