Pierre Peterlongo

53 papers B 2C 9Misc 8Journal 29Unranked 3
YearRankTypeTitle / Venue / Authors
2024 J jnl
Back to sequences: Find the origin of k-mers.
J. Open Source Softw.
Anthony Baire, Pierre Marijon, Francesco Andreace, Pierre Peterlongo
2024 Misc conf
Cdbgtricks: Strategies to update a compacted de Bruijn graph.
PSC
Khodor Hannoush, Camille Marchet, Pierre Peterlongo
2024 J jnl
Indexing and real-time user-friendly queries in terabyte-sized complex genomic datasets with kmindex and ORA.
Nat. Comput. Sci.
Téo Lemane, Nolan Lezzoche, Julien Lecubin, Eric Pelletier, Magali Lescot, Rayan Chikhi, Pierre Peterlongo
2022 J jnl
<tt>k</tt> <tt>mdiff</tt>, large-scale and user-friendly differential
Bioinform.
Téo Lemane, Rayan Chikhi, Pierre Peterlongo
2022 C conf
Pattern Matching Under DTW Distance.
SPIRE
Garance Gourdel, Anne Driemel, Pierre Peterlongo, Tatiana Starikovskaya
2022 J jnl
Pattern matching under DTW distance.
CoRR
Garance Gourdel, Anne Driemel, Pierre Peterlongo, Tatiana Starikovskaya
2022 J jnl
The K-mer File Format: a standardized and compact disk representation of sets of
Bioinform.
Yoann Dufresne, Téo Lemane, Pierre Marijon, Pierre Peterlongo, Amatur Rahman, Marek Kokot, Paul Medvedev, Sebastian Deorowicz, Rayan Chikhi
2021 B conf
Approximate Hashing for Bioinformatics.
DCC
Guy Arbitman, Shmuel T. Klein, Pierre Peterlongo, Dana Shapira
2021 C conf
Approximate Hashing for Bioinformatics.
CIAA
Guy Arbitman, Shmuel T. Klein, Pierre Peterlongo, Dana Shapira
2021 C conf
findere: Fast and Precise Approximate Membership Query.
SPIRE
Lucas Robidou, Pierre Peterlongo
2020 J jnl
A resource-frugal probabilistic dictionary and applications in bioinformatics.
Discret. Appl. Math.
Camille Marchet, Lolita Lecompte, Antoine Limasset, Lucie Bittner, Pierre Peterlongo
2020 J jnl
Finding all maximal perfect haplotype blocks in linear time.
Algorithms Mol. Biol.
Jarno Alanko, Hideo Bannai, Bastien Cazaux, Pierre Peterlongo, Jens Stoye
2020 J jnl
SVJedi: genotyping structural variations with long reads.
Bioinform.
Lolita Lecompte, Pierre Peterlongo, Dominique Lavenier, Claire Lemaitre
2020 J jnl
SimkaMin: fast and resource frugal de novo comparative metagenomics.
Bioinform.
Gaëtan Benoit, Mahendra Mariadassou, Stéphane Robin, Sophie Schbath, Pierre Peterlongo, Claire Lemaitre
2020 J jnl
Toward perfect reads: self-correction of short reads via mapping on de Bruijn graphs.
Bioinform.
Antoine Limasset, Jean-François Flot, Pierre Peterlongo
2020 J jnl
Toward perfect reads: self-correction of short reads via mapping on de Bruijn graphs.
Bioinform.
Antoine Limasset, Jean-François Flot, Pierre Peterlongo
2019 C conf
Finding All Maximal Perfect Haplotype Blocks in Linear Time.
WABI
Jarno Alanko, Hideo Bannai, Bastien Cazaux, Pierre Peterlongo, Jens Stoye
2017 J jnl
A resource-frugal probabilistic dictionary and applications in bioinformatics.
CoRR
Camille Marchet, Lolita Lecompte, Antoine Limasset, Lucie Bittner, Pierre Peterlongo
2017 B conf
Fast and Scalable Minimal Perfect Hashing for Massive Key Sets.
SEA
Antoine Limasset, Guillaume Rizk, Rayan Chikhi, Pierre Peterlongo
2017 J jnl
Fast and scalable minimal perfect hashing for massive key sets.
CoRR
Antoine Limasset, Guillaume Rizk, Rayan Chikhi, Pierre Peterlongo
2017 J jnl
Toward perfect reads.
CoRR
Antoine Limasset, Jean-François Flot, Pierre Peterlongo
2016 Misc conf
A Resource-frugal Probabilistic Dictionary and Applications in (Meta)Genomics.
PSC
Camille Marchet, Antoine Limasset, Lucie Bittner, Pierre Peterlongo
2016 J jnl
A resource-frugal probabilistic dictionary and applications in (meta)genomics.
CoRR
Camille Marchet, Antoine Limasset, Lucie Bittner, Pierre Peterlongo
2016 — book
Lire les lectures: analyse de données de séquençage.
Pierre Peterlongo
2016 J jnl
Multiple comparative metagenomics using multiset
PeerJ Comput. Sci.
Gaëtan Benoit, Pierre Peterlongo, Mahendra Mariadassou, Erwan Drezen, Sophie Schbath, Dominique Lavenier, Claire Lemaitre
2016 J jnl
Read mapping on de Bruijn graphs.
BMC Bioinform.
Antoine Limasset, Bastien Cazaux, Eric Rivals, Pierre Peterlongo
2015 J jnl
Read Mapping on de Bruijn graph.
CoRR
Antoine Limasset, Pierre Peterlongo
2014 — conf
Commet: Comparing and combining multiple metagenomic datasets.
