We're delighted to have contributed case studies to OpenAI's report on scientific computing in the age of agentic AI. 📃 hubs.la/Q04r75Zm0 Alongside Felix Krueger (Altos), we contributed agent-assisted rewrites of RNA-seq QC tools (RustQC, FastQC-Rust & more), built for @nextflow.io and @nf-co.re.

Scientific computing in the age of agentic AI

A new field report shows how scientists use AI coding agents to modernize scientific computing, accelerating software development and discovery in genomics and beyond.

hubs.la

It was fun being invited to contribute a case study to this #OpenAI preprint + blog 😊 I think it ended up a really nice overview, an interesting cross-section of how people are approaching similar problems with #ai #agent -assisted #bioinformatics software projects...💡 openai.com/index/scient...

Scientific computing in the age of agentic AI

A new field report shows how scientists use AI coding agents to modernize scientific computing, accelerating software development and discovery in genomics and beyond.

openai.com

OpenAI {bot}@openaibot.bsky.social · last wk.

Coding agents are helping scientists spend more time advancing research, taking on everything from routine maintenance and targeted optimization to complete redesigns and new systems. (1/2)

Welcome to the Program!🎉 We're absolutely delighted to be welcoming 43 new Nextflow Ambassadors to the Program who will help foster collaboration, organize events, and support fellow community members across the global Nextflow ecosystem.🌎

📢 Deadline tomorrow: Speak at the #NextflowSummit by @seqera.io this Oct.🎤 We want to hear how you're using Nextflow to solve real bioinformatics challenges at scale, from pipeline development to agentic approaches and more. Submit your abstract now: hubs.la/Q04qsyFn0

Only ONE WEEK left to submit your talk abstract for the online #NextflowSummit in October! 📅🔥 Get those abstracts in quick! 😅

Nextflow@nextflow.io · 3w ago

🎤 The #NextflowSummit returns on Oct 13-14, and we're looking for speakers to share their experience using Nextflow for scalable, reproducible analysis.🌎 Submit your talk abstract by July 24 to share your work with global community. 🔗 hubs.la/Q04pMYJ80

New @nf-co.re monthly #newsletter is live! Read all about it in a new blog post out today: nf-co.re/blog/2026/ne... You can get monthly emails, or subscribe on LinkedIn: www.linkedin.com/newsletters/... Little promo clip made using hyperframes.heygen.com just for fun 😅

Happening right now: join @ewels.bsky.social in a @nf-co.re #bytesize talk to hear all about our newest feature: monthly Newsletters! nf-co.re/events/2026/...

Bytesize: nf-core newsletter

Phil Ewels, Seqera

nf-co.re

I'm very happy to say that we now have new tools for viewing @nextflow.io log files for both the #CLI and the #VSCode extension! Try it out with the latest Nextflow edge release (26.05.0-edge) after a run: $ nextflow logfile Or open any log file in VSCode with the Nextflow extension installed ✨🌈

Nextflow@nextflow.io · last mo.

Nextflow log files are great for debugging, but digging through 1000s of debug lines to find an error can be difficult Introducing new log viewers in the CLI and VS Code extension, with syntax highlighting and log-level filtering to drill down to a few lines of warnings and errors hubs.la/Q04m8s110

New in @seqera.io #Containers: you can now edit the #conda environment.yaml directly to control how your container is built. 📦 📄 ✍️ The UI also shows how to do the same with the Wave CLI in your terminal, which also saves to Seqera Containers. Short demo: youtu.be/DkRgor8Mx4A seqera.io/containers

Seqera Containers: customize your environment.yaml

YouTube video by Seqera

youtu.be

Registration is now open for the October #NextflowSummit! Both online virtual attendance (free) and in-person hackathon / training, in Barcelona 🇪🇸 Come and join to see what the fuss is about, get new skills, meet old friends and hear the latest and greatest in scientific developments! ✨ 🎉

