scverse

For more information, check out their documentation (lnkd.in/gTSrBNSn)!

Zoom registration link for the meeting: lnkd.in/dZpbKKsY

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 🧵

For more information, check out their documentation (hv-anndata.readthedocs.io/en/latest/)!

Zoom registration link for the meeting: lnkd.in/dZpbKKsY

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 🧵

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

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.

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

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.

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

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

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...

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

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

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 ⚡️

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

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 🧵

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.

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

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 🧵

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...

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≥...

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)

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

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.

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 🧵

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

📅 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

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!

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

Please note that remote attendance is available for the first two days of the conference (November 17th and 18th) only and does not include access to the workshops on the third day (November 19th), which are exclusively for in-person participants.

Scverse Conference 2025 From the foundational open-source software in the life sciences — to its large community coming together

We're pleased to announce that we are now offering online attendance via Zoom.

Remote attendance is available for 30 USD, and you can secure your spot by registering at www.eventbrite.com/e/scverse-co....

We hope to see you online at the conference!