iiinova — where your digital self keeps evolving

We’ll be sharing a detailed blog post in the coming days with everything that was built, discussed, and what comes next. Stay tuned 🚀

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What stood out most was how naturally these efforts connect back to the broader vision of scverse: building a unified, extensible ecosystem for all things single-cell A big thank you to our sponsors who made this possible: 10x Genomics, Biohub, Proteintech, Lamin, and Pfizer.

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• strengthening connections with the R ecosystem and existing tools there • integrating single-cell proteomics, spatial proteomics, and spatial transcriptomics • tackling metadata standards and interoperability challenges

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Across the hackathon, teams worked on: • data analysis workflows for single-cell and spatial proteomics • shaping best practices and documentation for the field • expanding core data structures to better support proteomics needs

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As part of the scverse Proteomics Consortium, a community-driven effort that lives under scverse and shares its open, interoperable, and collaborative mission, we brought together researchers, developers, and domain experts to push forward what multimodal single-cell biology can look like.

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scverse @scverse.bsky.social · 16/03/2026

Two inspiring days in Berlin just wrapped up with our scverse hackathon on single-cell and spatial proteomics and it’s hard not to feel energized by what this community can do together.

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For more information, check out the following- Alphabase GitHub: github.com/MannLabs/alp... GitHub: github.com/MannLabs/alp... Zoom registration link for the meeting: scverse.zulipchat.com#narrow/chann...

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scverse @scverse.bsky.social · 16/03/2026

We will have our next community meeting on Tue, March 17, 2026, 11AM CST/ 9AM PST ! Lucas Diedrich and Vincenth Brennsteiner, will be presenting on Alphabase and Alphapepttools: tools to make proteomics analyses easier. Zoom registration link in 🧵

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scverse @scverse.bsky.social · 11/03/2026

scverse @scverse.bsky.social · 11/03/2026

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scverse @scverse.bsky.social · 27/02/2026

For more information, check out the following- Alphabase GitHub: github.com/MannLabs/alp... Alphapepttools GitHub: github.com/MannLabs/alp... Zoom registration link for the meeting: scverse.zulipchat.com#narrow/chann...

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scverse @scverse.bsky.social · 27/02/2026

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scverse @scverse.bsky.social · 26/02/2026

Key details - Online workshop - September 14-16, 2026 - 3 x 4 hours of content You can find the full schedule here: www.physalia-courses.org/courses-work... We look forward to seeing you!

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scverse @scverse.bsky.social · 26/02/2026

Our core team members, Sara Jimenez and Tim Treis, in collaboration with Physalia courses, will guide participants from preprocessing and quality control through to the analysis of spatial omics data.

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scverse @scverse.bsky.social · 26/02/2026

We're excited to announce that registration for our upcoming Spatial Omics workshop has opened! Details in 🧵

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scverse @scverse.bsky.social · 16/02/2026

For more information, check out the following- Website: biomni.stanford.edu Paper: biomni.stanford.edu/paper.pdf GitHub: github.com/snap-stanfor... Zoom registration link for the meeting: lnkd.in/dZpbKKsY

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scverse @scverse.bsky.social · 16/02/2026

We will have our next community meeting on Tue, Feb 17, 2026, 11AM CST/ 9AM PST ! Kexin Huang, will be presenting on Biomni: a general-purpose biomedical agent. Details in 🧵

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scverse @scverse.bsky.social · 11/02/2026

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scverse @scverse.bsky.social · 11/02/2026

We will have our next community meeting on Tue, Feb 17, 2026, 11AM CST/ 9AM PST ! Kexin Huang, will be presenting on Biomni: a general-purpose biomedical agent. Details in 🧵

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scverse @scverse.bsky.social · 02/02/2026

For more information, check out their documentation (lnkd.in/gTSrBNSn)! Zoom registration link for the meeting: lnkd.in/dZpbKKsY

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scverse @scverse.bsky.social · 02/02/2026

We will have our next community meeting on Tue, Feb 3, 2026, 11AM CST/ 9AM PST ! Philipp A will be presenting on HoloViz: High-level tools to simplify visualization in Python. Details in 🧵

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scverse @scverse.bsky.social · 29/01/2026

For more information, check out their documentation (hv-anndata.readthedocs.io/en/latest/)! Zoom registration link for the meeting: lnkd.in/dZpbKKsY

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scverse @scverse.bsky.social · 29/01/2026

We will have our next community meeting on Tue, Feb 3, 2026, 11AM CST/ 9AM PST ! Philipp A will be presenting on HoloViz: High-level tools to simplify visualization in Python. Details in 🧵

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scverse @scverse.bsky.social · 19/01/2026

For more information, check out their website (singlerust.com) and preprint (biorxiv.org/content/10.1...) ! Zoom registration link for the meeting: lnkd.in/dZpbKKsY

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scverse @scverse.bsky.social · 19/01/2026

We will have our first community meeting of 2026 on Tue, Jan 20, 2026, 11AM CST/ 9AM PST ! Ian Ferenc Diks (@ianfd.bsky.social) will be presenting on SingleRust: A High-Performance Toolkit for Single-Cell Data Analysis at Scale.

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scverse @scverse.bsky.social · 15/01/2026

For more information, check out their website (singlerust.com) and preprint (www.biorxiv.org/content/10.1...) ! Zoom registration link for the meeting: lnkd.in/dZpbKKsY

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scverse @scverse.bsky.social · 15/01/2026

We will have our first community meeting of 2026 on Tue, Jan 20, 2026, 11AM CST/ 9AM PST ! Ian Ferenc Diks will be presenting on SingleRust: A High-Performance Toolkit for Single-Cell Data Analysis at Scale.

