I just had the innoca delivered. It seems good, and I haven't encountered any problems so far. I also noticed it has less USB ports than the Dell, which is not great. Its also not curved, and I now understand why curved is slightly preferable. But for me at least its the right choice, given the cost

good to know!

Thanks Rob. The biggest worry is the fact that its non-curved. At that size, people are saying its a problem.

I am shopping for the same thing! Do you knowing anything by the INNOCN option? Never heard of this brand, but its about 1 third of the price of the dell/LG options. Is it just crap or is it good enought?

Postdoktor i Beräkningsbiologi Matematiska institutionen består av cirka 120 forskare, lärare och administrativ personal och är organiserad i tre huvudsakliga avdelningar: Matematik, Matematisk statistik och Beräkningsmatematik

𝗣𝗼𝘀𝘁𝗱𝗼𝗰 𝗮𝗻𝗱 𝗣𝗵𝗗 𝗽𝗼𝘀𝗶𝘁𝗶𝗼𝗻𝘀 𝗶𝗻 𝗖𝗼𝗺𝗽𝘂𝘁𝗮𝘁𝗶𝗼𝗻𝗮𝗹 𝗚𝗲𝗻𝗼𝗺𝗶𝗰𝘀 / 𝗔𝗹𝗴𝗼𝗿𝗶𝘁𝗵𝗺𝗶𝗰 𝗕𝗶𝗼𝗶𝗻𝗳𝗼𝗿𝗺𝗮𝘁𝗶𝗰𝘀

I am currently recruiting for both:

🔹 Postdoc position
su.varbi.com/what:job/job...

🔹 PhD position
su.varbi.com/en/what:job/...

Please share with anyone who might be interested!

How would you design a *multithreaded*, *concurrent* & *dynamic* hash table if you are focused specifically on common k-mer workloads, where streaming query & insertion are common? Jamshed, Prashant and I explore this in kache-hash, a cache-friendly k-mer hash table!
www.biorxiv.org/content/10.6...

I feel it quite possible that those relying on AI from the very start may form a different skill set that will accelerate some software, but result in key regressions (without the expertise to address them) in other types. combine-lab.github.io/blog/2026/02... see the caveats section here…

CVs are broadly distributed across the department. Evaluations are kept to people on the hiring committee (though there is some flexibility around that). I don't know if there are any formal restrictions on the statements, but in practice they are typically shared with people who express interest

depends on the materials (letters are treated more confidentially than research statements than CVs)

At long last, my final PhD chapter is out: we developed a novel evolutionary simulator of bacterial pangenomes, Pansim, fitting it to data from >600K genomes using a likelihood-free framework, PopPUNK-mod, to explore neutral and adaptive pangenome dynamics www.biorxiv.org/content/10.6...

🚨UPCOMING DEADLINES🚨

RECOMB-CG: 13 February
RECOMB-RSG: 15 February
RECOMB-Privacy: 9 March
RECOMB-Seq: 12 March (abstract registration)
RECOMB-Arch: 12 March (abstract registration)
RECOMB-Genetics: 13 March

#RECOMB2026 #deadlines

There is still many Amish villages around where Penn State is. Local farmer markets often carry their produce. I think they speak some form of Germanic, IIRC.

But its not rare in the US that states used to speak the language of the colonizers (cali->spanish, louisiana->french)

Time for a thread on our Christmas preprint “Origin and evolution of acrocentric chromosomes in human and great apes”. I had so much fun with this project and paper. It will be hard to summarize in a thread, but I’ll try www.biorxiv.org/content/10.6... [1/21]

PREPRINT ALERT

I heard you craving for more combinatorics, here are some more for y'all !

ZOR filters: fast and smaller than fuse filters Probabilistic membership filters support fast approximate membership queries with a controlled false-positive probability $\varepsilon$ and are widely used across storage, analytics, networking, and b...

Preprint alert!
arxiv.org/abs/2602.03525
TLDR:
ZOR filters are STATIC filters with false positives.
-Almost memory optimal: <1% overhead over the theoretical lower bound (!!!)
-Fast queries: ~100 ns
-Construction cannot fail

A thread:

If you are an Israeli PhD student and are interested in a postdoc at Harvard Medical (my lab included!), I strongly recommend looking into the Kalaniyot fellowship program, providing 2-3 years of full support:
globalprograms.hms.harvard.edu/kalaniyot-hm...

The 12th edition of the 2-days workshop “Data Structures in Bioinformatics” (DSB) will take place in Venice (Italy) on February 18-19th, 2026: dsb-meeting.github.io/DSB2026/

This thread gives really interesting and relevant history!

Kraken 2 (K2) community: we are giving more attention to our new `k2` wrapper, and a NEW functionality since 2.17.0 is: you can build several component K2 indexes, e.g. each covering a different Refseq database, and then query them all at once...
github.com/DerrickWood/... 1/6

Preprint alert!

We introduce new ideas to revisit the notion of sampling with window guarantees, also known as minimizers.

A thread:

Interested in a post-doc in Israel? The deadline for the Azrieli International Postdoctoral Fellowship is November 19. The fellowship offers generous funding for postdocs to conduct research in any academic discipline at eligible Israeli institutions: azrielifoundation.org/fellows/inte...

Haonan Wu gives a talk on "A k-mer-based estimator of the substitution rate between repetitive sequences"
www.biorxiv.org/content/10.1...
This work tackles the issue of Mash which ignores repeats in the genome, providing better distance estimation #GI2025

Efficient and accurate search in petabase-scale sequence repositories - Nature MetaGraph enables scalable indexing of large sets of DNA, RNA or protein sequences using annotated de Bruijn graphs.

After years of research and continuous refinement, we’re thrilled to share that our paper on the MetaGraph framework — enabling Petabase-scale search across sequencing data — has been published today in Nature (www.nature.com/articles/s41...)

And it's posted! If you're interested and eligible, please consider applying through the UMD portal: umd.wd1.myworkdayjobs.com/en-US/UMCP/j....

If you're a PI working in algorithmic genomics (& you can recommend my lab to your top graduating students ;P), please let them know!

Burrows-Wheeler Indexing - YouTube Videos on : (a) the Burrows-Wheeler Transform (BWT), (b) the FM Index, which uses the BWT to construct a full-text index, (c) Wheeler graphs, (d) r-index, an...

I've added 7 videos to my Burrows-Wheeler indexing playlist (www.youtube.com/playlist?lis...), rounding out the r-index series and adding a 5-part series on the move structure. Now 27 videos in that playlist. I aim to add videos on prefix-free parsing, PBWT, Wheeler languages/automata in the future.

Sounds like someone is trying to solve a bidirected flow problem..

i've let the person in charge know

There seems to be a self-contradiction within the CFP, since it also says: "Submissions to peer-reviewed journals other than the partnering ones are also allowed.."

Alice: fast and haplotype-aware assembly of high-fidelity reads based on MSR sketching We introduce Mapping-friendly Sequence Reduction (MSR) sketches, a sketching method for high-fidelity (HiFi) long reads, and Alice, an assembler that operates directly on these sketches. MSR produces ...

Our preprint on our new metagenomic HiFi assembler Alice is out 🥳 Based on a *new sketching method* (🧵1/6)
👉 Preprint www.biorxiv.org/content/10.1...
👉 Github github.com/rolandfaure/...

Alice: fast and haplotype-aware assembly of high-fidelity reads based on MSR sketching www.biorxiv.org/content/10.1101/2025.09....