Blar i Fakultet for informasjonsteknologi og elektroteknikk (IE) på tidsskrift "Bioinformatics"

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    • Methplotlib: Analysis of modified nucleotides from nanopore sequencing 

      De Coster, Wouter; Stovner, Endre Bakken; Strazisar, Mojca (Journal article; Peer reviewed, 2020)
      Summary Modified nucleotides play a crucial role in gene expression regulation. Here, we describe methplotlib, a tool developed for the visualization of modified nucleotides detected from Oxford Nanopore Technologies ...

    • Modeling dependency structures in 450k DNA methylation data 

      Nustad, Haakon Egdetveit; Steinsland, Ingelin; Ollikainen, Miina; Cazaly, Emma; Kaprio, Jaakko; Benjamini, Yuval; Gervin, Kristina; Lyle, Robert (Peer reviewed; Journal article, 2022)
      Motivation DNA methylation has been shown to be spatially dependent across chromosomes. Previous studies have focused on the influence of genomic context on the dependency structure, while not considering differences ...

    • PyRanges: efficient comparison of genomic intervals in Python 

      Stovner, Endre Bakken; Sætrom, Pål (Journal article; Peer reviewed, 2019)
      Complex genomic analyses often use sequences of simple set operations like intersection, overlap and nearest on genomic intervals. These operations, coupled with some custom programming, allow a wide range of analyses to ...