2/ Gene-level stats ≠ biological interpretation.
You need pathway-level signals.
That’s where gene set enrichment comes in.
But most tools are:
• slow
• fragile with small n
• stuck in R

Statistical Rethinking 2026 is done: 20 new lectures emphasizing logical and critical statistical workflow, from basics of probability theory to causal inference to reliable computation to sensitivity. It's all free, made just for you. Lecture list and links: github.com/rmcelreath/s...

🚨 Postdoctoral Opportunity for Female Scientists🚨

The University of Vienna is awarding at least 20 fully funded 4 year postdoctoral positions to outstanding female scientists

Interested? Get in touch via direct message
careers.univie.ac.at/en/postdoc/e...

#MicroSky 🧪

#PostDoc @univie.ac.at

Instructure and OpenAI Announce Global Partnership to Embed AI Learning Experiences within Canvas

So it looks like i hadn't mentioned this, here, so just in case let me say this plain: Instructure, the parent company & producer of the Canvas learning management software platform, has partnered with OpenAI, as of last year. There are a number of claims being made about privacy but… well. Heads up

course schedule as a table. Available at the link in the post.

I'm teaching Statistical Rethinking again starting Jan 2026. This time with live lectures, divided into Beginner and Experienced sections. Will be a lot more work for me, but I hope much better for students.

I will record lectures & all will be found at this link: github.com/rmcelreath/s...

Troubleshooting common errors in assemblies of long-read metagenomes - Nature Biotechnology Long-read sequence assemblies from metagenomes contain frequent errors.

Really important read for people working with long-read MAGs.
www.nature.com/articles/s41...

Professurship (W2) in Microbiology - Regensburg (Stadt), Bayern (DE) job with Universität Regensburg | 12851113 UNIVERSITY OF REGENSBURG   The Faculty of Biology and Pre-Clinical Medicine invites applications for a   Professurship (W2) in Microbiology   To be...

A new year brings new opportunities: we are looking to fill a permanent professorship position with a Microbiologist preferably with expertise on archaeal biology, RNA biology or imaging techniques to unravel cell biology in prokaryotes! Please share and/or apply :)! www.nature.com/naturecareer...

💾 Prokka 1.15.6 is released!

This is the last major release of Prokka. But don't be sad, because @oschwengers.bsky.social already has an excellent replacement called Bakta you can migrate to.
#bioinformatics #microbiology #genomics

github.com/tseemann/pro...

Virome Analysis Viruses are omnipresent and the most abundant biological entities on the planet. They play a critical role in shaping the ecology and evolution of all life forms. This chapter provides methods to perf...

I'm proud to share the latest methods work from my group. Led by @revathykri.bsky.social we wrote a book chapter on how we process and analyse viromes.

Thanks to co-authors @rikhaagmans.bsky.social @ryancook94.bsky.social & Alise Ponsero

link.springer.com/protocol/10....

Co-occurrence is associated with horizontal gene transfer across marine bacteria independent of phylogeny academic.oup.com/ismej/advanc... #jcampubs

We are thrilled to announce the first official release (v0.1.8) of #𝗯𝗲𝗱𝗱𝗲𝗿, the successor to one of our flagship tool, #𝗯𝗲𝗱𝘁𝗼𝗼𝗹𝘀! Based on ideas we conceived of long ago (!), this was achieved thanks to the dedication of Brent Pedersen.

1/n

Phylogenetic reconciliation supports a methanogenic ancestor of the Archaea and a derived origin for host-associated lineages The phylogeny of the Archaea continues to be revisited and revised as new groups are discovered and phylogenetic methods improve, but key questions about their early evolution remain. It has been sugg...

#Archaea, #DPANN, #phylogenetic_reconciliation
New preprint online!
www.biorxiv.org/content/10.1...

Please Avoid detectCores() in your R Packages The detectCores() function of the parallel package is probably one of the most used functions when it comes to setting the number of parallel workers to use in R. In this blog post, I’ll try to explai...

The detectCores() apocalypse is creeping up on us 👻🐛

As more people are getting access to 128+ CPU cores, code spinning up parallel cluster with detectCores() workers fails - not enough #RStats connections available

Friends, do *not* default to detectCores(), bc www.jottr.org/2022/12/05/a...

October 2025 batch of Kraken 2 indexes, including core_nt and many others, available: benlangmead.github.io/aws-indexes/k2

Coming soon to K2: a feature for querying many K2 indexes as though they're a single index. Highly useful if the index you want to query is too big to build and/or fit in RAM.

Around 10% of your Nanopore reads (SQK-RBK114) are incorrectly trimmed. Here is why, and how our new tool Barbell solves it:

www.biorxiv.org/content/10.1...

Want to get started? github.com/rickbeeloo/b...

