| The GEM mapper: fast, accurate and versatile alignment by filtration S Marco-Sola, M Sammeth, R Guigó, P Ribeca Nature methods 9 (12), 1185-1188, 2012 | 602 | 2012 |
| Fast computation and applications of genome mappability T Derrien, J Estellé, S Marco Sola, DG Knowles, E Raineri, R Guigó, ... PloS one 7 (1), e30377, 2012 | 541 | 2012 |
| Fast gap-affine pairwise alignment using the wavefront algorithm S Marco-Sola, JC Moure, M Moreto, A Espinosa Bioinformatics 37 (4), 456-463, 2021 | 73 | 2021 |
| From wet‐lab to variations: concordance and speed of bioinformatics pipelines for whole genome and whole exome sequencing S Laurie, M Fernandez‐Callejo, S Marco‐Sola, JR Trotta, J Camps, ... Human mutation 37 (12), 1263-1271, 2016 | 55 | 2016 |
| Thread-cooperative, bit-parallel computation of levenshtein distance on GPU A Chacón, S Marco-Sola, A Espinosa, P Ribeca, JC Moure Proceedings of the 28th ACM international conference on Supercomputing, 103-112, 2014 | 41 | 2014 |
| A draft human pangenome reference WW Liao, M Asri, J Ebler, D Doerr, M Haukness, G Hickey, S Lu, JK Lucas, ... Nature 617 (7960), 312-324, 2023 | 36 | 2023 |
| gemBS: high throughput processing for DNA methylation data from bisulfite sequencing A Merkel, M Fernández-Callejo, E Casals, S Marco-Sola, R Schuyler, ... Bioinformatics 35 (5), 737-742, 2019 | 35 | 2019 |
| ChimPipe: accurate detection of fusion genes and transcription-induced chimeras from RNA-seq data B Rodríguez-Martín, E Palumbo, S Marco-Sola, T Griebel, P Ribeca, ... BMC genomics 18 (1), 1-17, 2017 | 35 | 2017 |
| Boosting the FM-index on the GPU: Effective techniques to mitigate random memory access A Chacón, S Marco-Sola, A Espinosa, P Ribeca, JC Moure IEEE/ACM transactions on computational biology and bioinformatics 12 (5 …, 2014 | 29 | 2014 |
| An FPGA accelerator of the wavefront algorithm for genomics pairwise alignment A Haghi, S Marco-Sola, L Alvarez, D Diamantopoulos, C Hagleitner, ... 2021 31st International Conference on Field-Programmable Logic and …, 2021 | 17 | 2021 |
| Optimal gap-affine alignment in O(s) space S Marco-Sola, JM Eizenga, A Guarracino, B Paten, E Garrison, M Moreto Bioinformatics 39 (2), btad074, 2023 | 16 | 2023 |
| The deephealth toolkit: a unified framework to boost biomedical applications M Cancilla, L Canalini, F Bolelli, S Allegretti, S Carrión, R Paredes, ... 2020 25th International Conference on Pattern Recognition (ICPR), 9881-9888, 2021 | 16 | 2021 |
| Efficient Alignment of Illumina‐Like High‐Throughput Sequencing Reads with the GEnomic Multi‐tool (GEM) Mapper S Marco‐Sola, P Ribeca Current Protocols in Bioinformatics 50 (1), 11.13. 1-11.13. 20, 2015 | 15 | 2015 |
| AnchorWave: Sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism, and whole-genome duplication B Song, S Marco-Sola, M Moreto, L Johnson, ES Buckler, MC Stitzer Proceedings of the National Academy of Sciences 119 (1), e2113075119, 2022 | 13 | 2022 |
| FM-index on GPU: A cooperative scheme to reduce memory footprint A Chacón, SM Sola, A Espinosa, P Ribeca, JC Moure 2014 IEEE International Symposium on Parallel and Distributed Processing …, 2014 | 13 | 2014 |
| Gaps and complex structurally variant loci in phased genome assemblies D Porubsky, MR Vollger, WT Harvey, AN Rozanski, P Ebert, G Hickey, ... Genome Research 33 (4), 496-510, 2023 | 6 | 2023 |
| FPGA acceleration of pre-alignment filters for short read mapping with HLS D Castells-Rufas, S Marco-Sola, JC Moure, Q Aguado, A Espinosa IEEE Access 10, 22079-22100, 2022 | 6 | 2022 |
| OpenCL-based FPGA accelerator for semi-global approximate string matching using diagonal bit-vectors D Castells-Rufas, S Marco-Sola, Q Aguado-Puig, A Espinosa-Morales, ... 2021 31st International Conference on Field-Programmable Logic and …, 2021 | 6 | 2021 |
| Accelerating edit-distance sequence alignment on GPU using the wavefront algorithm Q Aguado-Puig, S Marco-Sola, JC Moure, D Castells-Rufas, L Alvarez, ... IEEE access 10, 63782-63796, 2022 | 5 | 2022 |
| WFA-GPU: Gap-affine pairwise alignment using GPUs Q Aguado-Puig, M Doblas, C Matzoros, A Espinosa, JC Moure, ... bioRxiv, 2022.04. 18.488374, 2022 | 5 | 2022 |
Paolo RibecaBiomathematics and Statistics Scotland, UKVerified email at bioss.ac.uk
