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2024The Backpack Quotient Filter: a dynamic and space-efficient data structure for querying k -mers with abundance, iScience, 2024, pp.111435. ⟨10.1016/j.isci.2024.111435⟩.
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2023Comparing methods for constructing and representing human pangenome graphs, Genome Biology, 2023, 24 (1), pp.274. ⟨10.1186/s13059-023-03098-2⟩.
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2023BioConvert: a comprehensive format converter for life sciences, NAR Genomics and Bioinformatics, 2023, 5 (3), ⟨10.1093/nargab/lqad074⟩.
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2023Compression Algorithm for Colored de Bruijn Graphs, Leibniz International Proceedings in Informatics , 273 (17), Schloss Dagstuhl - Leibniz-Zentrum für Informatik, pp.1-14, 2023, 978-3-95977-294-5. ⟨10.4230/LIPIcs.WABI.2023.17⟩.
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2023Construction and representation of human pangenome graphs, 2023.
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2022The K-mer File Format: a standardized and compact disk representation of sets of k-mers, Bioinformatics, 2022, 38 (18), pp.4423-4425. ⟨10.1093/bioinformatics/btac528⟩.
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2020A Graph-Theoretic Barcode Ordering Model for Linked-Reads, WABI 2020 - 20th Workshop on Algorithms in Bioinformatics, Sep 2020, Pisa, Italy. pp.11 - 12, ⟨10.4230/LIPIcs.WABI.2020.11⟩.
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2020Norine: update of the nonribosomal peptide resource, Nucleic Acids Research, 2019, ⟨10.1093/nar/gkz1000⟩.
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2019SLIM: a flexible web application for the reproducible processing of environmental DNA metabarcoding data, BMC Bioinformatics, 2019, 20 (1), pp.88. ⟨10.1186/s12859-019-2663-2⟩.
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2018Supervised machine learning outperforms taxonomy-based environmental DNA metabarcoding applied to biomonitoring, Molecular Ecology Resources, 2018, 18 (6), pp.1381-1391. ⟨10.1111/1755-0998.12926⟩.
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2018MATAM: reconstruction of phylogenetic marker genes from short sequencing reads in metagenomes, Bioinformatics 2018 02;34(4):585-591.
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2016Norine: A powerful resource for novel nonribosomal peptide discovery, Synth Syst Biotechnol 2016 Jun;1(2):89-94.
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2015Smiles2Monomers: a link between chemical and biological structures for polymers, J Cheminform 2015;7:62.
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2015Norine, the knowledgebase dedicated to non-ribosomal peptides, is now open to crowdsourcing, Nucleic Acids Res. 2016 Jan;44(D1):D1113-8.