| Genome-scale algorithm design V Mäkinen, D Belazzougui, F Cunial, AI Tomescu Cambridge University Press, 2015 | 183 | 2015 |
| Composite repetition-aware data structures D Belazzougui, F Cunial, T Gagie, N Prezza, M Raffinot Combinatorial Pattern Matching: 26th Annual Symposium, CPM 2015, Ischia …, 2015 | 80 | 2015 |
| Versatile succinct representations of the bidirectional Burrows-Wheeler transform D Belazzougui, F Cunial, J Kärkkäinen, V Mäkinen European Symposium on Algorithms, 133-144, 2013 | 68 | 2013 |
| Linear-time string indexing and analysis in small space D Belazzougui, F Cunial, J Kärkkäinen, V Mäkinen ACM Transactions on Algorithms (TALG) 16 (2), 1-54, 2020 | 51 | 2020 |
| Cue: a deep-learning framework for structural variant discovery and genotyping V Popic, C Rohlicek, F Cunial, I Hajirasouliha, D Meleshko, K Garimella, ... Nature methods 20 (4), 559-568, 2023 | 36 | 2023 |
| Representing the suffix tree with the CDAWG D Belazzougui, F Cunial 28th Annual Symposium on Combinatorial Pattern Matching 78, 7:1--7:13, 2017 | 32 | 2017 |
| Fast label extraction in the CDAWG D Belazzougui, F Cunial International Symposium on String Processing and Information Retrieval, 161-175, 2017 | 28 | 2017 |
| Indexed matching statistics and shortest unique substrings D Belazzougui, F Cunial String Processing and Information Retrieval: 21st International Symposium …, 2014 | 22 | 2014 |
| Fully-functional bidirectional burrows-wheeler indexes and infinite-order de bruijn graphs D Belazzougui, F Cunial 30th Annual Symposium on Combinatorial Pattern Matching (CPM 2019), 10: 1-10: 15, 2019 | 19 | 2019 |
| LAF: logic alignment free and its application to bacterial genomes classification E Weitschek, F Cunial, G Felici BioData mining 8 (1), 39, 2015 | 18 | 2015 |
| A framework for space-efficient string kernels D Belazzougui, F Cunial Algorithmica 79 (3), 857-883, 2017 | 15 | 2017 |
| A framework for space-efficient variable-order Markov models F Cunial, J Alanko, D Belazzougui Bioinformatics 35 (22), 4607-4616, 2019 | 13* | 2019 |
| A framework for space-efficient read clustering in metagenomic samples J Alanko, F Cunial, D Belazzougui, V Mäkinen BMC Bioinformatics 18 (3), 59, 2017 | 12 | 2017 |
| Space-efficient detection of unusual words D Belazzougui, F Cunial International Symposium on String Processing and Information Retrieval, 222-233, 2015 | 11 | 2015 |
| Genome-scale algorithm design: bioinformatics in the era of high-throughput sequencing V Mäkinen, D Belazzougui, F Cunial, AI Tomescu Cambridge University Press, 2023 | 10 | 2023 |
| Fast matching statistics in small space D Belazzougui, F Cunial, O Denas 17th International Symposium on Experimental Algorithms (SEA 2018) 103, 2018 | 9 | 2018 |
| Flexible indexing of repetitive collections D Belazzougui, F Cunial, T Gagie, N Prezza, M Raffinot Unveiling Dynamics and Complexity: 13th Conference on Computability in …, 2017 | 9 | 2017 |
| Table compression by record intersections A Apostolico, F Cunial, V Kaul Data Compression Conference (dcc 2008), 13-22, 2008 | 8 | 2008 |
| A framework for space-efficient string kernels D Belazzougui, F Cunial Annual Symposium on Combinatorial Pattern Matching, 13-25, 2015 | 7 | 2015 |
| Fast and compact matching statistics analytics F Cunial, O Denas, D Belazzougui Bioinformatics 38 (7), 1838-1845, 2022 | 5 | 2022 |
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