Author
Centre National de la Recherche ScientifiqueORCID 0000-0002-7210-3178Unclaimed ORCID profile · follow to get notified of new preprints
7 papers
Recent·Most cited
Roland Faure, Adrita Hossain Nakshi, Md. Hasin Abrar…·Paul Medvedev
The paper introduces resources for large-scale metagenome comparison in the SRA, revealing trends in microbial discovery and improving assembly quality.
Jean Mainguy, Téo Lemane, Adelme Bazin…·David Vallenet
Precomputed PPanGGOLiN pangenomes for over 4,600 prokaryotic species (Genome Taxonomy Database clusters), with plasticity regions and modules, downloadable via web, API and command line for projection onto new genomes.
Alix Regnier, Téo Lemane, Sébastien Bellenous…·Pierre Peterlongo
The paper introduces kmcomp, a lossless compression method for k-mer matrices that enables fast random access, achieving significant storage savings with minimal query overhead.
Rayan Chikhi, Téo Lemane, Raphaël Loll‐Krippleber…·Artem Babaian
Assembling the Sequence Read Archive (27.3 million accessions) with over 100-fold compression enables minutes-scale k-mer search and mining of enzymes, plasmids, proteins and viral reactivation.
Téo Lemane, Nolan Lezzoche, Julien Lecubin…·Pierre Peterlongo
The paper introduces kmindex for fast indexing of complex genomic datasets and ORA for real-time querying of the Tara Oceans metagenomes.
Camila Duitama González, Riccardo Vicedomini, Téo Lemane…·Rayan Chikhi
decOM improves microbial source tracking in ancient oral metagenomes by using k-mer matrices, outperforming existing methods in accuracy.
Téo Lemane, Paul Medvedev, Rayan Chikhi, Pierre Peterlongo
kmtricks improves Bloom filter construction for large sequencing data by efficiently counting k-mers and preserving low-abundant ones, enhancing metagenomics analysis.