Are you at ASM-BIG? Stop by the Galaxy table during the poster sessions to chat about microbial workflows, ask questions, grab some CANDY, or just say hi! https://galaxyproject.org/events/2026-10-11-asm #UseGalaxy #ASMBIG
Hans-Rudolf Hotz
@hrhotz.bsky.social
Molecular Biologist turned Bioinformatician working in the Computational Biology facility at the Friedrich Miescher Institute in Basel Open Science, Training/Mentoring, #UseGalaxy, Bioconductor
Service of the week: Infrastructure for training events not just Galaxy, but R, Python, & more. TIaaS is provided by usegalaxy.eu and offers stable, dedicated resources for bioinformatics and data science courses of all sizes. Free for academic life scientists. Provided by RBC 👉 usegalaxy.eu/tiaas
📄 Long text + LLM context limits? Galaxy can help. The new LangChain Text Splitters tool breaks long texts into manageable chunks for tasks like summarization, translation & RAG, all within Galaxy workflows. 🤖✨ Learn more: galaxyproject.org/news/2026-10... #usegalaxy #LLM #OpenScience
LangChain Text Splitters, the Missing Link when Processing Long Texts with LLMs
Circumvent context window limits of LLMs by splitting long texts into manageable chunks
galaxyproject.org
Circumvent context window limits of LLMs by splitting long texts into manageable chunks https://galaxyproject.org/news/2026-10-02-langchain-text-splitters/ #UseGalaxy #GalaxyProject #EOSC
How can Bioconductor methods become more reusable across different workflow ecosystems? Our latest blog explores how Bioconductor, Galaxy & nf-core contributors used a single-cell workflow to test the BiocJobs approach & advance research software interoperability. Read the full post: bit.ly/4y4ZuUB
From kerstinhowe.bsky.social and colleagues in @qbiogn-bot.bsky.social | Generating eukaryotic reference genome assemblies: Earth BioGenome Project quality #Standards and #Recommendations | #OpenScience #Bioinformatics #Genomics #EarthBioGenomeProject | 🧬🖥️🧪🔓 ⬇️ arxiv.org/abs/2610.03075
Generating eukaryotic reference genome assemblies: Earth BioGenome Project quality standards and recommendations
Reference genome assemblies are foundational resources across the biological sciences as they begin to expose the fundamental building blocks of each species and the molecular toolkits vital for adapt...
arxiv.org
This week, the small scale @galaxyproject.bsky.social admins will meet on Thursday (October 15th): galaxyproject.org/events/2026-...
Small Scale Galaxy Admins Meeting
Galaxy Community Hub
galaxyproject.org
Chromatograms is out in Analytical Chemistry! Chromatographic data in R, in memory, on disk or computed on demand, now part of xcms and tested on 4,000+ LC-MS files. Thanks to my amazing co-authors and specifically @jorainer.bsky.social doi.org/10.1021/acs.... #RStats #Bioconductor #MassSpec
Chromatograms: A Modular Infrastructure for Scalable Chromatographic Data Handling in R
Abstract. Chromatographic traces are central to LC-MS analysis, yet most software treats them as transient intermediates inside a fixed pipeline rather tha
doi.org
1/9 New paper led by Michael Hauri & Peter Buttaroni: “Learning Commute-Time-Preserving World Models for Planning.” We show how to shape a world model's latent space so its distances mean something for planning.🧵 📄 arxiv.org/abs/2610.01373 💻 github.com/fmi-basel/co... 🌐 ctwm-website.github.io
Across 160 bioinformatics tasks, agents using Galaxy achieved accuracy comparable to agents writing custom code. https://galaxyproject.org/news/2026-09-21-ai-agents-benchmark/ #UseGalaxy #GalaxyProject
🚨our educational resource for #reproducible #metabolomics data analysis using @bioconductor.bsky.social and #rstats integrating #Python and #SIRIUS6 is now published! 👉 #Metabonaut bit.ly/4z9WaYZ 📄 doi.org/10.1007/s113... Great work from @philouail.bsky.social and big thanks to all contributors! 🙌
Exploring and Analyzing LC-MS Data
This resource hosts tutorials and end-to-end workflows describing how to analyze LC-MS/MS data, from raw files to annotation, using Bioconductor packages.
bit.ly
(finally) on my way to Freiburg to catch up with the latest development on @galaxyproject.bsky.social @galaxytraining.bsky.social
Today was the kickoff of our new #EU project on #AI Readiness for Social Impact #ai4social We from @galaxyfreiburg are excited to be part of this #EOSC project with more than 10 partners. During the next years we will mostly contribute to developing an AI-ready infrastructure platform and […]
Original post on fedihum.org
fedihum.org
#BioC2026 brought the Bioconductor community together in Seattle for three days of science, software and community building. From inspiring talks & posters to workshops, package demos, and the hackathon, it was a great celebration of 25 years of Bioconductor. Read the full recap: bit.ly/4e9Kopr
BioC2026 conference recap – Bioconductor community blog
Highlights from the 2026 North American Bioconductor Conference in Seattle, Washington
blog.bioconductor.org
🧬 New on the GTN: explore how protein structure can influence ligand-binding site predictions using SIMORGH, ColabFold, and structural ensembles. See how deep learning and Galaxy can help account for protein dynamics in binding-site analysis. training.galaxyproject.org/training-mat...