A screenshot of a statistics tutorial made with R, quarto and webR

Still fascinated with #webR and its potential for teaching stats

Here students can play (even from their phones) and find out themselves how the p-value depends on sample size

pakillo.github.io/LM-GLM-GLMM-... #rstats

To summarise our recent pre-print: Autocycler, the automated consensus assembler, when used with Nanopore long-read only Enterobacterales assemblies, produces more complete chromosomes and plasmids, with an accuracy comparable to hybrid assemblies.

Job Alert! We're hiring a BIOINFORMATICIAN / NGS SPECIALIST to support our new Molecular Biodiversity Lab in the @terra-cluster.org at @unituebingen.bsky.social. Like the idea to use your skills for understanding biodiversity? To work on diverse questions in a wonderful place? Apply!
Please repost!

New blog post!

metaMDBG (@gaetanbenoit.bsky.social) and Myloasm (@jimshaw.bsky.social) have had recent releases, so I updated the benchmarks from the Autocycler paper:
rrwick.github.io/2025/09/23/a...

Both tools improved considerably! Time to update your conda environments 😄

contact me or @csoneson.bsky.social if you want more details

European Bioconductor Conference 2025 – EuroBioC2025 The European Bioconductor Conference (EuroBioC2025) will take place on September 17th to 19th, 2025, in Barcelona, Spain. EuroBioC2025 will bring together the Bioconductor community to showcase the…

⏳ One week left to register!
Join us at EuroBioC2025 in Barcelona and the Bioconductor Carpentry Workshops for hands-on learning, community building, and cutting-edge bioinformatics.

🗓️ Registration closes August 28 — don’t miss out!
🔗 eurobioc2025.bioconductor.org

#EuroBioC2025 #RStats

{tinytable} 0.13.0 for #RStats can now draw interactive tables with sorting, filtering & pages!

And the 📦 is still an ultra-simple, powerful, and 0-dep way to create beautiful tables in basically any format: tex, typ, docx, pdf, png, md, etc

Gallery & Docs: vincentarelbundock.github.io/tinytable/

Job opportunity Postdoctoral Researcher (m/f/div) in Gut Microbiome Metabolomics at Leibniz HKI Jobportal Wissenschaft/Forschung in Jena

We’re hiring a Postdoc in Gut Microbiome Metabolomics!

Help us decode microbial metabolism and its impact on human health @leibniz-hki.de , Jena 🇩🇪

🔗 jobs.hki-jena.de/jobs/Postdoc...

Protein structure alignment significance is often exaggerated Machine learning has generated millions of high-quality predicted protein structures, creating a need for computationally efficient structure search algorithms and robust estimates of statistical sign...

"We show that unrelated proteins have a universal tendency towards convergent evolution of secondary and tertiary motifs, causing an excess of high-scoring FP alignment... previous methods routinely overestimate significance by up to six orders of magnitude."
www.biorxiv.org/content/10.1...

How to Become: a Marine Biologist YouTube video by Study Hall

IT'S HERE!!!!!!!!! I had the opportunity to work with @gostudyhall.bsky.social to film a video on How to Become a Marine Biologist a few months ago and now it's live! www.youtube.com/watch?v=ezaE...

Genomes of nitrogen-fixing eukaryotes reveal an alternate path for organellogenesis | PNAS Endosymbiotic gene transfer (EGT) and import of host-encoded proteins have been considered hallmarks of organelles necessary for stable integration...

www.pnas.org/doi/10.1073/... Genomes of nitrogen-fixing eukaryotes reveal an alternate path for organellogenesis #protistsonsky

Bioinformatician - Uppsala University Bioinformatician, Department of Organismal Biology, Uppsala University

The @scilifelab.se ancient DNA unit is looking for an bioinformatician placed at Uppsala University. This is a great way to be part of diverse #aDNA research projects as a staff scientist with permanent (!!) employment:

www.uu.se/en/about-uu/...

DPANN Archaea and CPR Bacteria: insights into early cellular evolution? | Philosophical Transactions of the Royal Society B: Biological Sciences Cultivation-independent techniques have facilitated the discovery of a diversity of thus far uncultivated organisms and led to the identification of new branches within the tree of life. This has resh...

DPANN Archaea and CPR Bacteria: insights into early cellular evolution? royalsocietypublishing.org/doi/full/10.... #jcampubs

AI Carpentry? Helping learners make better choices with genAI. In two recent community discussion sessions, we explored what mental model of machine learning/deep learning we could teach to learners already familiar with the basics of programming, to help them sa...

My latest post on @carpentries.carpentries.org blog is a call to action for the community to engage in curriculum development for workshops about genAI. How can we help our target audience make more informed choices about when and how to use it?

carpentries.org/blog/2025/08...

Oatk: a de novo assembly tool for complex plant organelle genomes. #DeNovoAssembly #OrganelleGenomes #Bioinformatics #GenomeBiology
genomebiology.biomedcentral.com/articles/10....