Genome Assembly and Analysis of the North American Mountain Goat ( Oreamnos americanus ) Reveals Species-Level Responses to Extreme Environments
Daria Martchenko
,
Rayan Chikhi
,
Aaron Shafer
Article dans une revue
hal-03165277v1
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On the readability of overlap digraphs
Rayan Chikhi
,
Paul Medvedev
,
Martin Milanic
,
Sofya Raskhodnikova
Communication dans un congrès
hal-01236007v1
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RecoverY: k-mer-based read classification for Y-chromosome-specific sequencing and assembly
Samarth Rangavittal
,
Robert Harris
,
Monika Cechova
,
Marta Tomaszkiewicz
,
Rayan Chikhi
,
et al.
Article dans une revue
hal-01729744v1
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Using Minimum Path Cover to Boost Dynamic Programming on DAGs: Co-Linear Chaining Extended
Anna Kuosmanen
,
Topi Paavilainen
,
Travis Gagie
,
Rayan Chikhi
,
Alexandru Ioan Tomescu
,
et al.
RECOMB 2018 - 22nd Annual International Conference on Research in Computational Molecular Biology , Apr 2018, Paris, France
Communication dans un congrès
hal-01935568v1
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GATB: Genome Assembly & Analysis Tool Box
Erwan Drezen
,
Guillaume Rizk
,
Rayan Chikhi
,
Charles Deltel
,
Claire Lemaitre
,
et al.
Article dans une revue
hal-01088571v1
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Computational methods for de novo assembly of next-generation genome sequencing data
Rayan Chikhi
Thèse
tel-00752033v1
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Practical dynamic de Bruijn graphs
Alan Kuhnle
,
Victoria G. Crawford
,
Christina Boucher
,
Rayan Chikhi
,
Travis Gagie
Article dans une revue
hal-01935559v1
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Debugging long-read genome and metagenome assemblies using string graph analysis
Pierre Marijon
,
Jean-Stéphane Varré
,
Rayan Chikhi
JOBIM 2017- Journées Ouvertes en Biologie, Informatique et Mathématiques , Jul 2017, Lille, France.
Poster de conférence
hal-01574824v1
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Parallel decompression of gzip-compressed files and random access to DNA sequences
Mael Kerbiriou
,
Rayan Chikhi
2019 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW) , May 2019, Rio de Janeiro, France. pp.209-217,
⟨10.1109/IPDPSW.2019.00042⟩
Communication dans un congrès
hal-03165281v1
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Localized genome assembly from reads to scaffolds: practical traversal of the paired string graph
Rayan Chikhi
,
Dominique Lavenier
Communication dans un congrès
inria-00637535v1
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Parallel and memory-efficient reads indexing for genome assembly
Rayan Chikhi
,
Guillaume Chapuis
,
Dominique Lavenier
Parallel Bio-Computing 2011 , Sep 2011, torun, Poland
Communication dans un congrès
inria-00637536v1
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Compareads: comparing huge metagenomic experiments
Nicolas Maillet
,
Claire Lemaitre
,
Rayan Chikhi
,
Dominique Lavenier
,
Pierre Peterlongo
Article dans une revue
hal-00784394v1
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GATB: a software toolbox for genome assembly and analysis
Erwan Drezen
,
Guillaume Rizk
,
Rayan Chikhi
,
Charles Deltel
,
Claire Lemaitre
,
et al.
Bio-IT World Conference , Apr 2014, Boston, United States
Poster de conférence
hal-01088641v1
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Fast and scalable minimal perfect hashing for massive key sets
Antoine Limasset
,
Guillaume Rizk
,
Rayan Chikhi
,
Pierre Peterlongo
16th International Symposium on Experimental Algorithms , Jun 2017, London, United Kingdom. pp.1 - 11
Communication dans un congrès
hal-01566246v1
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A Graph-Theoretic Barcode Ordering Model for Linked-Reads
Yoann Dufresne
,
Chen Sun
,
Pierre Marijon
,
Dominique Lavenier
,
Cedric Chauve
,
et al.
