🦠🛠️ 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

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)

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

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...

by @bebatut.bsky.social on @galaxyproject.bsky.social

ELIXIR Europe@elixir-europe.org · last wk.

ELIXIR’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

Just realised its #PeerReviewWeek, so I thought I'd re-share my piece from last year on why we need a FAIR Principles for Peer Review doi.org/10.59350/dpr...

From @plos.org #Computational #Biology | Ten quick tips for spatial transcriptomics analysis | #Bioinformatics #Education #PLOSCBQT #Histology #Genomics #Transcriptomics #OpenScience | 🧬🖥️🧪🔓 ⬇️ journals.plos.org/ploscompbiol...

Ten quick tips for spatial transcriptomics analysis

Author summary Spatial transcriptomics (ST) lets researchers measure gene expression while preserving the tissue location of each measurement. Where a cell sits, and which cells surround it, shape how...

journals.plos.org

we have an opening in our group at @fmiscience.bsky.social - contact @mbstadler.bsky.social or me to get more details: www.fmi.ch/education-ca...

👓 Visualising sequence alignments in 3D? Jalview enables multiple structures to be visualised with Chimera, ChimeraX, PyMOL and Jmol — helping scientists and educators bring biology to life. 📺 Explore the editor's functionality: www.youtube.com/watch?v=pbms... www.youtube.com/watch?v=yRBL...

Now in @natneuro.nature.com: work from @rainerfriedrichlab.bsky.social shows that, in zebrafish, learning to tell smells apart reshapes activity across groups of neurons, making key odors easier to distinguish and offering clues to how the brain may organize memories. www.fmi.ch/news-events/...

Learning reshapes the brain’s map of smell

The brain is constantly taking in sights, sounds and smells, and learning helps it decide which ones matter. Working in zebrafish, FMI neuroscientists have found that learning to tell smells apart cha...

fmi.ch

🎉 Thrilled to have co-led FAIRyMAGs with Paul Zierep! We used @galaxyproject.bsky.social to implement FAIR workflows and @galaxytraining.bsky.social training materials (also available on YouTube)

ELIXIR Europe@elixir-europe.org · last wk.

The ELIXIR-funded FAIRyMAGs project has released a set of 🙌 openly available workflows, training materials and example #datasets to support researchers working with metagenome-assembled genomes 👉 loom.ly/yh_aNFE @ifb-elixir-fr.bsky.social @ebi.embl.org @denbi.bsky.social @elixir-it.bsky.social

with @mbstadler.bsky.social from @fmiscience.bsky.social

Arnaud Krebs@arnaudkr.bsky.social · last wk.

your starter pack for Single Molecule Genomics! Why you should do it (or not) - How you should do it. Collective effort with @vram142.bsky.social @stirlingchurchman.bsky.social @naltemose.bsky.social A Stergachis M Stadler W Greenleaf @embl.org rdcu.be/PmzSEV529GRa

This week, the small scale @galaxyproject.bsky.social admins will meet on Thursday (September 17th): galaxyproject.org/events/2026-...

A systematic evaluation of the sources of non-uniform coverage in RNA-Seq and limitations of current practices bit.ly/3Se2ZJx

I wrote a post about how slice_sample() and other slice_* functions work in #tidyomics #Bioconductor tidyomics.github.io/tidyomicsBlo...

Slicing in tidyomics – tidyomicsBlog

How to use dplyr-style slice operations on omics data objects in the tidyomics project.

tidyomics.github.io

Michael Love@mikelove.bsky.social · 5mo ago

Another Bioc 3.23 update: new dplyr function support for a number of tidyomics packages @stemang.bsky.social Adding slice_sample, *_head, *_tail, *_min, and *_max to: - tidySingleCellExperiment - tidySeurat - plyranges The dplyr descriptions for these: dplyr.tidyverse.org/reference/sl...

Just out in Nat Neurosci: disentangling of neural odor manifolds in "olfactory cortex" of adult zebrafish after learning. Great work by Bo, Nesibe et al and wonderful collaboration with @sueyeonchung.bsky.social that fundamentally changed my view of olfactory cortex. www.nature.com/articles/s41...

New on hg38: Google DeepMind's AlphaGenome Variant Impact (AVI) scores, all 8.8 billion possible single-base changes. It scores non-coding DNA too, flagging things like the TERT promoter mutations common in cancer. See our news for more: bit.ly/GenomeBrowser...

At IUSSI 2026 in Freiburg, Mina Hojat Ansari presented how reproducible, multi-layer metagenomic analysis in Galaxy helps investigate termite gut microbiome recovery after molting. https://galaxyproject.org/news/2026-09-08-galaxy-iussi/ #UseGalaxy #GalaxyProject #EOSC

The latest Galaxy newsletter is here! 📰✨ Catch up on Galaxy 26.1, Galaxy Labs, UseGalaxy Canada, research and training highlights, community news, jobs, and upcoming events across the Galaxy ecosystem. galaxyproject.org/news/2026-09... #usegalaxy #GalaxyProject

Only a handful of spots remain for the 2nd Galaxy Tool Development Workshop in Freiburg (7-9 October 2026). Registration closes on 11 September, and remote participation is available. https://galaxyproject.org/news/2026-09-09-tool-dev-workshop/ #UseGalaxy #GalaxyProject #EOSC

Galaxy Training Academy 2026 brought together more than 2,200 registrations from 108 countries for a free, global week of self-paced Galaxy training across 11 tracks. https://galaxyproject.org/news/2026-09-08-gta2026-recap/ #UseGalaxy #GalaxyProject #EOSC

Our article about Galaxy as a workbench for bioimage data management & analysis, training & community practices, has been published in the Journal of Microscopy (Wiley). Congratulations to all authors and contributors. Special thanks to @beatrizserrano.bsky.social. CC @denbi.bsky.social #UseGalaxy

BF Francis Ouellette@bffo.bsky.social · 2w ago

From @kostrykin.bsky.social and colleagues in the Journal of #Microscopy | Bioimage management and analysis in Galaxy: Tools, workflows, training, and community practices | #OpenScience #Bioinformatics #UseGalaxy CC/ @galaxyproject.bsky.social | 🧬🖥️🧪🔬🔓 ⬇️ onlinelibrary.wiley.com/doi/10.1111/...

From Greg Wilson in arXiv | Twelve Quick Tips for Managing IT Disasters in Small Research Software Teams | #Informatics #OpenScience #Research #IT #DisastersPlanning #NotYetAPLOSCBQT | 🖥️🧪🔥🔓 ⬇️ arxiv.org/abs/2608.27196

Twelve Quick Tips for Managing IT Disasters in Small Research Software Teams

In 2025, the US government launched an unprecedented series of attacks on its own scientific research groups. A year later GitHub dropped below 90% availability for the first time, while wildfires in ...

arxiv.org