Camille Marchet
Chargée de recherche epst
Publications
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"citationFull_s":"Clement Agret, Camille Marchet, Annie Chateau, Alban Mancheron, Antoine Limasset. Evaluating K-Mer Transformations for Cache Coherence and Uniformity. 2025. <a target=\"_blank\" href=\"https://hal-lirmm.ccsd.cnrs.fr/lirmm-04975743v1\">⟨lirmm-04975743⟩</a>",
"title_s":["Evaluating K-Mer Transformations for Cache Coherence and Uniformity"],
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"title_s":["Constrained enumeration of k -mers from a collection of references with metadata"],
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"citationFull_s":"Bastien Degardins, Margaux Mouton, Bruno Guillon, Charles Paperman, Camille Marchet. Vizitig: A visual tool for colored de Bruijn graphs exploration. 2024. <a target=\"_blank\" href=\"https://hal.science/hal-04735326v1\">⟨hal-04735326⟩</a>",
"title_s":["Vizitig: A visual tool for colored de Bruijn graphs exploration"],
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"citationFull_s":"Camille Marchet. Advancements in practical k-mer sets: essentials for the curious. 2024. <a target=\"_blank\" href=\"https://hal.science/hal-04689726v1\">⟨hal-04689726⟩</a>",
"title_s":["Advancements in practical k-mer sets: essentials for the curious"],
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"title_s":["Advancements in colored k-mer sets: essentials for the curious"],
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"title_s":["Cdbgtricks: Strategies to update a compacted de Bruijn graph"],
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"citationFull_s":"Igor Martayan, Bastien Cazaux, Antoine Limasset, Camille Marchet. Conway–Bromage–Lyndon (CBL): an exact, dynamic representation of k -mer sets. <i>Bioinformatics</i>, 2024, 40 (Supplement_1), pp.i48-i57. <a target=\"_blank\" href=\"https://dx.doi.org/10.1101/2024.01.29.577700\">⟨10.1101/2024.01.29.577700⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-04764426v1\">⟨hal-04764426⟩</a>",
"title_s":["Conway–Bromage–Lyndon (CBL): an exact, dynamic representation of k -mer sets"],
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"citationFull_s":"Kristoffer Sahlin, Thomas Baudeau, Bastien Cazaux, Camille Marchet. A survey of mapping algorithms in the long-reads era. <i>Genome Biology</i>, 2023, 24 (1), pp.133. <a target=\"_blank\" href=\"https://dx.doi.org/10.1186/s13059-023-02972-3\">⟨10.1186/s13059-023-02972-3⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-04279817v1\">⟨hal-04279817⟩</a>",
"title_s":["A survey of mapping algorithms in the long-reads era"],
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"citationFull_s":"Timothé Rouzé, Igor Martayan, Camille Marchet, Antoine Limasset. Fractional Hitting Sets for Efficient and Lightweight Genomic Data Sketching. <i>23rd International Workshop on Algorithms in Bioinformatics (WABI 2023</i>, Sep 2023, Houston, United States. <a target=\"_blank\" href=\"https://dx.doi.org/10.4230/LIPIcs.WABI.2023.15\">⟨10.4230/LIPIcs.WABI.2023.15⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-04279798v1\">⟨hal-04279798⟩</a>",
"title_s":["Fractional Hitting Sets for Efficient and Lightweight Genomic Data Sketching"],
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"citationFull_s":"Camille Marchet. Sneak peek at the -tig sequences: useful sequences built from nucleic acid data. 2022. <a target=\"_blank\" href=\"https://hal.science/hal-03768446v2\">⟨hal-03768446v2⟩</a>",
"title_s":["Sneak peek at the -tig sequences: useful sequences built from nucleic acid data"],
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"citationRef_s":"<i>Scientific Reports</i>, 2021, 11 (1), pp.1-13. <a target=\"_blank\" href=\"https://dx.doi.org/10.1038/s41598-020-80757-5\">⟨10.1038/s41598-020-80757-5⟩</a>",
"citationFull_s":"Pierre Morisse, Camille Marchet, Antoine Limasset, Thierry Lecroq, Arnaud Lefebvre. Scalable long read self-correction and assembly polishing with multiple sequence alignment. <i>Scientific Reports</i>, 2021, 11 (1), pp.1-13. <a target=\"_blank\" href=\"https://dx.doi.org/10.1038/s41598-020-80757-5\">⟨10.1038/s41598-020-80757-5⟩</a>. <a target=\"_blank\" href=\"https://cnrs.hal.science/hal-03210290v1\">⟨hal-03210290⟩</a>",
