Integration of the Dataverse with Galaxy

Galaxy users can now connect to a Dataverse as a repository source, browse and search datasets directly from the Upload dialog, import files into histories and utilize them for scientific analyses.

Introducing the Zip Explorer: Import individual files from ZIP archives

Preview the contents of local or remote ZIP archives, explore rich RO-Crate metadata, and import only the files you need directly from the Galaxy interface.

Secure Your Tools with Galaxy's New Credentials System

Galaxy 25.1 introduces a powerful new credentials system that lets tools securely access external APIs and services with encrypted secret storage and a streamlined user experience.

GPU-accelerated genome mapper Parabricks FQ2BAM is now in Galaxy

NVIDIA Parabricks GPU-accelerated FQ2BAM is now available in Galaxy, bringing FASTQ-to-BAM alignment runtime to just a few minutes for 2.5 GB paired-end human whole-genome datasets. Its runtime is benchmarked against BWA-MEM2 and BWA across five runs and shows that mapping and QC metrics remain essentially identical to CPU-based alignment—while delivering a major speedup for Galaxy workflows.

Integration of the Hugging Face Hub with Galaxy

Galaxy users can now browse the Hugging Face Hub as a repository source, import models straight into their histories, and feed them into tools. A step-by-step example shows how to pull models from the Hugging Face Hub into Galaxy and then using the existing DocLayout-YOLO tool for document layout segmentation.