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PHONI: Streamed Matching Statistics with Multi-Genome References.
Boucher C, Gagie T, Tomohiro I, Köppl D, Langmead B, Manzini G, Navarro G, Pacheco A, Rossi M. Boucher C, et al. Among authors: langmead b. Proc Data Compress Conf. 2021 Mar;2021:193-202. doi: 10.1109/dcc50243.2021.00027. Epub 2021 May 10. Proc Data Compress Conf. 2021. PMID: 34778549 Free PMC article.
Prefix-free parsing for building big BWTs.
Boucher C, Gagie T, Kuhnle A, Langmead B, Manzini G, Mun T. Boucher C, et al. Among authors: langmead b. Algorithms Mol Biol. 2019 May 24;14:13. doi: 10.1186/s13015-019-0148-5. eCollection 2019. Algorithms Mol Biol. 2019. PMID: 31149025 Free PMC article.
Matching Reads to Many Genomes with the r-Index.
Mun T, Kuhnle A, Boucher C, Gagie T, Langmead B, Manzini G. Mun T, et al. Among authors: langmead b. J Comput Biol. 2020 Apr;27(4):514-518. doi: 10.1089/cmb.2019.0316. Epub 2020 Mar 16. J Comput Biol. 2020. PMID: 32181686 Free PMC article.
Pan-genomic matching statistics for targeted nanopore sequencing.
Ahmed O, Rossi M, Kovaka S, Schatz MC, Gagie T, Boucher C, Langmead B. Ahmed O, et al. Among authors: langmead b. iScience. 2021 Jun 8;24(6):102696. doi: 10.1016/j.isci.2021.102696. eCollection 2021 Jun 25. iScience. 2021. PMID: 34195571 Free PMC article.
MONI: A Pangenomic Index for Finding Maximal Exact Matches.
Rossi M, Oliva M, Langmead B, Gagie T, Boucher C. Rossi M, et al. Among authors: langmead b. J Comput Biol. 2022 Feb;29(2):169-187. doi: 10.1089/cmb.2021.0290. Epub 2022 Jan 17. J Comput Biol. 2022. PMID: 35041495 Free PMC article.
Finding Maximal Exact Matches Using the r-Index.
Rossi M, Oliva M, Bonizzoni P, Langmead B, Gagie T, Boucher C. Rossi M, et al. Among authors: langmead b. J Comput Biol. 2022 Feb;29(2):188-194. doi: 10.1089/cmb.2021.0445. Epub 2022 Jan 17. J Comput Biol. 2022. PMID: 35041518 Free PMC article.
Efficient taxa identification using a pangenome index.
Ahmed O, Rossi M, Boucher C, Langmead B. Ahmed O, et al. Among authors: langmead b. Genome Res. 2023 Jul;33(7):1069-1077. doi: 10.1101/gr.277642.123. Epub 2023 May 31. Genome Res. 2023. PMID: 37258301 Free PMC article.
Movi: a fast and cache-efficient full-text pangenome index.
Zakeri M, Brown NK, Ahmed OY, Gagie T, Langmead B. Zakeri M, et al. Among authors: langmead b. bioRxiv [Preprint]. 2024 Feb 15:2023.11.04.565615. doi: 10.1101/2023.11.04.565615. bioRxiv. 2024. PMID: 37961660 Free PMC article. Preprint.
97 results