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Rasmus Kirkegaard @kirk3gaard.bsky.social · 22/06/2026

I wonder if @nanoporetech.com will ever release the much faster native barcoding kit where the sequencing adapters simply have the barcodes included. Surely those 75 minutes extra could save a life one day (+ minimize DNA loss and lab frustrations)

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Ryan Wick @rrwick.bsky.social · 11/06/2026

New blog post! I analyse the new hac@v6.0.0 basecalling model from @nanoporetech.com and discuss the conspicuous lack of a new sup model: rrwick.github.io/2026/06/11/d...

rrwick.github.io

Dorado v2.0.0: no more sup?

a blog for miscellaneous bioinformatics stuff

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 08/06/2026

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...

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Oxford Nanopore @nanoporetech.com · 08/06/2026

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. bit.ly/4o369uU

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Steven Robbins @stevenjrobbins.bsky.social · 05/06/2026

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.

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Jean P. Elbers @jpelbers.bsky.social · 05/06/2026

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

github.com

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Steven Robbins @stevenjrobbins.bsky.social · 04/06/2026

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...

youtube.com

London Calling 2026 Technology update

YouTube video by Oxford Nanopore Technologies

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Heng Li @lh3lh3.bsky.social · 30/05/2026

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...

biorxiv.org

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 30/05/2026

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 🤯🤯🤯

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Human Pangenome Reference Consortium @humanpangenome.bsky.social · 26/05/2026

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...

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 22/05/2026

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

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Josh Quick @scalene.bsky.social · 22/05/2026

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...

medrxiv.org

Library preparation strategy critically impacts RNA virus sensitivity in clinical metagenomics

Clinical metagenomics uses sequencing for culture-independent identification of pathogens directly from clinical specimens. While a number of protocols claim to be pathogen agnostic, sensitivity for R...

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 15/05/2026

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 🧬🚀

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 11/05/2026

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...)

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 06/05/2026

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...).

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bioRxivpreprint @biorxivpreprint.bsky.social · 01/05/2026

Performance Test of the QNome Nanopore Sequencer www.biorxiv.org/content/10.64898/20…

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 01/05/2026

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

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 30/04/2026

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

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 23/04/2026

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

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 19/04/2026

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.

x.com

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Steven Robbins @stevenjrobbins.bsky.social · 14/04/2026

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.

nature.com

Unbinned contigs expand known diversity in the global microbiome - Nature Microbiology

Re-analysis of over 92,000 metagenomes reveals hundreds of thousands of previously undescribed Bacterial and Archaeal clades hidden in plain sight.

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Earth BioGenome Project 🌍 @ebpgenome.bsky.social · 13/04/2026

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.

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Shuai Wang @wshuai.bsky.social · 31/03/2026

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.

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The Banfield Lab @banfieldlab.bsky.social · 30/03/2026

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...

biorxiv.org

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Jim Shaw @jimshaw.bsky.social · 24/03/2026

_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.

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 20/03/2026

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?

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Morten Kam Dahl Dueholm @mkddueholm.bsky.social · 02/03/2026

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...

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 13/02/2026

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

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Edward Nirenberg @enirenberg.bsky.social · 11/02/2026

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...

apnews.com

Moderna says FDA refuses its application for new mRNA flu vaccine

The U.S. Food and Drug Administration is refusing to consider Moderna’s application for a new flu vaccine made with mRNA technology.

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James Ferguson @psy-fer.bsky.social · 07/02/2026

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

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Oxford Nanopore @nanoporetech.com · 05/02/2026

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. bit.ly/4awzU15

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Paul Orwin @paulmorwin.bsky.social · 21/01/2026

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...)

alignment of reads to reference genome. a poly-t region was created by a single read in the dataset.

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 19/01/2026

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...

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Jeremy Wilkinson @jewilki.bsky.social · 15/01/2026

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

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Joe Hanson @drjoehanson.bsky.social · 13/01/2026

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

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 13/01/2026

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.

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 08/01/2026

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

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Alex Loy @loyteam.bsky.social · 16/12/2025

📢 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...

careers.univie.ac.at

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 08/12/2025

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

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 03/12/2025

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 🧬🚀🎉🤯

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Steven Robbins @stevenjrobbins.bsky.social · 11/11/2025

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!

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Dan Portik @dportik.bsky.social · 05/11/2025

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.

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 05/11/2025

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...

github.com

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Rasmus Kirkegaard @kirk3gaard.bsky.social · 04/11/2025

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 🎉🚀🧬 💚🟩💚🟩💚🟩

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