Martín

For users of our new FTP space: ftp.ebi.ac.uk/pub/ensemblo... - reminder that we are retiring the species name based directory structure this week! More info on our blog www.ensembl.info/2026/10/08/r...

Welcoming the next cohort of 2026 @nextflow.io Ambassadors! 🎉145 active Ambassadors from 39 countries now support the global Nextflow community 🌎 by organizing events, creating content, speaking at conferences, and helping researchers adopt better workflows.

#Opensource software and workflows are doing a lot of heavy lifting 🏋️ in the life sciences! Let's revisit ✨ ELIXIR's report on "Open source software and workflows: a driving force for innovation in life sciences" to find out the importance of #OSSWs 👉 https://doi.org/10.5281/zenodo.17570133

Antimicrobial resistance (AMR) is a growing health threat, making infections harder to treat and complicating routine medical care. EMBL-EBI’s new AMR portal brings together laboratory resistance data and bacterial genomes in one open platform. #WAAW2025 #ActOnAMR www.ebi.ac.uk/about/news/t... 🧬💻

🧩 Evangelos Karatzas from @ebi.embl.org presented @nf-co.re/proteinfamilies - a scalable @nextflow.io pipeline that groups uncharacterized metagenomic proteins into families, enabling functional annotation transfer

🌐 EMBL’s new initiative is set to transform life science research through full AI integration – from genomics to drug discovery. 💡 Funding from the Hector Foundation is dedicated to attracting interdisciplinary talent, boosting infrastructure, training, & innovation. www.embl.org/news/connect...

📣 We’re pleased to announce the release of jackhmmer. It’s now available for use, and we’d greatly value any feedback as we continue to improve the tool. www.ebi.ac.uk/Tools/hmmer/... Give it a try and share your thoughts! #bioinformatics #hmmer

Multi-omics time-series analysis in microbiome research: a systematic review https://www.biorxiv.org/content/10.1101/2025.07.03.659054v1

PIMENTO: A PrIMEr infereNce TOolkit to facilitate large-scale calling of amplicon sequence variants https://www.biorxiv.org/content/10.1101/2025.07.04.663168v1

Do you use EMBL-EBI data resources? We would really appreciate your feedback! Our Interim Director Jo McEntyre explains how you can help us demonstrate the value of our data resources: www.ebi.ac.uk/about/news/a... Survey closes on 16 July: www.surveymonkey.com/r/QGFMBH8?ch... Thank you!

Mettannotator academic.oup.com/bioinformati... provides a rich set of annotations for prokaryotic genomes, within a comprehensive NextFlow pipeline leveraging tools, databases and customised scripts to tap into gene functions for novel species.

It’s #WorldMicrobiomeDay! This year’s theme is Microbiome 101: What You Need to Know — here we present MGnify’s guide to microbiome data! 🔬

MGnify genome catalogues have close to 0.5 million genomes sourced from 12 biomes #WorldMicrobiomeDay

🚨Awesome comms jobs alert! The @ebi.embl.org Comms team is looking for two new colleagues: 🟢 Deputy Head of EMBL-EBI Communications 🟢 Communications Officer Applications close on 20 July. One of them is my role which I'm finishing in a few months after 9 incredible years. Why apply?

Nextflow Training Week is Back on June 23-27, 2025! 🎉 This free, self-paced training is perfect for newcomers looking to get started with Nextflow Sign up now: hubs.la/Q03sDmpr0

We have just released a new version of the Microbiome Informatics metagenomes assembler pipeline - github.com/EBI-Metageno.... Jenny Mattock benchmarked a new contigs cleaning process that Sonya Ochkalova implemented. Great team effort with > 100 comments in the PR. #nextflow @mgnifydb.bsky.social

If EMBL-EBI managed data resources have ever saved you time & effort, this is your chance to give back! Fill in a 15-minute survey to help us: 🌍Demonstrate the real-world impact of our resources 🤓Understand your needs 🌟Secure continued funding Closes 16 July www.surveymonkey.com/r/QGFMBH8?ch...

I'm attending #ISMBECCB2025 in Liverpool, United Kingdom from July 20-24. Register here -> invt.io/1bxbsewpk7l

Pipeline release! nf-core/proteinfamilies v1.2.0 - Aluminium Frog! Please see the changelog: https://github.com/nf-core/proteinfamilies/releases/tag/1.2.0

DIAMOND v2.1.12 provides support for the new NCBI taxonomic ranks and various other fixes. github.com/bbuchfink/di...

