Folks - if you're interested in how machine learning/AI can be used for microbial genomics, microbiome and metagenomics studies - please join us for a workshop in Birmingham on Thursday 8th October organised with CLIMB & NVIDIA. www.climb.ac.uk/blog/2026/09...

Happy to share a new preprint on work from the past few months: In this work, we define the Min-Frame Transformation (MFT), which allows us to transform nucleotide sequences such that mutations between sets of sequences can be effectively masked. www.biorxiv.org/content/10.6... 1/n

Was a huge honor giving the opening remarks today at the 10th anniversary of the M3, Mid-Atlantic Microbiome Meet-up, (blog.umd.edu/m3/2026/01/1...), launched by Prof. Mihai Pop and I way back in July 2016, going strong ever since, thanks to great participation from academia, government, & industry!

Our new preprint on quantifying microbial sample diversity/complexity in a way that accounts for both metagenome architecture and taxonomic composition is now live on bioRxiv: www.biorxiv.org/content/10.6... #metagenomics #bioinformatics #dataanalysis #graphdata

Some of my work from the first year of my PhD is out as a preprint, please check it out! Virus evolution is rapid and prolific both across and within individuals. However, a significant amount of variation remains hidden due to computational bottlenecks in read-alignment and variant calling 1/n

Congrats to Bryce Kille on absolutely smashing his PhD defense at Rice today with advisor @treangen.bsky.social ! Collaborating with Bryce over the past few years has been an absolute delight 👏🎉👏🎉

We're hiring: Assistant Professor in Evolutionary Biology. Come join us: Excellent and supportive colleagues at a private university with a beautiful campus and great students! please RT #RiceEEB #EEBjobs #phdchat #facultyjobs apply.interfolio.com/152527

Had a great lab retreat on Saturday at rice together with @svillapol.bsky.social and @treangen.bsky.social lab. Amazing talks, discussions and overlap of interests. Won't be the last one :)

10 years on, @bkille.bsky.social @treangen.bsky.social and co. have refreshed Parsnp with a version 2! Build a core genome multi-alignment for 100k SARS genomes or 1k Mtb genomes in under an hour 💨

bioRxiv Bioinfo@biorxiv-bioinfo.bsky.social · 3y ago

Parsnp 2.0: Scalable Core-Genome Alignment for Massive Microbial Datasets https://www.biorxiv.org/content/10.1101/2024.01.30.577458v1

Great day in my life!! Finally defended my Ph.D.! I can’t do this without the guidance of my Ph.D. advisor @treangen.bsky.social and my co-advisor @sedlazeck.bsky.social ! I’ll soon join @sedlazeck.bsky.social ’s group at as an postdoc focusing on cancer genetics and cancer epigenetics.

I was waiting for a great topic for my first Bluesky post, and I cannot thing of a better one: I’m thrilled to be hosting @aphillippy.bsky.social at Rice University today and looking forward to his talk at 4pm! events.rice.edu/event/345896...

Distinguished Lecture: Dr. Adam Phillippy

A Ken Kennedy Institute Distinguished Lecture by Dr. Adam Phillippy, Senior Investigator at National Human Genome Research Institute, National Inst...

events.rice.edu

"Minmers are a generalization of minimizers that enable unbiased local jaccard estimation" aka MashMap3 with Bryce Kille, @erikg.bsky.social, and @treangen.bsky.social is now accepted in Bioinformatics! Many thanks to the reviewers for their very careful reviews doi.org/10.1093/bioi...