BIBM
Nicolas Maillet, Guillaume Collet, Thomas Vannier, Dominique Lavenier, Pierre Peterlongo
2014 J jnl
GATB: Genome Assembly & Analysis Tool Box.
Bioinform.
Erwan Drezen, Guillaume Rizk, Rayan Chikhi, Charles Deltel, Claire Lemaitre, Pierre Peterlongo, Dominique Lavenier
2014 — conf
Mapping-Free and Assembly-Free Discovery of Inversion Breakpoints from Raw NGS Reads.
AlCoB
Claire Lemaitre, Liviu Ciortuz, Pierre Peterlongo
2014 J jnl
Rime: Repeat identification.
Discret. Appl. Math.
Maria Federico, Pierre Peterlongo, Nadia Pisanti, Marie-France Sagot
2012 Misc conf
BlastGraph: Intensive Approximate Pattern Matching in Sequence Graphs and de-Bruijn Graphs.
PSC
Guillaume Holley, Pierre Peterlongo
2012 J jnl
Compareads: comparing huge metagenomic experiments.
BMC Bioinform.
Nicolas Maillet, Claire Lemaitre, Rayan Chikhi, Dominique Lavenier, Pierre Peterlongo
2012 J jnl
KISSPLICE: de-novo calling alternative splicing events from RNA-seq data.
BMC Bioinform.
Gustavo Akio Tominaga Sacomoto, Janice Kielbassa, Rayan Chikhi, Raluca Uricaru, Pavlos Antoniou, Marie-France Sagot, Pierre Peterlongo, Vincent Lacroix
2012 J jnl
Mapsembler, targeted and micro assembly of large NGS datasets on a desktop computer.
BMC Bioinform.
Pierre Peterlongo, Rayan Chikhi
2011 Misc conf
Finding Long and Multiple Repeats with Edit Distance.
PSC
Maria Federico, Pierre Peterlongo, Nadia Pisanti, Marie-France Sagot
2010 C conf
An optimized filter for finding multiple repeats in DNA sequences.
AICCSA
Maria Federico, Pierre Peterlongo, Nadia Pisanti
2010 C conf
Identifying SNPs without a Reference Genome by Comparing Raw Reads.
SPIRE
Pierre Peterlongo, Nicolas Schnel, Nadia Pisanti, Marie-France Sagot, Vincent Lacroix
2009 J jnl
In-Place Update of Suffix Array while Recoding Words.
Int. J. Found. Comput. Sci.
Matthias Gallé, Pierre Peterlongo, François Coste
2009 J jnl
Lossless filter for multiple repeats with bounded edit distance.
Algorithms Mol. Biol.
Pierre Peterlongo, Gustavo Akio Tominaga Sacomoto, Alair Pereira do Lago, Nadia Pisanti, Marie-France Sagot
2009 — conf
c-GAMMA: Comparative Genome Analysis of Molecular Markers.
PRIB
Pierre Peterlongo, Jacques Nicolas, Dominique Lavenier, Raoul Vorc'h, Joël Querellou
2008 Misc conf
In-place Update of Suffix Array while Recoding Words.
PSC
Matthias Gallé, Pierre Peterlongo, François Coste
2008 J jnl
Indexing Gapped-Factors Using a Tree.
Int. J. Found. Comput. Sci.
Pierre Peterlongo, Julien Allali, Marie-France Sagot
2008 J jnl
Lossless filter for multiple repetitions with Hamming distance.
J. Discrete Algorithms
Pierre Peterlongo, Nadia Pisanti, Frédéric Boyer, Alair Pereira do Lago, Marie-France Sagot
2008 J jnl
Optimal neighborhood indexing for protein similarity search.
BMC Bioinform.
Pierre Peterlongo, Laurent Noé, Dominique Lavenier, Van Hoa Nguyen, Gregory Kucherov, Mathieu Giraud
2007 C conf
Application of suffix trees for the acquisition of common motifs with gaps in a set of strings.
LATA
Pavlos Antoniou, Maxime Crochemore, Costas S. Iliopoulos, Pierre Peterlongo
2007 Misc conf
Protein Similarity Search with Subset Seeds on a Dedicated Reconfigurable Hardware.
PPAM
Pierre Peterlongo, Laurent Noé, Dominique Lavenier, Gilles Georges, Julien Jacques, Gregory Kucherov, Mathieu Giraud
2006 — —
Filtrage de séquences d'ADN pour la recherche de longues répétitions multiples. (DNA sequence filtration for the problem of finding long multiple repetitions).
Pierre Peterlongo
2006 C conf
Finding Common Motifs with Gaps Using Finite Automata.
CIAA
Pavlos Antoniou, Jan Holub, Costas S. Iliopoulos, Borivoj Melichar, Pierre Peterlongo
2006 Misc conf
The gapped-factor tree.
PSC
Pierre Peterlongo, Julien Allali, Marie-France Sagot
2005 J jnl
A first approach to finding common motifs with gaps.
Int. J. Found. Comput. Sci.
Costas S. Iliopoulos, James A. M. McHugh, Pierre Peterlongo, Nadia Pisanti, Wojciech Rytter, Marie-France Sagot
2005 C conf
Lossless Filter for Finding Long Multiple Approximate Repetitions Using a New Data Structure, the Bi-factor Array.
SPIRE
Pierre Peterlongo, Nadia Pisanti, Frédéric Boyer, Marie-France Sagot
2004 Misc conf
A First Approach to Finding Common Motifs With Gaps.
PSC
Costas S. Iliopoulos, James A. M. McHugh, Pierre Peterlongo, Nadia Pisanti, Wojciech Rytter, Marie-France Sagot