Cuttlefish: fast, parallel and low-memory compaction of de Bruijn graphs from large-scale genome collections J Khan, R Patro Bioinformatics 37 (Supplement_1), i177-i186, 2021 | 34 | 2021 |
Scalable, ultra-fast, and low-memory construction of compacted de Bruijn graphs with Cuttlefish 2 J Khan, M Kokot, S Deorowicz, R Patro Genome biology 23 (1), 190, 2022 | 28 | 2022 |
Fulgor: a fast and compact k-mer index for large-scale matching and color queries J Fan, J Khan, NP Singh, GE Pibiri, R Patro Algorithms for Molecular Biology 19 (1), 3, 2024 | 19 | 2024 |
Spectrum preserving tilings enable sparse and modular reference indexing J Fan, J Khan, GE Pibiri, R Patro International Conference on Research in Computational Molecular Biology, 21-40, 2023 | 13 | 2023 |
An incrementally updatable and scalable system for large-scale sequence search using the Bentley–Saxe transformation F Almodaresi, J Khan, S Madaminov, M Ferdman, R Johnson, P Pandey, ... Bioinformatics 38 (12), 3155-3163, 2022 | 11* | 2022 |
Fast, parallel, and cache-friendly suffix array construction J Khan, T Rubel, E Molloy, L Dhulipala, R Patro Algorithms for Molecular Biology 19 (1), 16, 2024 | | 2024 |