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Fast gap-affine pairwise alignment using the wavefront algorithm.
Marco-Sola S, Moure JC, Moreto M, Espinosa A. Marco-Sola S, et al. Among authors: moreto m. Bioinformatics. 2021 May 1;37(4):456-463. doi: 10.1093/bioinformatics/btaa777. Bioinformatics. 2021. PMID: 32915952 Free PMC article.
Optimal gap-affine alignment in O(s) space.
Marco-Sola S, Eizenga JM, Guarracino A, Paten B, Garrison E, Moreto M. Marco-Sola S, et al. Among authors: moreto m. Bioinformatics. 2023 Feb 3;39(2):btad074. doi: 10.1093/bioinformatics/btad074. Bioinformatics. 2023. PMID: 36749013 Free PMC article.
WFA-GPU: gap-affine pairwise read-alignment using GPUs.
Aguado-Puig Q, Doblas M, Matzoros C, Espinosa A, Moure JC, Marco-Sola S, Moreto M. Aguado-Puig Q, et al. Among authors: moreto m. Bioinformatics. 2023 Dec 1;39(12):btad701. doi: 10.1093/bioinformatics/btad701. Bioinformatics. 2023. PMID: 37975878 Free PMC article.
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: moreto m. 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: moreto m. 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
122 results