New blog post! I analyse the new [email protected] basecalling model from @nanoporetech.com and discuss the conspicuous lack of a new sup model: rrwick.github.io/2026/06/11/d...

Is @nanoporetech.com hac v6 better than 5.2.0 sup? The short answer is no. But are a few errors in a genome worth 5 times more basecalling compute? github.com/Kirk3gaard/M...

Without trusted references, methylation data is hard to interpret. Using ATCC Genome Portal resources and nanopore sequencing, this webinar shows how to turn raw microbial modification signals into biological insight. https://bit.ly/4o369uU

It's also a boon for service providers with proms and high throughput. Many users can't/don't rebasecall and running sup on-machine limited the # of flow cells that could be run. v6 hac model means that more flow cells can be run concurrently to provide Q23 data directly for clients to run with.

Hac 6.0.0 seems like a mixed bag to me compared to sup 5.2.0 based on github.com/Kirk3gaard/M... . Thanks for your hard work @kirk3gaard.bsky.social

Thought i'd highlight that the ONT London Calling tech talk is now up. Points of interest for the microbiome community: 1) Direct RNA multiplexing now available. Can now run 24 samples per flow cell, recover full-length transcripts with 8 base pair modifications... www.youtube.com/watch?v=CE69...

Jeremy Wang developed rammap, a minimap2 rewrite in Rust. It achieves comparable or better performance than minimap2 and produces identical output to minimap2. During rewrite, Jeremy found two long-existing bugs in minimap2 which are fixed in v2.31. www.biorxiv.org/content/10.6...

For many years you needed UMIs and similar dark molecular biology magic to get perfect amplicon sequences from @nanoporetech.com data. With recent accuracy improvements+really clever algorithms that is now changed. Savont unlocks ASVs from low coverage nanopore amplicon data 🤯🤯🤯

Abstract submissions for the T2T Face-to-Face conference are open through June 15th!  Join the community Sept. 3–4 in Santa Cruz, CA, for two days of discussion and collaboration around telomere-to-telomere genomics and pangenomics. Learn more: sites.google.com/ucsc.edu/t2t...

When you run out of slots on the P24 it is handy to have a bunch of P2 solos 🟩🟩🧬 @nanoporetech.com

New preprint from us! 🦠 Clinical metagenomics is great for sequencing pathogens directly from patient samples but for some protocols sensitivity for RNA viruses lags behind bacteria & fungi. We have shown why, and how to fix it. www.medrxiv.org/content/10.6...

On this day in 2015 a disruptive company handed out DNA sequencers in goodie bags 🤯🤯🤯. Next week @nanoporetech.com is hosting their yearly London Calling event. Bring back disruption 🧬🚀

The nvidia dgx spark is a cool box but you get more @nanoporetech.com basecalling for your money with one of the other options (github.com/Kirk3gaard/2...)

Ever wondered what microbes you could find in Denmark? Pupils from Danish schools collected soil samples across the country so you can now browse the microbes (cmc-aau.github.io/masseeksperi...).

Performance Test of the QNome Nanopore Sequencer https://www.biorxiv.org/content/10.64898/2026.04.29.721586v1

Similar situation in academia when the professors "win money" to the university 🤣

Full @nanoporetech.com deck Friday 🚀🧬🎉🟩🟩🟩

Anyone happen to have a dgx spark doing nothing? Benchmark it for @nanoporetech.com basecalling (github.com/Kirk3gaard/2...)

Why would @nanoporetech.com minknow produce fast5 files in 2026???

More do it at home @nanoporetech.com sequencing is being announced on X (x.com/SethSHowes/s...) A blog post by Seth Howes (iwantosequencemygenomeathome.com). Hope London Calling will feature a tinkerer session this year.

There's a reason why most undiscovered taxa come from soils, sediments, wetlands, etc: www.nature.com/articles/s41... The way I prefer to think about it is to put that money into long reads and get usable data.

A major milestone for biodiversity genomics: EBP-affiliated projects have now contributed over 6,000 genome assemblies toward the goal of sequencing all known eukaryotic life. 🧬 Thank you to all EBP-affiliated projects behind this work, from sampling and DNA extraction to sequencing and assembly.

Our ECE-host framework doesn't care which sequencing platform you use—it’s ready to go once you have mod calling results. The kicker is that we need scalable mod calling from metagenomics. If it doesn't scale, the ECE-host analysis can't happen.

