How low can you go? Short-read polishing of Oxford Nanopore bacterial genome assemblies. Published #OpenAccess and fee-free in #MGen using a #PublishAndRead agreement: doi.org/10.1099/mgen.0…

🚨 Call for Abstracts! 🚨 One Health Aotearoa invites submissions for the #OneHealth Aotearoa Symposium 2024! 📆 3-4 December 📍University of University of Otago Submit your 250-word abstract by 31 August 2024 to [email protected] Don't miss out! #Research #Collaboration

I finally got around to testing HERRO (github.com/lbcb-sci/herro), the new Oxford Nanopore read correction algorithm which takes simplex ONT reads to PacBio-HiFi-level accuracy. I was impressed! Findings are on my blog in a two-part post: rrwick.github.io/2024/07/26/her… rrwick.github.io/2024/07/31/her…

Phage annotation tool called PHOLD, developed by George Bouras who also created PHAROKKA. This tool transforms the way scientists annotate phage genomes by predicting more features using protein morphology instead of only relying on sequences. thephage.xyz/2024/07/21/pho…

🧬 Excited to share our latest review article on metagenomic binning methods. (1/3) 👏 Kudos to co-authors Anuradha Hansheng Xue Bhavya Papudeshi Susie Grigson George Bouras DinsdaleLab Rob Edwards #Bioinformatics #Metagenomics #Binning #Software academic.oup.com/bib/article/25…

FoldMason progressively aligns thousands of protein structures in seconds, enabling remote MSA for distant phylogeny. Highlights: structural flexible MSA, LDDT conservation score, friendly webserver🧵 💾github.com/steineggerlab/… 🌐search.foldseek.com/foldmason 📄biorxiv.org/content/10.110…

As a few of you requested at #ISMB2024, here is an entry-level tutorial to get started with nanopore signal data with SLOW5 hasindu2008.github.io/slow5/tutorial written by mungbungo

Have you seen our latest review paper on metagenomic binning methods? If not go check it out. 😊 We review not only binning methods but also bin-refinement, visualisation, and evaluation tools used in metagenomic studies. 🧬 (1/n) #Metagenomics #Binning #Bioinformatics

📣PhD/Honours Opportunity📣 Become an expert in microbial multi-omics while tracking the evolution and expression of antimicrobial resistance plasmids from biosolids to soils. Please share around :) adelaide.edu.au/study/postgrad…

Introducing the 😱OMG dataset and 🤖gLM2! OMG is a massive Open MetaGenomic corpus totaling 3.1Tbp of data and 3.3B proteins. We train gLM2, the first mixed-modality genomic language model, on OMG. 1/🧵 #BioML #AI4Science

Out now in Protein Science, a project I've been working on before AlphaFold2 came along! Here are multiple approaches I've developed to improve our functional classification algorithms for CATH Functional Families, including the latest CATH-eMMA dx.doi.org/10.1002/pro.51…

Our OnION sequencing computer now has a little sibling: Spring OnION! Short post with some stats and benchmarks: rrwick.github.io/2024/08/16/spr…

COMBINE symposium abstract submission closes soon!

Foldmason, our fast and accurate protein structure-base multiple sequence alignment method, has a logo thanks to HBKgenomics. Also, we updated the preprint, including a multi-domain protein benchmark. 📄biorxiv.org/content/10.110… 💾foldmason.steineggerlab.com 🌐search.foldseek.com/foldmason

Do you want to publish your genomes to SeqCode ? Maybe my #Snakemake pipeline could be of interest to you! It quickly lets you check if your assemblies reach the required criteria and gives you an easy to read report like this as an output 🙂 github.com/richardstoeckl…

We were lucky enough to hear Jon Mifsud present this work at #MicroSeq2024 yesterday. Published in Nature today! #Virology #Flaviviridae Check it out now👇 nature.com/articles/s4158…

Reconstructing virus evolutionary history is hard! Structural prediction and phylogenetics can help👍 Check out our new study out in nature nature.com/articles/s4158… University of Sydney Sydney Health

💻 Don’t miss George Bouras presenting Hybracter, a fast, automatic, scalable tool for recovering accurate bacterial genomes! Learn how it outperforms existing methods in recovering complete genomes and small plasmids. #MicroSeq2024 #Genomics #Bioinformatics

💻 Tune in to Bhavya Papudeshi’s presentation on Sphae, a toolkit for identifying #PhageTherapy candidates from #sequencing data! Learn how this workflow streamlines phage characterization for therapeutic use. #MicroSeq2024 #Bioinformatics

MicroSeq2024 ASM If you are working with phages, give Sphae a try, github.com/linsalrob/sphae