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New Publication "Galaxy single-cell & spatial omics community update: Navigating new frontiers in 2025"

By Diana Alejandra Chiang Jurado

October 14, 2025

We’re thrilled to share our new publication in Cell Genomics:
“Galaxy single-cell & spatial omics community update: Navigating new frontiers in 2025.”
📘 Read the full article here

Galaxy single-cell and spatial omics graphical abstract

Empowering Reproducible Single-Cell and Spatial Omics

This update highlights how the Galaxy single-cell and spatial omics community continues to expand its ecosystem of tools, datasets, and training materials.
The paper showcases the progress made toward more FAIR single-cell and spatial omics analysis within Galaxy, supported by over 175 tools, 120 training resources, and an active global community of contributors.

Key areas include:

  • New tool integrations for multimodal single-cell data, pseudo-bulk, CNV, single-cell format converters, and spatial transcriptomics.
  • Enhanced workflows for reproducible preprocessing, clustering, and downstream analysis.
  • Community-driven training through the Galaxy Training Network (GTN), featuring hands-on tutorials and use cases.
  • Cross-infrastructure interoperability, connecting Galaxy instances and cloud resources across Europe and beyond.

Collaborative Growth Across the Galaxy Community

The Galaxy single-cell and spatial omics community (SPOC) brings together researchers, developers, and trainers from around the world to build open, shareable solutions for complex biological data.
Since its launch in 2022, SPOC has grown into a thriving international network uniting developers, trainers, and users across Galaxy instances worldwide, ensuring sustainable tool development, updated training materials, and shared best practices for single-cell and spatial omics analysis.
This collaborative effort demonstrates the value of open science, from transparent analysis pipelines to the co-creation of training materials and workflows.

Join the Community

You can explore tools and training resources at:

Interested in contributing? Connect with us in community meetings, share your workflows, and be part of upcoming training and collaboration events.

🧬 This work represents a collective achievement of the Galaxy single-cell and spatial omics community (SPOC), highlighting open science, sustainability, and collaboration at a global scale.