Statistics and Machine Learning / Comparing ligand-binding site predictions across different protein structure modalities using SIMORGH / Hands-on: Comparing ligand-binding site predictions across dif...
Statistical Analyses for omics data and machine learning using Galaxy tools
training.galaxyproject.org
🔬The second #ELIXIR_STEERS policy brief, Better software, better research, sets out 5️⃣ recommendations to strengthen Europe’s research software ecosystem. Read the news release and discover the recommendations: https://loom.ly/hCUxzds #FP10
🔬 Lab data 🤝 Galaxy analysis A new openBIS integration lets you browse and import lab files directly into Galaxy, run your analyses, and send results back to openBIS. Fewer manual file transfers, smoother workflows. galaxyproject.org/news/2026-09... #usegalaxy #OpenScience
Connecting openBIS and Galaxy: from lab data to analysis and back
Browse openBIS files in Galaxy, analyse them, and return results to your lab notebook
galaxyproject.org
🦠🛠️ Join the **microGalaxy Tool Development Hackathon** on October 14! Help update highly used metagenomics tools in Galaxy’s IUC repository and contribute alongside the microGalaxy community. 🌐 Online + free to participate 🔗 galaxyproject.org/news/2026-09... #usegalaxy #microGalaxy #Metagenomics
microGalaxy Hackathon for Tool Development
Join the microGalaxy community on October 14th to update outdated metagenomics tools in the IUC repository!
galaxyproject.org
Gravlax: an annotation-independent molecular evidence archive for single-cell RNA-seq #SingleCell 🧪🧬🖥️ https://www.biorxiv.org/content/10.64898/2026.09.18.752708v1
It's here! new preprint: Gravlax, an annotation-independent molecular evidence archive for scRNA-seq. A count matrix freezes one annotation. Molecules never change. Instead, gravlax keeps the evidence. Requantify, query, and discover under any annotation. 🧵 www.biorxiv.org/content/10.6...
I'm happy to announce the fall 2026 Open Bioimaging Practices Meetup schedule. We'll have 3 exciting meetings about developments in the OME-Zarr space: - OME-Zarr viewers - Multiplexed Image analysis in OME-Zarr - Spatial OMICs in OME-Zarr See www.biovisioncenter.uzh.ch/en/events/Op... (🧵 1/10)
Open Bioimaging Practices Meetups
biovisioncenter.uzh.ch
We lost a giant of our field this March and we are happy to be able to share this tribute: "Phil Bourne (1953–2026): From small molecules to big data—the journey of a multifaceted visionary". Read the tribute here: https://doi.org/10.1093/bioadv/vbag239
The Image Analysis in Galaxy community is happy to share the first publication on bioimage data analysis, management and community practices in Galaxy https://galaxyproject.org/news/2026-09-16-bioimagingpub-jm/ #UseGalaxy #GalaxyProject #EOSC
From Thomas Sharpton (at @oregonstate.edu ) in @plos.org #Computational #Biology | A practical risk framework for large language model use in life science research | #Bioinformatics #Education #LLM #PromptDesign #Framework #Research #LifeSciences | 🧬 🖥️ 🧪 🔓 ⬇️ journals.plos.org/ploscompbiol...
A practical risk framework for large language model use in life science research
Responsible use of large language models (LLMs) in life science research demands a unified approach to risk, yet existing guidance treats prompting and verification as separate topics rather than as i...
journals.plos.org
📣 Introduction to the Data Analysis Platform Galaxy (in German) 📍 Freiburg, Germany 📅 2 December 2026 🔗 More info & registration: https://galaxyproject.org/events/2026-12-02-ub-cl/ #UseGalaxy #GalaxyProject #EOSC #EuroScienceGateway
Introduction to the Data Analysis Platform Galaxy (in German)
Galaxy Community Hub
galaxyproject.org
How not to build a lncRNA annotation tool: 1. assume the genome & transcriptome consists of only lncRNAs and mRNAs:
You can read more about why these approaches universally perform terribly here: rnajournal.cshlp.org/content/31/9...
Evaluating computational tools for protein-coding sequence detection: Are they up to the task?
A monthly journal publishing high-quality, peer-reviewed research on all topics related to RNA and its metabolism in all organisms
rnajournal.cshlp.org
by @bebatut.bsky.social on @galaxyproject.bsky.social
ELIXIR Europe@elixir-europe.org · 4w agoELIXIR’s internal project, FAIRyMAGs, is developing #FAIR Galaxy workflows 💡, benchmarking approaches and training materials for metagenome-assembled genomes. 🙌 Support reproducible analysis for researchers to apply consistent workflows. 🔗 Watch project update: https://loom.ly/NnhPL3M
From the @bioinfoadv.bsky.social journal | Phil Bourne (1953–2026): from small molecules to big data—the journey of a multifaceted visionary | #Bioinformatics #Pioneer @rcsbpdb.bsky.social @iscb.bsky.social #PLOSCBTSR #OpenScience #OpenAccess #DataScience |🧬🖥️🧪🔓❤️ ⬇️ academic.oup.com/bioinformati...
Phil Bourne (1953–2026): from small molecules to big data—the journey of a multifaceted visionary
Abstract. Born in London in 1953 and raised in Australia, Phil Bourne spent over four decades in science moving across scales: from crystal structures to t
academic.oup.com