Excited to announce a new 5-year project on developing generative models for complex trait genomics. I’m now looking for PhD candidates with CS, ML, stats or bioinformatics backgrounds. I’d very much appreciate it if you could spread the word. Contact: [email protected]

We're organising a microbes & deep learning session at SMBE next year -- looking forward to seeing your abstracts!

legend 2025 will be next Tuesday/Wednesday/Thursday. The detailed program is on legend2025.sciencesconf.org?lang=en If you are not attending the conference you can still follow the presentations online (Zoom links are on the website).

Happy to share STORIES out now on Nature Methods STORIES learns cell fate landscapes from spatial tramscripromics data profiled at several time points, thus allowing prediction of future cell states. Led by Geert-Jan Huizing and Jules Samaran www.nature.com/articles/s41... @pasteur.fr

Very happy about this work on phylogenetic neural inference, led by @lblassel.bsky.social :)

October 17 is your last chance to register for the 2nd conference on Machine Learning for Evolutionary Genomics Data (Dec 8-12), in the French Alps at legend2025.sciencesconf.org The conference talks are online at legend2025.sciencesconf.org/data/book_le...

Ca n'est pas si souvent, un article publié dans Nature met ma communauté à l'honneur (la bioinformatique des séquences). Je vous raconte ? www.nature.com/articles/d41...

The decisions for LEGEND are out: legend2025.sciencesconf.org/data/book_le... I'm really looking forward to hearing these 21 exciting presentations (and additional 30 posters) next December. If you want to attend too, registration is open until October 17th through legend2025.sciencesconf.org

Only a few hours left to submit your abstract for a talk at the Machine Learning in Evolutionary Genomics conference in December in Aussois in the French alps!

#MLCB2025 is tomorrow & Thursday with a fantastic lineup of keynotes & contributed talks www.mlcb.org/schedule. We'll be livestreaming through our YouTube channel www.youtube.com/@mlcbconf. Thanks to www.corteva.com, instadeep.com, the Simons Center at CSHL & NYGC for generous support!

Achievement unlocked: defend your habilitation thesis on the same day than your partner. That was quite a science + celebration day, thanks to all involved 💙✨

🌎👩‍🔬 For 15+ years biology has accumulated petabytes (million gigabytes) of🧬DNA sequencing data🧬 from the far reaches of our planet.🦠🍄🌵 Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open. doi.org/10.1101/2024...

The call for abstract for LEGEND is now open: legend2025.sciencesconf.org It will close on September 22nd (oral presentations) and October 1st (posters). Send us your best work on Machine Learning for Evolutionary Genomics and come discuss it with us in the French Alps next December!

#TalentCNRS 🥉| Flora Jay, entre génomes synthétiques et récits évolutifs, reçoit la médaille de bronze du CNRS. ➡️ www.ins2i.cnrs.fr/fr/cnrsinfo/... 🤝 @lisnlab.bsky.social @cnrs-paris-saclay.bsky.social

Preprint alert! 🦌 Our new abundance index, REINDEER2, is out! It's cheap to build and update, offers tunable abundance precision at kmer level, and delivers very high query throughput. Short thread! www.biorxiv.org/content/10.1... github.com/Yohan-Hernan...

Registration is now open! The 580€ include housing and all meals. We will close on October 17th or when reaching 80 participants.

The 2026 Probabilistic Modeling in Genomics (ProbGen) meeting will be held at UC Berkeley, March 25-28, 2026. We have an amazing list of keynote speakers and session chairs: probgen2026.github.io Please help spread the news.

Merci à @cnrs-rhoneauvergne.bsky.social et @astropierre.com pour cette interview sur mes travaux en IA pour la génomique évolutive!

Phyloformer is finally published in MBE! 🎉 academic.oup.com/mbe/advance-... The thread below provides a summary of our neural network for likelihood-free phylogenetic reconstruction.

The next LEGEND conference on machine learning for evolutionary genomics will be in Aussois (French Alps) between December 8th and 12th. Mark your calendars and make sure your best work is ready next September when the call for abstracts opens 🙂 legend2025.sciencesconf.org

🧬 Excited to share our latest work, MUSET 🌭, a new tool for creating abundance unitig matrices from sequencing data. It was published yesterday in Oxford Bioinformatics if you want to have a look👀 : academic.oup.com/bioinformati... Let's break it down:

My book is (at last) out, just in time for Christmas! A blog post to celebrate and present it: francisbach.com/my-book-is-o...

Ok, I tried to create my own list of people working on developing statistical or machine learning models applied to omics data. I am sure I missed a lot of cool people. If you'd like to be added, let me know. #Stats #ML #Omics go.bsky.app/73rcuJn

We just released a preprint for Phyloformer, a likelihood-free inference method for phylogenetic reconstruction: biorxiv.org/content/10.1... Faster than distance methods like neighbor joining, it outperforms maximum likelihood methods under complex models of sequence evolution. 🧵

The first LEGEND conference on Machine Learning for Evolutionary Genomics will be held on May 13-15th in Heraklion! Keynotes by Sara Mathieson, Hélène Morlon, Pier Palamara and Tal Pupko. Register and submit your abstract here: legend2024.sciencesconf.org