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inria-00327582v1  Communication dans un congrès
Matthias Gallé, Pierre Peterlongo, François Coste. In-place Update of Suffix Array while Recoding Words
Jan Holub and Jan }}}rek. Prague Stringology Conference 2008, Sep 2008, Prague, Czech Republic. pp.54--67, 2008
inria-00328129v1  Communication dans un congrès
Pierre Peterlongo, Nadia Pisanti, Frederique Boyer, Marie-France Sagot. Lossless Filter for Finding Long Multiple Approximate Repetitions Using a New Data Structure, the Bi-factor Array
String Processing and Information Retrieval, 12th International Conference, SPIRE 2005, Nov 2005, Buenos Aires, Argentina. 3772, pp.179-190, 2005, <10.1007/11575832>
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inria-00425373v1  Communication dans un congrès
Pierre Peterlongo, Jacques Nicolas, Dominique Lavenier, Raoul Vorc'H, Joël Querellou. c-GAMMA: Comparative Genome Analysis of Molecular Markers
LNCS. Pattern Recognition in Bioinformatics, Sep 2009, Sheffield, United Kingdom. SpringerLink, 5780/2009, pp.255-269, 2009, Pattern Recognition in Bioinformatics. <10.1007/978-3-642-04031-3_23>
inria-00425370v1  Chapitre d'ouvrage
Nadia Pisanti, Mathieu Giraud, Pierre Peterlongo. Filters and seeds approaches for fast homology searches in large datasets
Mourad Elloumi and Albert Y. Zomaya. Algorithms in computational molecular biology, John Wiley & sons, 2010
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inria-00178325v1  Communication dans un congrès
Pierre Peterlongo, Laurent Noé, Dominique Lavenier, Gilles Georges, Julien Jacques et al.  Protein similarity search with subset seeds on a dedicated reconfigurable hardware
Parallel Bio-Computing, Sep 2007, Gdansk,, Poland. 2007
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inria-00577218v1  Rapport
Pierre Peterlongo, Rayan Chikhi. Mapsembler, targeted assembly of larges genomes on a desktop computer
[Research Report] RR-7565, INRIA. 2011, pp.17
inria-00186352v1  Communication dans un congrès
François Coste, Pierre Peterlongo, Matthias Gallé. Mise à jour incrémentale de tableau des suffxes en cours de recodage
Algorithmique, combinatoire du texte et applications en bio-informatique, Sep 2007, Chessy, France. 2007
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inria-00353690v1  Rapport
Jacques Nicolas, Christine Rousseau, Anne Siegel, Pierre Peterlongo, François Coste et al.  Modeling local repeats on genomic sequences
[Research Report] RR-6802, INRIA. 2008, pp.43
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hal-00306572v1  Communication dans un congrès
Pierre Peterlongo, Julien Allali, Marie-France Sagot. The Gapped-Factor Tree
Prague Stringology Conference 2006, 2006, Czech Republic. pp.182--196, 2006
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inria-00514887v1  Communication dans un congrès
Pierre Peterlongo, Nicolas Schnel, Nadia Pisanti, Marie-France Sagot, Vincent Lacroix. Identifying SNPs without a reference genome by comparing raw reads
String Processing and Information Retrieval, Oct 2010, Los Cabos, Mexico. 2010, Lecture Notes in Computer Science
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hal-00654249v2  Rapport
Gustavo Akio Tominaga Sacomoto, J. Kielbassa, Pavlos Antoniou, Rayan Chikhi, Raluca Uricaru et al.  kisSplice, détection d'évènements d'épissages alternatifs dans les données RNA-seq
[Research Report] RR-7852, INRIA. 2011, pp.12
inria-00608208v1  Communication dans un congrès
Maria Federico, Pierre Peterlongo, Nadia Pisanti, Marie-France Sagot. Finding Long and Multiple Repeats with Edit Distance
The Prague Stringology Conference 2011, Aug 2011, Prague, Czech Republic. 2011
inria-00480001v1  Communication dans un congrès
Maria Federico, Pierre Peterlongo, Nadia Pisanti. An optimized filter for finding multiple repeats in DNA sequences
2010 ACS/IEEE International Conference on Computer Systems and Applications, May 2010, HAMMAMET, Tunisia. 2010
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hal-00784394v1  Article dans une revue
Nicolas Maillet, Claire Lemaitre, Rayan Chikhi, Dominique Lavenier, Pierre Peterlongo. Compareads: comparing huge metagenomic experiments
BMC Bioinformatics, BioMed Central, 2012, 13 (Suppl 19), pp.S10. <10.1186/1471-2105-13-S19-S10>
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hal-00784408v1  Article dans une revue
Pierre Peterlongo, Rayan Chikhi. Mapsembler, targeted and micro assembly of large NGS datasets on a desktop computer