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scverse @scverse.bsky.social · 12/12/2025

We’re looking for someone who: • Communicates clearly • Enjoys open-source collaboration • Has scientific/computational background • May have design or social media skills 📍 Munich or remote 🕒 Part- or full-time 🏢 Helmholtz Munich / Theis Lab 💡 TVöD up to E13

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scverse @scverse.bsky.social · 12/12/2025

You’ll help: • Coordinate our international community • Host meetups + support workshops, hackathons, conferences • Communicate releases & community milestones • Contribute to visual identity and outreach • Support sponsorships & training materials

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scverse @scverse.bsky.social · 12/12/2025

We’re looking for a Community Manager to help shape and support the growing scverse ecosystem. Deadline January 10, 2026! More details here: jobs.helmholtz-muenchen.de/jobposting/d...

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scverse @scverse.bsky.social · 08/12/2025

We will have our final community meeting of 2026 on Tuesday, 2025-12-09 at 11:00 CST/ 9:00 PST! Mikaela Koutrouli (@MKoutrouli) will wrap up a great year of meetings by giving an update on the state of scverse! Zoom registration link for the meeting: lnkd.in/dZpbKKsY

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scverse @scverse.bsky.social · 03/12/2025

We will have our final community meeting of 2026 on Tuesday, 2025-12-09 at 11:00 CST/ 9:00 PST! Mikaela Koutrouli (@mkoutrouli.bsky.social) will wrap up a great year of meetings by giving an update on the state of scverse! Zoom registration link for the meeting: lnkd.in/dZpbKKsY

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scverse @scverse.bsky.social · 26/11/2025

We wrapped up an inspiring week with a visit to NVIDIA headquarters right after the scverse conference. Huge thanks to the NVIDIA Healthcare team and @severin7.bsky.social for hosting us and for the great discussions on scaling single-cell analysis and accelerating open science ⚡️

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scverse @scverse.bsky.social · 24/11/2025

BioContextAI: Biomedical Model Context Protocol servers for composable agentic systems. For more information, check out their website: biocontext.ai and publication: nature.com/articles/s41... Zoom registration link for the meeting: lnkd.in/dZpbKKsY

scverse @scverse.bsky.social · 24/11/2025

We will have our next community meeting on Tuesday, 2025-11-25 at 11:00 CST! Malte Kuehl (@maltekuehl.com) will be presenting on BioContextAI! More information and Zoom registration link in 🧵

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scverse @scverse.bsky.social · 20/11/2025

Full house for our Bi[o]hub workshop on Day 3! Communities aren’t just built, they are co-created. Together, we’re shaping an open, connected world of all-things-single-cell research, where sharing tools and ideas drives discovery.

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scverse @scverse.bsky.social · 19/11/2025

scverse @scverse.bsky.social · 19/11/2025

We will have our next community meeting on Tuesday, 2025-11-25 at 11:00 CST! Malte Kuehl (@maltekuehl.com) will be presenting on BioContextAI! More information and Zoom registration link in 🧵

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scverse @scverse.bsky.social · 11/11/2025

We are proud to announce that we're partnering with @biocontext.ai (biocontext.ai), a new open-source initiative for building agentic systems in biomedical research. Learn more in our announcement: scverse.org/blog/2025-11...

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scverse @scverse.bsky.social · 11/11/2025

We just released scanpy 1.12rc1 (scanpy.readthedocs.io/en/latest/re...) Highlights: - Dask support in `sc.get.aggregate` for pseudobatching + `highly_variable_genes(flavor='seurat_v3')` - More functions allow specifying `layers` and `obsm` - Turn off quirky behavior (new defaults for scanpy 2.0)

scanpy.readthedocs.io

Release notes

Version 1.12: 1.12.0rc1 2025-11-10: Breaking changes: Adopt the Scientific Python deprecation schedule: remove Python ≤3.11 support and officially add Python 3.13 and 3.14 support, require anndata≥...

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scverse @scverse.bsky.social · 10/11/2025

For more information, check out their documentation: sccellfie.readthedocs.io Meeting Zoom registration link: lnkd.in/dZpbKKsY

scverse @scverse.bsky.social · 10/11/2025

scCellFie is a computational framework that infers metabolic activities from both single-cell and spatial transcriptomic data, enabling large-scale, interpretable analyses across cell atlases.

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scverse @scverse.bsky.social · 10/11/2025

We will have our next community meeting on Tuesday, 2025-11-11 at 11:00 CST! Eric Armingol will be presenting on scCellFie! More information and Zoom registration link in 🧵

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Reposted by scverse

Lukas Heumos @lukasheumos.bsky.social · 06/11/2025

Excited to see a home for MCP servers in bioinformatics emerge! The community needs a central hub for developing MCP servers for key bioinfo tools. At @scverse.bsky.social we're contributing to this effort - can't wait to share what we're building

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📅 November 17-19, 2025 at Stanford University, California 🏛️ Format: 2 days of main conference + 1 day of satellite workshops across the Bay Area ℹ️ More info: scverse.org/conference2025 Register: buff.ly/18KAUfpSubmit Abstract: buff.ly/5nboSpt

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Elham Azizi, Associate Professor of Cancer Data Research and Biomedical Engineering at Columbia University will be talking about her work using machine learning to decode the tumour microenvironment!

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Meet the keynote speakers for the 2025 scverse conference! Elham Azizi, Associate Professor of Cancer Data Research and Biomedical Engineering at Columbia University 🧵 @elhamazizi.bsky.social @columbiauniversity.bsky.social #scverse #scverse2025 #machinelearning #genomics #cancerimmunology

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