Kristoffer Sahlin
Associate Professor at the Department of Mathematics, Stockholm University, and a Scilifelab Fellow. Algorithms, Modeling, Transcriptomics, Genomics.
Hobby runner 5000m 18:48 | 10k 37:40 | HM 1:27:43 | M 3:39:06
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Strobealign v0.17.0 is out! github.com/ksahlin/stro...
- Reposted by Kristoffer Sahlin
[Not loaded yet] - Reposted by Kristoffer SahlinPreprint out for myloasm, our new nanopore / HiFi metagenome assembler! Nanopore's getting accurate, but 1. Can this lead to better metagenome assemblies? 2. How, algorithmically, to leverage them? with co-author Max Marin @mgmarin.bsky.social, supervised by Heng Li @lh3lh3.bsky.social 1 / N
- High-resolution metagenome assembly for modern long reads with myloasm biorxiv.org/content/10.1101/202…
- Reposted by Kristoffer SahlinCongratulations to Rayan Chiki, (Institut Pasteur) head of the “Sequence Bioinformatics” unit, for securing the ERC Proof of Concept 2025 for his project ENZYMINER! 👏 @rayan.chiki.bsky.social #Bioinformatics
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer SahlinDont miss any of our #LongTREC communications at #ISMBECCB2025. Download this flyer to make catching all the latest & hottest long-read transcriptomics research simple. @anaconesa.bsky.social
- Reposted by Kristoffer Sahlin@hitseq.bsky.social is kicking off with our first keynote @valboeva.bsky.social talking about "Learning variant effects on chromatin accessibility and 3D structure without matched Hi-C data". #ISMBECCB2025
- Reposted by Kristoffer Sahlin📽️ Next in the LongTREC Series: Mahmud Sami Aydin! Sami is a Doctoral Candidate at @stockholm-uni.bsky.social , working under the supervision of @ksahlin.bsky.social .In this video, Sami shares his research and his role in the broader LongTREC collaboration across Europe. #AlgorithmDevelopment
- Reposted by Kristoffer Sahlin[Not loaded yet]
- I worked with Thomas during a three months research visit during his PhD, and it resulted in a paper in NAR. I highly recommend him. doi.org/10.1093/nar/...
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- @alexanderjpetri.bsky.social's isONclust3 algorithm is now published doi.org/10.1093/bioi.... isONclust3 performs de novo clustering of long-read cDNA sequencing data. A key step in reference-free transcriptome analysis.
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- We are looking for an Associate professor in Mathematical statistics. Deadline to apply is June 1, 2025. More information: su.varbi.com/en/what:job/...
- Strobealign v0.16.0 has been released. It comes with both runtime and accuracy improvements. Full changelog here github.com/ksahlin/stro...
- We are hiring PhD students in Computational Mathematics and Mathematics at Stockholm University in various subjects: su.varbi.com/en/what:job/... Application deadline: April 22. (1/3)
- Reposted by Kristoffer SahlinWe are looking for PhD students! Fully funded studentships available to work on a range of topics, from small proteins to developing computational tools to study the global microbiome
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Strobealign v0.15.0 is released: (1) Allows more indexed contigs (2^32), (2) adds a mode --mcs which increase accuracy (paper on mcs www.biorxiv.org/content/10.1...). --mcs is still non-default in this release until we optimize it a bit more. Full changelog here github.com/ksahlin/stro...
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer SahlinI made a starter pack for algorithmic genomics. It's certainly incomplete, but already has a ton of awesome peeps. Let me know if you know people I should add (with a focus on algorithms and data structures in genomics) go.bsky.app/TRWCnZsat://did:plc:sd4lmmsnaowqg4cy3lbw7ctd/app.bsky.graph.starterpack/3lamgagy4qc2j
- Strobealign v0.12.0 is released and available on conda. It has (quantified) improvements related to metagenomic coverage-based applications, such as better uniformly distributed reads in the case of perfect repeats. See the full changelog here github.com/ksahlin/stro...
- Reposted by Kristoffer SahlinI'm recruiting PhD students for Oct 24 start at University of Bath. Fully funded for UK students only. If interested in developing data structures/algorithms for bacterial genomics, or exploring plasmid epidemiology, or ML/AI on bacterial/phage geno/pheno data, give me a call!
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- When “you’re on my list” has a different meaning. The list of alternative reviewer suggestions of course. 😈
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Reposted by Kristoffer Sahlin[Not loaded yet]
- Whaaat, no bookmarks feature 👀 where should I store all the papers I never read 😳