BMC Bioinformatics, BioMed Central, 2012, 13 (1), pp.48. <10.1186/1471-2105-13-48>
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inria-00340510v1  Article dans une revue
Pierre Peterlongo, Laurent Noé, Dominique Lavenier, Van Hoa Nguyen, Gregory Kucherov et al.  Optimal neighborhood indexing for protein similarity search
BMC Bioinformatics, BioMed Central, 2008, 9 (534), <10.1186/1471-2105-9-534>
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hal-01080050v1  Communication dans un congrès
Nicolas Maillet, Guillaume Collet, Thomas Vannier, Dominique Lavenier, Pierre Peterlongo. COMMET: comparing and combining multiple metagenomic datasets
IEEE BIBM 2014, Nov 2014, Belfast, United Kingdom. 2014
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hal-00760332v1  Poster
Nicolas Maillet, Claire Lemaitre, Rayan Chikhi, Dominique Lavenier, Pierre Peterlongo. Compareads: comparing huge metagenomic experiments
13e édition des Journées Ouvertes en Biologie, Informatique et Mathématiques - JOBIM 2012, Jul 2012, Rennes, France. 2012
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hal-00711911v1  Communication dans un congrès
Guillaume Holley, Pierre Peterlongo. BlastGraph: intensive approximate pattern matching in string graphs and de-Bruijn graphs
PSC 2012, Aug 2012, Prague, Czech Republic. 2012
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hal-00720951v1  Communication dans un congrès
Nicolas Maillet, Claire Lemaitre, Rayan Chikhi, Dominique Lavenier, Pierre Peterlongo. Compareads: comparing huge metagenomic experiments
RECOMB Comparative Genomics 2012, Oct 2012, Niterói, Brazil. 2012
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hal-01088641v1  Poster
Erwan Drezen, Guillaume Rizk, Rayan Chikhi, Charles Deltel, Claire Lemaitre et al.  GATB: a software toolbox for genome assembly and analysis
Bio-IT World Conference, Apr 2014, Boston, United States
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hal-01088683v1  Poster
Erwan Drezen, Guillaume Rizk, Rayan Chikhi, Charles Deltel, Claire Lemaitre et al.  Speeding up NGS software development
Sequencing, Finishing and Analysis in the Future Meeting, May 2014, Santa Fé, United States
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hal-00784457v1  Article dans une revue
Pierre Peterlongo, Gustavo Sacomoto, Alair Do Lago, Nadia Pisanti, Marie-France Sagot. Lossless filter for multiple repeats with bounded edit distance
Algorithms for Molecular Biology, BioMed Central, 2009, 4 (1), pp.3. <10.1186/1748-7188-4-3>
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tel-01278275v1  HDR
Pierre Peterlongo. Lire les lectures : analyse de données de séquençage
Bio-informatique [q-bio.QM]. Université rennes1, 2016
hal-01192857v1  Poster
Antoine Limasset, Pierre Peterlongo. BGREAT: A De Bruijn graph read mapping tool
JOBIM 2015, Jul 2015, Clermont ferrant, France
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hal-01228488v1  Chapitre d'ouvrage
Jacques Nicolas, Pierre Peterlongo, Sébastien Tempel. Finding and Characterizing Repeats in Plant Genomes
David Edwards. Plant Bioinformatics: Methods and Protocols, Humana Press - Springer Science+Business Media, pp.365, 2015, Methods in Molecular Biology, 978-1-4939-3166-8. <10.1007/978-1-4939-3167-5_17>
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hal-01180603v1  Poster
Gaëtan Benoit, Pierre Peterlongo, Dominique Lavenier, Claire Lemaitre. Simka: fast kmer-based method for estimating the similarity between numerous metagenomic datasets
JOBIM 2015, Jul 2015, Clermont-Ferrand, France. <http://www6.inra.fr/jobim2015>. <10.1093/Bioinforma-cs/btu406>
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hal-01386744v1  Communication dans un congrès
Camille Marchet, Antoine Limasset, Lucie Bittner, Pierre Peterlongo. A resource-frugal probabilistic dictionary and applications in (meta)genomics
Prageu Stringology Conference , Aug 2016, Prague, Czech Republic. <http://www.stringology.org/event/>
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hal-01275696v1  Article dans une revue
Gilles Boutet, Susete Alves Carvalho, Matthieu Falque, Pierre Peterlongo, Emeline Lhuillier et al.  SNP discovery and genetic mapping using genotyping by sequencing of whole genome genomic DNA from a pea RIL population
BMC Genomics, BioMed Central, 2016, 17 (1), pp.121. <10.1186/s12864-016-2447-2>
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