"title_s":["Scalable long read self-correction and assembly polishing with multiple sequence alignment"],
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"citationFull_s":"Camille Marchet, Yoann Dufresne, Antoine Limasset. Read correction for non-uniform coverages. 2021. <a target=\"_blank\" href=\"https://pasteur.hal.science/pasteur-03263392v1\">⟨pasteur-03263392⟩</a>",
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"citationRef_s":"<i>Genome Research</i>, 2021, 31 (1), pp.1-12. <a target=\"_blank\" href=\"https://dx.doi.org/10.1101/gr.260604.119\">⟨10.1101/gr.260604.119⟩</a>",
"citationFull_s":"Camille Marchet, Christina Boucher, Simon Puglisi, Paul Medvedev, Mikaël Salson, et al.. Data structures based on k -mers for querying large collections of sequencing data sets. <i>Genome Research</i>, 2021, 31 (1), pp.1-12. <a target=\"_blank\" href=\"https://dx.doi.org/10.1101/gr.260604.119\">⟨10.1101/gr.260604.119⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-03165261v1\">⟨hal-03165261⟩</a>",
"title_s":["Data structures based on k -mers for querying large collections of sequencing data sets"],
"authFullName_s":["Camille Marchet","Christina Boucher","Simon Puglisi","Paul Medvedev","Mikaël Salson","Rayan Chikhi"],
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"citationRef_s":"<i>Bioinformatics</i>, 2021, 37 (18), pp.2858-2865. <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/bioinformatics/btab217\">⟨10.1093/bioinformatics/btab217⟩</a>",
"citationFull_s":"Antoine Limasset, Camille Marchet, Mael Kerbiriou. BLight: efficient exact associative structure for k-mers. <i>Bioinformatics</i>, 2021, 37 (18), pp.2858-2865. <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/bioinformatics/btab217\">⟨10.1093/bioinformatics/btab217⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-03443183v1\">⟨hal-03443183⟩</a>",
"title_s":["BLight: efficient exact associative structure for k-mers"],
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"citationFull_s":"Camille Marchet, Zamin Iqbal, Daniel Gautheret, Mikaël Salson, Rayan Chikhi. REINDEER: efficient indexing of k-mer presence and abundance in sequencing datasets. <i>Bioinformatics</i>, 2020, 36 (Supplement_1), pp.i177-i185. <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/bioinformatics/btaa487\">⟨10.1093/bioinformatics/btaa487⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-03413006v1\">⟨hal-03413006⟩</a>",
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"citationRef_s":"<i>Discrete Applied Mathematics</i>, 2020, 92-102 (Volume 274), <a target=\"_blank\" href=\"https://dx.doi.org/10.1016/j.dam.2018.03.035\">⟨10.1016/j.dam.2018.03.035⟩</a>",
"citationFull_s":"Camille Marchet, Lolita Lecompte, Antoine Limasset, Lucie Bittner, Pierre Peterlongo. A resource-frugal probabilistic dictionary and applications in bioinformatics. <i>Discrete Applied Mathematics</i>, 2020, 92-102 (Volume 274), <a target=\"_blank\" href=\"https://dx.doi.org/10.1016/j.dam.2018.03.035\">⟨10.1016/j.dam.2018.03.035⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-01322440v1\">⟨hal-01322440⟩</a>",
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"citationFull_s":"Camille Marchet, Pierre Morisse, Lolita Lecompte, Arnaud Lefebvre, Thierry Lecroq, et al.. ELECTOR : evaluator for long reads correction methods. <i>NAR Genomics and Bioinformatics</i>, 2020, 2 (1), pp.1-12. <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/nargab/lqz015\">⟨10.1093/nargab/lqz015⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-02371117v1\">⟨hal-02371117⟩</a>",
"title_s":["ELECTOR : evaluator for long reads correction methods"],
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"citationFull_s":"Camille Marchet, Christina Boucher, Simon J Puglisi, Paul Medvedev, Mikaël Salson, et al.. Data structures based on k-mers for querying large collections of sequencing datasets. 2019. <a target=\"_blank\" href=\"https://hal.science/hal-02414162v1\">⟨hal-02414162⟩</a>",
"title_s":["Data structures based on k-mers for querying large collections of sequencing datasets"],
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"citationRef_s":"<i>Briefings in Bioinformatics</i>, 2019, pp.1-18. <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/bib/bbz058\">⟨10.1093/bib/bbz058⟩</a>",
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