Communication dans un congrès
hal-03008334v1
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Mapsembler, targeted assembly of larges genomes on a desktop computer
Pierre Peterlongo
,
Rayan Chikhi
[Research Report] RR-7565, INRIA. 2011, pp.17
Rapport
inria-00577218v1
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Genome scaffolding with PE-contaminated mate-pair libraries
Kristoffer Sahlin
,
Rayan Chikhi
,
Lars Arvestad.
Communication dans un congrès
hal-01236176v1
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A time- and cost-effective strategy to sequence mammalian Y Chromosomes: an application to the de novo assembly of gorilla Y
Marta Tomaszkiewicz
,
Samarth Rangavittal
,
Monika Cechova
,
Rebeca Campos Sanchez
,
Howard William Fescemyer
,
et al.
Article dans une revue
hal-01395702v1
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Bipartite Graphs of Small Readability
Rayan Chikhi
,
Vladan Jovičić
,
Stefan Kratsch
,
Paul Medvedev
,
Martin Milanic
,
et al.
COCOON 2018 - The 24th International Computing and Combinatorics Conference , Jul 2018, Qingdao, China
Communication dans un congrès
hal-01935562v1
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kmdiff, large-scale and user-friendly differential k-mer analyses
Téo Lemane
,
Rayan Chikhi
,
Pierre Peterlongo
Article dans une revue
hal-03885124v1
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Strainberry: automated strain separation in low-complexity metagenomes using long reads
Riccardo Vicedomini
,
Christopher Quince
,
Aaron Darling
,
Rayan Chikhi
Article dans une revue
hal-03412884v1
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Petabase-scale sequence alignment catalyses viral discovery
Robert Edgar
,
Jeff Taylor
,
Victor Lin
,
Tomer Altman
,
Pierre Barbera
,
et al.
2021
Pré-publication, Document de travail
hal-03412952v1
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Space-efficient and exact de Bruijn graph representation based on a Bloom filter
Rayan Chikhi
,
Guillaume Rizk
Communication dans un congrès
hal-00753930v1
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On the Representation of De Bruijn Graphs
Rayan Chikhi
,
Antoine Limasset
,
Shaun Jackman
,
Jared T. Simpson
,
Paul Medvedev
Article dans une revue
hal-01524525v1
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Critical Assessment of Metagenome Interpretation – a benchmark of computational metagenomics software
Alexander Sczyrba
,
Peter Hofmann
,
Peter Belmann
,
David Koslicki
,
Stefan Janssen
,
et al.
Article dans une revue
hal-01633525v1
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Reference-free detection of isolated SNPs
Raluca Uricaru
,
Guillaume Rizk
,
Vincent Lacroix
,
Elsa Quillery
,
Olivier Plantard
,
et al.
Article dans une revue
hal-01083715v1
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Dualities in Tree Representations
Rayan Chikhi
,
Alexander Schönhuth
2018
Pré-publication, Document de travail
hal-01935566v1
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Efficient and Robust Search of Microbial Genomes via Phylogenetic Compression
Karel Břinda
,
Leandro Lima
,
Simone Pignotti
,
Natalia Quinones-Olvera
,
Kamil Salikhov
,
et al.
2023
Pré-publication, Document de travail
hal-04287842v1
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Combining flash memory and FPGAs to efficiently implement a massively parallel algorithm for content-based image retrieval
Chikhi Rayan
,
Steven Derrien
,
Noumsi Auguste
,
Patrice Quinton
International Journal of Electronics , 2008, 95 (7), pp.621-635(15)
Article dans une revue
inria-00453946v1
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New developments in KisSplice: Combining local and global transcriptome assemblers to decipher splicing in RNA-seq data
Alice Julien-Laferriere
,
Gustavo Sacomoto
,
Rayan Chikhi
,
Erwan Scaon
,
David P. Parsons
,
et al.
Journées Ouvertes en Biologie, Informatique et Mathématiques (JOBIM) , Jul 2013, Toulouse, France
Communication dans un congrès
hal-02069363v1
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