Seqera@seqera.io · 2mo ago

This October, join us in Barcelona for #Nextflow Training or the @nf-co.re Hackathon to sharpen your skills and collaborate with the community. Registration is now open ⬇️ 🔸 Training: hubs.la/Q04k3sjz0 🔸 Hackathon: hubs.la/Q04k3w9G0

It's amazing to see how much Nextflow has grown! When I joined Seqera in 2022, there were multiple places around the world who barely had anyone who had ever run Nextflow. It's a totally different scenario in 2026, and it's so nice to have been on board during this trip! 🤩

Nextflow@nextflow.io · 2mo ago

When Nextflow was first released, the goal was simple: make scientific workflows reproducible and scalable for everyone. 📈 Nextflow is the gold standard for bioinformatics, bringing control and traceability to the volume and velocity of science.

Jeremy Wang developed rammap, a minimap2 rewrite in Rust. It achieves comparable or better performance than minimap2 and produces identical output to minimap2. During rewrite, Jeremy found two long-existing bugs in minimap2 which are fixed in v2.31. www.biorxiv.org/content/10.6...

Join @ewels.bsky.social (Senior Product Manager, OSS) and Ben Sherman (Senior Software Engineer) on June 17 to discover everything that's new in the latest @nextflow.io release. ⬇️

Nextflow@nextflow.io · 2mo ago

Nextflow 26.04 introduces new capabilities to help you write bug-free pipeline code and catch errors early. Join us for a live walkthrough of everything that's new. We’ll kick off with key updates in Nextflow 26.04, followed by demos of new language features and the Nextflow Module Registry.

@multiqc.info has ~200 config options for customizing reports: renaming samples, reordering modules, dropping stats columns, tweaking plot defaults, and more.📊 But most users don't know what's possible, so we built a MultiQC Config Wizard. hubs.la/Q04hgKlS0

Introducing the MultiQC Config Wizard | Seqera

A new static HTML wizard for browsing, building, and validating MultiQC config files. Learn how Pydantic powers the wizard, as well as docs and VSCode integration.

hubs.la

I finally gave in and wrote myself an @elgato.com #StreamDeck to do "fake typing" for demo videos. You can "type" preset texts (long-press for alt., also cycle or print random) and make it look more Human with delays, randomness and even typos 😅 Code is on GitHub 👉🏻 github.com/ewels/type-d...

Had a lot of fun hacking with this over the past few days (it went through multiple variations!) Thanks to @vladsavelyev.bsky.social for doing the initial refactoring work under the hood in #MultiQC and wiring up Pydantic, and starting the first version of config wizard 🎉

MultiQC@multiqc.info · 3mo ago

Happy to say MultiQC v1.35 is out 🎉 The headline feature: a MultiQC Config Wizard 🧙‍♂️ Browse every config option with help text and examples, fill out a form with live validation, or paste in your existing YAML and have it explained and checked. Video below 👇

📷 The Nextflow Summit Boston 2026 photo gallery is live! Browse the highlights: hubs.la/Q04h5Rf30

Producing the rewrite is only the start of the story though. @ewels.bsky.social joined @robert.bio on the OMGenomics podcast to talk about rewriting bioinformatics tools in Rust and what AI-assisted development looks like in practice. 🎧 Give it a listen: hubs.ly/Q04gY5Kq0

I interviewed 5 bioinformatics experts about AI rewrites

Enjoy the videos and music you love, upload original content, and share it all with friends, family, and the world on YouTube.

hubs.ly

It was great fun talking to @robert.bio and his edit is great (I love some of the overlays, especially the one about @robp.bsky.social being an authority 😂)

Robert Aboukhalil@robert.bio · 3mo ago

I've seen lots of AI rewrites in bioinformatics lately, and I’m concerned because LLMs can be confidently wrong. What do the best tool builders do to make sure their rewrites are correct? How can we tell if a rewrite is flawed? I interviewed 5 scientists to find out: youtu.be/0o2XnEBDxrI