@olgabot.bsky.social, CEO & Founder at @seanome.bsky.social, just gave an insightful talk on her vision to create the best protein annotator for any organism using @nf-co.re, supporting efforts to better understand global biodiversity through large-scale sequencing. 🌍🧬

FAREWELL AND GODSPEED, PEPE As a Marxist guerrilla, José Mujica was nearly killed in a shootout and tortured during 14 years in prison As president, he oversaw an economic boom, a reduction in poverty and the legalization of same-sex marriage and marijuana. www.washingtonpost.com/obituaries/2...

📣 We will be transitioning to a new website architecture on May 20, 2025. We will not be running a parallel system, so you may have to make a few changes, especially if you are using the API.

Big updates for the Nextflow @vscode.dev extension! 🚀 🔍 Workflow view – Visualize logical structure of pipelines ⚙️ Process view – See all processes in one place 🌐 Seqera view – Manage connected CEs directly in the IDE 📚 Resources view – Quickly access Copilot, AI tools & training

🔗 Registration: Registration is free but limited to 15 attendees onsite. Secure your spot soon! forms.gle/KQK7arqNjqth... Don't miss this opportunity to be part of something big! Thanks @elixir-europe.org, @denbi.bsky.social, @ifb-elixir-fr.bsky.social for the support

Blog post about the "Introduction to Nextflow" workshop in Montevideo last week. This workshop was organized by the lovely people of the ISCB Regional Student Group Uruguay rsg-uruguay.iscbsc.org. www.mberacochea.cc/posts/worksh... @nextflow.io @iscb.bsky.social

New post about @nextflow.io -- www.mberacochea.cc/posts/nextfl...

If you want to start learning #Nextflow or brush up on your basics of #Nextflow, now is the perfect time 🕑! New training materials and support from ambassadors and experienced community members during training week help guide you through it, at your own pace! community.seqera.io/t/nextflow-t...

Calling all bioinformatics enthusiasts! Join a global network of @nextflow.io ninjas for the @nf-co.re hackathon from March 24-26, 2025 🎉 Collaborate remotely or at one of the 36+ local sites worldwide (🇦🇷🇦🇺🇧🇪🇧🇷🇨🇦🇨🇴🇨🇿🇩🇰🇪🇹🇫🇷🇩🇪🇬🇭🇬🇷🇮🇳🇮🇹🇳🇱🇳🇿🇵🇰🇵🇱🇿🇦🇪🇸🇸🇪🇨🇭🇹🇷🇬🇧🇺🇸). Registration is now open! 🎟 nf-co.re/events/2025/...

🌟 Features include annotations by UniFIRE (UniProt's automated function prediction system), AMR, biosynthetic gene clusters 🦠 Can be used on novel & known species 💻 Try it out: github.com/EBI-Metageno...

Our paper describing mettannotator, a new prokaryotic annotation pipeline, is out: academic.oup.com/bioinformati... 📝 Mettannotator generates comprehensive structural & functional annotations ⚙️ Built with #Nextflow — scalable, no installation needed

It's fantastic seeing the number of local sites grow and grow for the upcoming @nf-co.re #hackathon ! 🎉 Already a new record and with better global spread than ever before 🌎🌏🌍 If you think you can host a site, tell us now! General registration opens in a few days 🎟 nf-co.re/events/2025/...

mettannotator: a comprehensive and scalable Nextflow annotation pipeline for prokaryotic assemblies https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btaf037/7978911 🧬🖥️🧪 Nextflow https://github.com/EBI-Metagenomics/mettannotator

I've recently joined the Nextflow Ambassador program, we are using Nextflow in our team at @mgnifydb.bsky.social extensively. I'm excited to help grow the community around Nextflow. Being originally from 🇺🇾 (but now living in 🇬🇧), I want to help grow the LATAM Nextflow community.

📢 EXPOSED: While your water bills could rise by 84%, water companies sent £££billions to shareholders instead of cleaning our rivers 💩💩💩 Find out how much they took from YOU: www.greatwatercon.uk #greatwatercon

At ELIXIR Europe's 2024 BioHackathon, we co-led work to improve how the metagenomics community can use RO-Crates to collectively describe and analyse more datasets, more efficiently. Our preprint envisions this as a federated microbiome analysis service: osf.io/preprints/bi...

OpenAI's training bot crawled a nonsensical set of sites set up by the author of The Internet for Dummies 3 million times in a day www.404media.co/openai-train...

Hi, I'm endosymbiosis. You might remember me from hits like Mitochondria: Powerhouse of the Cell, or ¡Chloroplast! Well, let me introduce you to the newest organelle that's gonna fix your N2 and steal your heart. Meet the nitroplast! 🧪 www.nature.com/articles/d41...