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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: rossi m. 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.
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: rossi m. 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. 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. 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.
PFP Compressed Suffix Trees.
Boucher C, Cvacho O, Gagie T, Holub J, Manzini G, Navarro G, Rossi M. Boucher C, et al. Among authors: rossi m. Proc Worksh Algorithm Eng Exp. 2021;2021:60-72. doi: 10.1137/1.9781611976472.5. Proc Worksh Algorithm Eng Exp. 2021. PMID: 35355938 Free PMC article.
Efficient taxa identification using a pangenome index.
Ahmed O, Rossi M, Boucher C, Langmead B. Ahmed O, et al. Among authors: rossi m. 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.
Finding Overlapping Rmaps via Clustering.
Mukherjee K, Dole-Muinos D, Ajayi A, Rossi M, Prosperi M, Boucher C. Mukherjee K, et al. Among authors: rossi m. IEEE/ACM Trans Comput Biol Bioinform. 2021 Dec 10;PP. doi: 10.1109/TCBB.2021.3132534. Online ahead of print. IEEE/ACM Trans Comput Biol Bioinform. 2021. PMID: 34890332
6,240 results