Congratulations @wshuai.bsky.social and co-authors! We’re excited to introduce MODIFI, our new scalable method for detecting DNA modifications in PacBio metagenomic data and estimating ECE-host linkage. Check out the preprint: www.biorxiv.org/content/10.6...

videocardz.com/newz/hp-unve... wow, 4 Nvidia RTX Pro 6000 Blackwell GPU support. Future Oxford Nanopore attachment for the P48 sequence? @kirk3gaard.bsky.social

_720 Gbp_ marine nanopore metagenome -> 328 circular prokaryotic contigs: using myloasm! Insane work by Lui and Nielsen. Also shows how modern long read assemblies can disentangle coexisting strains and reveal ecological insights.

ElysION Fields omicsomics.blogspot.com/2026/03/elys... 🧬🖥️

Will 2026 be the year we finally see something new from @nanoporetech.com or are we stuck due to the clinical focus? Next generation ASIC chips would be the opportunity to align product lines. One flowcell to rule them all?

A new era for #ONT amplicon sequencing? We show that #ONT #amplicon sequencing now achieves accuracy sufficient for #ASV resolution using standard Illumina-based pipelines. We validated this by sequencing identical amplicons on #ONT and #PacBio. @nanoporetech.com www.biorxiv.org/content/10.6...

The sun brings out the green @nanoporetech.com 🟩🟩🟩🟩🟩🚀🧬 Happy Friday everyone.

It is absolutely outrageous that Moderna’s flu vaccine was met with a “refusal-to-file” even after their approved their protocol with FDA and carried out the trial as agreed. This vaccine works better in older adults than the current flu vaccines. apnews.com/article/mode...

Hey @bsky.app can we get a poll option?

claude: I have no idea why we now have more unmapped reads than before after adding in mismatch scoring me: did you reverse complement the genome sequence? claude: i'm a dumbass

New hifiasm-ONT assembly method delivers high-quality, cost-efficient near T2T assemblies using standard Oxford Nanopore Simplex reads, broadening access to comprehensive genome assemblies across research and clinical applications. https://bit.ly/4awzU15

I think Single-M was written with that use-case in mind. Haven't tested it personally so can't vouch for it, but likely worth a try. www.nature.com/articles/s41...

interesting nanopore sequencing experience. found this in the middle of my genome assembly. driven by a single read with a big homopolymer in the middle of it? pretty weird, something to look out for i guess (i wonder how many of these are in Genbank...)

With the P2S joining the long list of abandoned @nanoporetech.com products in favour of the expensive P2i it becomes clearer that the #anyone #anywhere vision is lost...

I’m now at the wastewater symposium! Come say hi if you’re here and talk about high accuracy #longread sequencing for #microbial, #microbiome, and #metagenomics. @pacbio.bsky.social

I am calling for a complete and total boycott of the Mercator projection in all news stories about Greenland until every member of the American public has seen this

Been doing a lot of @nanoporetech.com sequencing for soil and sediment lately and it appears that no matter how much DNA or how little we still get decent yields. So pretty robust performance. Yield clearly depends on pore count.

Anyone gotten their hands on something crazy? Nvidia B200 or B300?

📢 20 postdoctoral positions (full-time, 4 years) for outstanding female scientists 👩‍🔬 🔬 @univie.ac.at The E-STEEM programme call opens January 7th, 2026 and closes March 3rd, 2026. careers.univie.ac.at/en/postdoc/e... I participate as a host...

The @nanoporetech.com 🎅 forgot the wrapping paper 🎄🎁

One flowcell from @nanoporetech.com yielded 260 Gbp 🎉🚀🤯🟩

Imagine sequencing the DNA of an entire country. Many colleagues have worked for years to sequence the DNA of soil and sediment samples covering Denmark to characterise the Danish microbial diversity 🧬🚀🎉🤯

Metagenomics colleagues! I'm looking for studies where both Illumina and ONT sequencing were performed on the same samples from soil, human, ruminent, and other sample types for comparison. Bonus if those studies include PacBio data. Please help and share!

Revio is a great product - it dramatically increased throughput over Sequel II (3x more data per cell, 12x more data per fully loaded run) and dropped the cost substantially. It's been the most successful instrument launch for the company, and now PacBio sequencing is at an all time high.

Beating our previous record by a wide margin I asked myself "Are @nanoporetech.com flowcells getting better?" 🚀🟩🧬 Let's find out! I created a form where you can register your yields so we can get a better overview. github.com/Kirk3gaard/O...

Did not expect to see disk space become an issue but after a disk clean up and restart I ended up with 243 and 244 gbp for these two @nanoporetech.com flowcells 🎉🚀🧬 💚🟩💚🟩💚🟩

After a day with almost 30 participants in the lab for our hands on @nanoporetech.com metagenomics course it is a blessing to see 🟩🟩🟩🟩🟩🟩🟩🟩🟩