Improved gap size estimation for scaffolding algorithms
Kristoffer Sahlin†, Nathaniel Street, Joakim Lundeberg, and Lars Arvestad. (2014). "Improved gap size estimation for scaffolding algorithms." Bioinformatics. 28(17):2215–2222.
CV
See my full CV here.
Education
- B.S. in Mathematics, Stockholm University, 2008
- M.S. in Mathematical Statistics, Stockholm University, 2010
- Ph.D in Computer Science, KTH Royal Institute of Technology, 2015
Publications
BESST- Efficient scaffolding of large fragmented assemblies
Kristoffer Sahlin†, Francesco Vezzi, Björn. Nystedt, Joakim Lundeberg, and Lars Arvestad. (2014). "BESST- Efficient scaffolding of large fragmented assemblies." BMC Bioinformatics. 15(1):281.
Assembly scaffolding with PE-contaminated mate-pair libraries
Kristoffer Sahlin†, Rayan Chikhi, and Lars Arvestad. (2016). "Assembly scaffolding with pe-contaminatedmate-pair libraries." Bioinformatics. 32(13):1925–1932.
Structural Variation Detection with Read Pair Information: An Improved Null-Hypothesis Reduces Bias
Kristoffer Sahlin†, Mattias Frånberg, and Lars Arvestad. (20157). "Structural Variation Detection with Read Pair Information: An Improved Null-Hypothesis Reduces Bias." Journal of Computational Biology. 24(6):581–589.
Deciphering highly similar multigene family transcripts from Iso-Seq data with IsoCon
Kristoffer Sahlin*, Marta Tomaszkiewicz*, Kateryna D. Makova†, Paul Medvedev†. (2018). "Deciphering highly similar multigene family transcripts from iso-seq data with isocon." Nature Communications. 9(1):4601.
De Novo Clustering of Long-Read Transcriptome Data Using a Greedy, Quality-Value Based Algorithm
Kristoffer Sahlin, Paul Medvedev (2019). "De Novo Clustering of Long-Read Transcriptome Data Using a Greedy, Quality-Value Based Algorithm." Journal of Computational Biology. 2020 27:4, 472-484.
Error correction enables use of Oxford Nanopore technology for reference-free transcriptome analysis
Kristoffer Sahlin, Paul Medvedev (2019). "Error correction enables use of Oxford Nanopore technology for reference-free transcriptome analysis." Nat Commun.. 12, 2 (2021).