My talk from the #NextflowSummit is on YouTube! youtu.be/LbA_d4oOpDQ I talked about my recent odyssey with AI-written software, including #RustQC, rewrites.bio, Trim Galore and a FastQC rust rewrite 👀 This was honestly one of my favourite talks to date. I hope it's interesting for folks 😊

Phil Ewels: Bioinformatics in the agentic age: Practical tips learnt from RustQC and rewrites.bio

YouTube video by Nextflow

youtu.be

All the videos from the Boston #NextflowSummit are now available on YouTube! There are some brilliant talks in there 🤩

Nextflow@nextflow.io · 3mo ago

2 days. 20+ talks. One incredible community 🌍 All the sessions from #NextflowSummit Boston are now available on-demand! Industry talks from across pharma & biotech, agentic bioinformatics, Nextflow 26.04, Seqera Co-Scientist & more! @seqera.io

Nextflow 26.04 is here!🚀 This release makes writing bug-free pipeline code easier than ever, whether you're coding yourself or working with AI agents. Clearer errors, stronger types, and simpler code reuse. hubs.la/Q04d-6m60

@ewels.bsky.social from @seqera.io just dropped a mass of knowledge about RustQC, a single Rust binary replacing 15 RNA-seq QC tools with 60x faster speed, built entirely with AI and zero prior experience. Plus, rewrites.bio for responsible rewrite principles🤯 #NextflowSummit

Yessss new socks for the collection! 🧦

Nextflow@nextflow.io · 3mo ago

Who doesn't love swag?🔥 Check out the latest from the #NextflowSummit. @nextflow.io, @seqera.io, and @nf-co.re goodies - stickers and socks from the nf-core hackathon and training here in Boston!

Did you miss the registration deadline for the Boston #NextflowSummit? Fear not - all talks will be live streamed online! 🎉 The hybrid event will use the same platform as the October 2025 event, you can watch live and ask questions for the speaker. Hit the link below to register!

Nextflow@nextflow.io · 4mo ago

Can't attend #NextflowSummit in Boston?👀 Watch the livestream for free on April 30 – May 1 🎉 Experience the #NextflowSummit from wherever you are. @seqera.io 🎟️Join us: hubs.ly/Q04cJnBk0

Heng Li's blog posts are always thoughtful and well written, this is no exception. Great to see folks coming to similar conclusions around #Rust #rewrites in bioinformatics. Also appreciate the RustQC / rewrites.bio cite 🙏🏻

Blog post on "The AI Rewrite Dilemma": lh3.github.io/2026/04/17/t...

The nf-core Hackathon in Boston is happening in just over 2 weeks! 💻Join us April 28–29 for two days of collaborative hacking.🎟️ Register now: hubs.la/Q04brb4c0 Whether you want to add new features to existing pipelines, work on tooling, or tackle community initiatives — there's something for you.

Very very important initiative, check it out #bioinformaticians!

Phil Ewels@ewels.bsky.social · 4mo ago

I'm both excited and a little terrified. It feels like a wave of AI-assisted tool rewrites is coming to bioinformatics whether we like it or not. We figured that the best we can do is to try to get ahead of it, so we wrote down some principles for doing it responsibly: rewrites.bio

AI coding assistants just passed a threshold: domain experts can now rewrite established scientific software in days. This wave of rewrites is coming for #bioinformatics. The question isn't whether to embrace this capability, but how to do it responsibly.🧵 hubs.la/Q04b85ww0

🔍 Discover principles for rewriting tools with AI: seqera.io/blog/rewrite...

rewrites.bio: Principles for AI-assisted Modernization of Scientific Software | Seqera

A wave of AI-driven tool rewrites is coming to bioinformatics. We've published a set of best-practices principles to try to help people to approach rewrites in the right way.

seqera.io