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| Showing results 1-9 of 9 |
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2023
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| 1. | Kanduri, Chakravarthi; Scheffer, Lonneke; Pavlović, Milena; Rand, Knut Dagestad; Chernigovskaia, Maria; Pirvandy, Oz; Yaari, Gur; Greiff, Victor; Sandve, Geir Kjetil Ferkingstad. simAIRR: simulation of adaptive immune repertoires with realistic receptor sequence sharing for benchmarking of immune state prediction methods. GigaScience 2023 ;Volume 12. p. 1-16 UiO OUS |
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2022
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| 2. | Grytten, Ivar; Rand, Knut Dagestad; Sandve, Geir Kjetil Ferkingstad. KAGE: fast alignment-free graph-based genotyping of SNPs and short indels. Genome Biology 2022 ;Volume 23.(1) UiO |
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2021
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| 3. | Balaban, Gabriel; Grytten, Ivar; Rand, Knut Dagestad; Scheffer, Lonneke; Sandve, Geir Kjetil. Ten simple rules for quick and dirty scientific programming. PLoS Computational Biology 2021 ;Volume 17:e1008549.(3) p. 1-15 UiO OUS |
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| 4. | Pavlović, Milena; Scheffer, Lonneke; Motwani, Keshav; Kanduri, Chakravarthi; Kompova, Radmila; Vazov, Nikolay Aleksandrov; Waagan, Knut; Bernal, Fabian Leonardo Martinez; Costa, Alexandre Almeida; Corrie, Brian; Akbar, Rahmad; Al Hajj, Ghadi S.; Balaban, Gabriel; Brusko, Todd M.; Chernigovskaia, Mariia; Christley, Scott; Cowell, Lindsay G.; Frank, Robert; Grytten, Ivar; Gundersen, Sveinung; Haff, Ingrid Hobæk; Hovig, Eivind; Hsieh, Ping-Han; Klambauer, Günter; Kuijjer, Marieke L.; Lund-Andersen, Christin; Martini, Antonio; Minotto, Thomas; Pensar, Johan; Rand, Knut Dagestad; Riccardi, Enrico; Robert, Philippe Paul Auguste; Rocha, Artur; Slabodkin, Andrei; Snapkov, Igor; Sollid, Ludvig Magne; Titov, Dmytro; Weber, Cédric R.; Widrich, Michael; Yaari, Gur; Greiff, Victor; Sandve, Geir Kjetil Ferkingstad. The immuneML ecosystem for machine learning analysis of adaptive immune receptor repertoires. Nature Machine Intelligence 2021 ;Volume 3.(11) p. 936-944 OUS UiO |
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2020
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| 5. | Grytten, Ivar; Rand, Knut Dagestad; Nederbragt, Alexander Johan; Sandve, Geir Kjetil. Assessing graph-based read mappers against a baseline approach highlights strengths and weaknesses of current methods. BMC Genomics 2020 ;Volume 21. UiO |
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2019
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| 6. | Grytten, Ivar; Rand, Knut Dagestad; Nederbragt, Alexander Johan; Storvik, Geir Olve; Glad, Ingrid Kristine; Sandve, Geir Kjetil. Graph Peak Caller: Calling ChIP-seq peaks on graph-based reference genomes. PLoS Computational Biology 2019 ;Volume 15.(2) p. 1-13 UiO |
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| 7. | Salvatore, Stefania; Rand, Knut Dagestad; Grytten, Ivar; Ferkingstad, Egil; Domanska, Diana; Holden, Lars; Gheorghe, Marius; Mathelier, Anthony; Glad, Ingrid Kristine; Sandve, Geir Kjetil. Beware the Jaccard: the choice of similarity measure is important and non-trivial in genomic colocalisation analysis. Briefings in Bioinformatics 2019 p. 1-8 NR UiO OUS |
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2017
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| 8. | Rand, Knut Dagestad; Grytten, Ivar; Nederbragt, Alexander Johan; Storvik, Geir Olve; Glad, Ingrid Kristine; Sandve, Geir Kjetil. Coordinates and intervals in graph-based reference genomes. BMC Bioinformatics 2017 ;Volume 18:263. p. 1-8 UiO |
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| 9. | Simovski, Boris; Vodak, Daniel; Gundersen, Sveinung; Domanska, Diana Ewa; Azab, Abdulrahman; Holden, Lars; Holden, Marit; Grytten, Ivar; Rand, Knut Dagestad; Drabløs, Finn; Johansen, Morten; Mora Ortiz, Antonio Carlos; Lund-Andersen, Christin; Fromm, Bastian; Eskeland, Ragnhild; Gabrielsen, Odd Stokke; Ferkingstad, Egil; Nakken, Sigve; Bengtsen, Mads; Nederbragt, Alexander Johan; Thorarensen, Hildur Sif; Akse, Johannes Andreas; Glad, Ingrid Kristine; Hovig, Johannes Eivind; Sandve, Geir Kjetil. GSuite HyperBrowser: integrative analysis of dataset collections across the genome and epigenome. GigaScience 2017 ;Volume 6.(7) Suppl. https://academic.oup p. 1-12 NTNU UiO OUS NR |
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