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Succinct colored de Bruijn graphs.
Muggli MD, Bowe A, Noyes NR, Morley PS, Belk KE, Raymond R, Gagie T, Puglisi SJ, Boucher C. Muggli MD, et al. Among authors: boucher c. Bioinformatics. 2017 Oct 15;33(20):3181-3187. doi: 10.1093/bioinformatics/btx067. Bioinformatics. 2017. PMID: 28200001 Free PMC article.
Practical dynamic de Bruijn graphs.
Crawford VG, Kuhnle A, Boucher C, Chikhi R, Gagie T. Crawford VG, et al. Among authors: boucher c. Bioinformatics. 2018 Dec 15;34(24):4189-4195. doi: 10.1093/bioinformatics/bty500. Bioinformatics. 2018. PMID: 29939217
Aligning optical maps to de Bruijn graphs.
Mukherjee K, Alipanahi B, Kahveci T, Salmela L, Boucher C. Mukherjee K, et al. Among authors: boucher c. Bioinformatics. 2019 Sep 15;35(18):3250-3256. doi: 10.1093/bioinformatics/btz069. Bioinformatics. 2019. PMID: 30698651
Prefix-free parsing for building big BWTs.
Boucher C, Gagie T, Kuhnle A, Langmead B, Manzini G, Mun T. Boucher C, et al. 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.
Metagenome SNP calling via read-colored de Bruijn graphs.
Alipanahi B, Muggli MD, Jundi M, Noyes NR, Boucher C. Alipanahi B, et al. Among authors: boucher c. Bioinformatics. 2021 Apr 1;36(22-23):5275-5281. doi: 10.1093/bioinformatics/btaa081. Bioinformatics. 2021. PMID: 32049324 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: boucher c. 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.
Portable nanopore analytics: are we there yet?
Oliva M, Milicchio F, King K, Benson G, Boucher C, Prosperi M. Oliva M, et al. Among authors: boucher c. Bioinformatics. 2020 Aug 15;36(16):4399-4405. doi: 10.1093/bioinformatics/btaa237. Bioinformatics. 2020. PMID: 32277811 Free PMC article.
841 results