Hundreds of thousands of genomes, and Nextflow barely breaks a sweat! Recently used Bactopia to process ~650k assemblies from Zamin Iqbal #AllTheBacteria (ATB) project! ATB: allthebacteria.readthedocs.io Using Bactopia with ATB: bactopia.github.io/latest/blog/20… #NextflowSummit #FOMO🥲

Excited to share BakRep - our latest work published in Microbiology Society #MGen >661,000 bacterial genomes, uniformly characterized & annotated, enriched with metadata, accessible via a flexible search engine doi.org/10.1099/mgen.0… 👇 1/7

Just discovered long-read-tools.org. Looks useful. 🧬🖥️

#KLEBS2024: (free) online registrations are still open for the Klebsiella Epidemiology and Biology Symposium (KLEBS), November 20-22, 2024. Online registration is free to LMIC attendees, and 110/50 Euros for general/student otherwise. Visit klebs-2024.conferences-pasteur.org and register!

An honour to receive the 2025 translational Microbiology Society prize on behalf of the team at Centre for Genomic Pathogen Surveillance

Ever wanted to see the world in a whole new way..? This thread on cool maps is here to blow your mind 1. An Interesting Fact About Russia and USA

Sophia David giving great overview of Klebs analytic support, population data and process in Pathogenwatch

Here we go! #KLEBS2024 400 in person and 400 online participants from 71 countries.... Wow!

It's a houseful at the KLEBS-2024 here at the Institut Pasteur, since 1887.

@DrKatHolt kicking off the first ever Klebsiella Epidemiology and Biology Symposium at Institut Pasteur, since 1887! #KLEBS2024

It's the last day of #KLEBS2024.

It's Evolutionary Fact Friday! Did you know that bacteria can swap antibiotic-resistant genes between themselves? Our very own Ed Feil is studying this process AND is now studying how fungi are becoming resistant to anti-fungals: he's just been awarded a prestigious JPIAMR

What a way to start #ICID2024 at the CTICC (Cape Town International Convention Centre). With a story narration of the Infectious Diseases.International Society for Infectious Diseases It feels like a dream to be here.

An all-in-one bioinformatics pipeline for analysing pneumococcal genomes. Please feel free to let us know your users experience by emailing us :)

Do you make core genome alignments for phylogenomics? Mona Taouk and I explored how including sites with some missing data (a soft core) can improve analysis, especially for large datasets. microbiologyresearch.org/content/journa… (1/4)

The happiness is running your own pipeline.....😍 Nabil-Fareed Alikhan @[email protected] Julio Diaz Caballero thank you for making this happen.... NIHR GHRU AMR David Aanensen github.com/cgps-discovery…

our latest preprint describing amr.watch : a platform for monitoring AMR trends from global genomics data : biorxiv.org/content/10.110…

Thrilled to see these preprints out after many years of planning, data collection, analysis - and huge efforts from the entire EURGen-Net CCRE Survey Working Group. It's been a pleasure working on these with Anke Kohlenberg ECDC, Inga Froding & Alma Brolund Folkhälsomyndigheten