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Page 1
Locality-preserving minimal perfect hashing of k-mers.
Pibiri GE, Shibuya Y, Limasset A. Pibiri GE, et al. Among authors: limasset a. Bioinformatics. 2023 Jun 30;39(Suppl 1):i534-i543. doi: 10.1093/bioinformatics/btad219. Bioinformatics. 2023. PMID: 37387137 Free PMC article.
Critical Assessment of Metagenome Interpretation: the second round of challenges.
Meyer F, Fritz A, Deng ZL, Koslicki D, Lesker TR, Gurevich A, Robertson G, Alser M, Antipov D, Beghini F, Bertrand D, Brito JJ, Brown CT, Buchmann J, Buluç A, Chen B, Chikhi R, Clausen PTLC, Cristian A, Dabrowski PW, Darling AE, Egan R, Eskin E, Georganas E, Goltsman E, Gray MA, Hansen LH, Hofmeyr S, Huang P, Irber L, Jia H, Jørgensen TS, Kieser SD, Klemetsen T, Kola A, Kolmogorov M, Korobeynikov A, Kwan J, LaPierre N, Lemaitre C, Li C, Limasset A, Malcher-Miranda F, Mangul S, Marcelino VR, Marchet C, Marijon P, Meleshko D, Mende DR, Milanese A, Nagarajan N, Nissen J, Nurk S, Oliker L, Paoli L, Peterlongo P, Piro VC, Porter JS, Rasmussen S, Rees ER, Reinert K, Renard B, Robertsen EM, Rosen GL, Ruscheweyh HJ, Sarwal V, Segata N, Seiler E, Shi L, Sun F, Sunagawa S, Sørensen SJ, Thomas A, Tong C, Trajkovski M, Tremblay J, Uritskiy G, Vicedomini R, Wang Z, Wang Z, Wang Z, Warren A, Willassen NP, Yelick K, You R, Zeller G, Zhao Z, Zhu S, Zhu J, Garrido-Oter R, Gastmeier P, Hacquard S, Häußler S, Khaledi A, Maechler F, Mesny F, Radutoiu S, Schulze-Lefert P, Smit N, Strowig T, Bremges A, Sczyrba A, McHardy AC. Meyer F, et al. Among authors: limasset a. Nat Methods. 2022 Apr;19(4):429-440. doi: 10.1038/s41592-022-01431-4. Epub 2022 Apr 8. Nat Methods. 2022. PMID: 35396482 Free PMC article.
BLight: efficient exact associative structure for k-mers.
Marchet C, Kerbiriou M, Limasset A. Marchet C, et al. Among authors: limasset a. Bioinformatics. 2021 Sep 29;37(18):2858-2865. doi: 10.1093/bioinformatics/btab217. Bioinformatics. 2021. PMID: 33821954
STRONG: metagenomics strain resolution on assembly graphs.
Quince C, Nurk S, Raguideau S, James R, Soyer OS, Summers JK, Limasset A, Eren AM, Chikhi R, Darling AE. Quince C, et al. Among authors: limasset a. Genome Biol. 2021 Jul 26;22(1):214. doi: 10.1186/s13059-021-02419-7. Genome Biol. 2021. PMID: 34311761 Free PMC article.
On the representation of de Bruijn graphs.
Chikhi R, Limasset A, Jackman S, Simpson JT, Medvedev P. Chikhi R, et al. Among authors: limasset a. J Comput Biol. 2015 May;22(5):336-52. doi: 10.1089/cmb.2014.0160. Epub 2015 Jan 28. J Comput Biol. 2015. PMID: 25629448
Read mapping on de Bruijn graphs.
Limasset A, Cazaux B, Rivals E, Peterlongo P. Limasset A, et al. BMC Bioinformatics. 2016 Jun 16;17(1):237. doi: 10.1186/s12859-016-1103-9. BMC Bioinformatics. 2016. PMID: 27306641 Free PMC article.
ELECTOR: evaluator for long reads correction methods.
Marchet C, Morisse P, Lecompte L, Lefebvre A, Lecroq T, Peterlongo P, Limasset A. Marchet C, et al. Among authors: limasset a. NAR Genom Bioinform. 2019 Nov 14;2(1):lqz015. doi: 10.1093/nargab/lqz015. eCollection 2020 Mar. NAR Genom Bioinform. 2019. PMID: 33575566 Free PMC article.
13 results