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Accelerating Sequence Alignments Based on FM-Index Using the Intel KNL Processor.
Herruzo JM, Gonzalez-Navarro S, Ibanez-Marin P, Vinals-Yufera V, Alastruey-Benede J, Plata O. Herruzo JM, et al. Among authors: alastruey benede j. IEEE/ACM Trans Comput Biol Bioinform. 2020 Jul-Aug;17(4):1093-1104. doi: 10.1109/TCBB.2018.2884701. Epub 2018 Dec 6. IEEE/ACM Trans Comput Biol Bioinform. 2020. PMID: 30530369
Compressed Sparse FM-Index: Fast Sequence Alignment Using Large K-Steps.
Langarita R, Armejach A, Setoain J, Ibanez-Marin P, Alastruey-Benede J, Moreto M. Langarita R, et al. Among authors: alastruey benede j. IEEE/ACM Trans Comput Biol Bioinform. 2022 Jan-Feb;19(1):355-368. doi: 10.1109/TCBB.2020.3000253. Epub 2022 Feb 3. IEEE/ACM Trans Comput Biol Bioinform. 2022. PMID: 32750858
Porting and Optimizing BWA-MEM2 Using the Fujitsu A64FX Processor.
Langarita R, Armejach A, Ibanez P, Alastruey-Benede J, Moreto M. Langarita R, et al. Among authors: alastruey benede j. IEEE/ACM Trans Comput Biol Bioinform. 2023 Sep-Oct;20(5):3139-3153. doi: 10.1109/TCBB.2023.3264514. Epub 2023 Oct 9. IEEE/ACM Trans Comput Biol Bioinform. 2023. PMID: 37018085