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Dominique Lavenier
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2020 – today
- 2024
- [c48]Meven Mognol
, Dominique Lavenier
Parallelization of the Banded Needleman & Wunsch Algorithm on UPMEM PiM Architecture for Long DNA Sequence Alignment. ICPP 2024: 1062-1071 - 2023
- [c47]Chloé Berton
Dynamic Sliding Window Encoding for Data Storage on DNA Under Biological and Indexing Constraints. EUSIPCO 2023: 1110-1114 - 2021
- [c46]Belaid Hamoum, Elsa Dupraz, Laura Conde-Canencia, Dominique Lavenier:
Channel Model with Memory for DNA Data Storage with Nanopore Sequencing. ISTC 2021: 1-5 - [i3]Dominique Lavenier:
Constrained Consensus Sequence Algorithm for DNA Archiving. CoRR abs/2105.04993 (2021) - 2020
- [j36]Lolita Lecompte
SVJedi: genotyping structural variations with long reads. Bioinform. 36(17): 4568-4575 (2020) - [c45]Dominique Lavenier, Remy Cimadomo, Romaric Jodin:
Variant Calling Parallelization on Processor-in-Memory Architecture. BIBM 2020: 204-207 - [c44]Yoann Dufresne
A Graph-Theoretic Barcode Ordering Model for Linked-Reads. WABI 2020: 11:1-11:17
2010 – 2019
- 2019
- [j35]Rumen Andonov
Complete assembly of circular and chloroplast genomes based on global optimization. J. Bioinform. Comput. Biol. 17(3): 1950014:1-1950014:23 (2019) - [c43]Hoang-Son Pham
Statistically Significant Discriminative Patterns Searching. DaWaK 2019: 105-115 - [i2]Hoang-Son Pham, Gwendal Virlet, Dominique Lavenier, Alexandre Termier:
Statistically Significant Discriminative Patterns Searching. CoRR abs/1906.01581 (2019) - 2018
- [j34]Sebastien François, Rumen Andonov, Dominique Lavenier, Hristo N. Djidjev:
Global Optimization for Scaffolding and Completing Genome Assemblies. Electron. Notes Discret. Math. 64: 185-194 (2018) - 2017
- [j33]B. Sharat Chandra Varma, Kolin Paul, M. Balakrishnan, Dominique Lavenier:
Hardware acceleration of de novo genome assembly. Int. J. Embed. Syst. 9(1): 74-89 (2017) - [p1]Gaëtan Benoit, Claire Lemaitre, Guillaume Rizk, Erwan Drezen, Dominique Lavenier:
De Novo NGS Data Compression. Algorithms for Next-Generation Sequencing Data 2017: 91-115 - 2016
- [j32]Gaëtan Benoit, Pierre Peterlongo, Mahendra Mariadassou, Erwan Drezen, Sophie Schbath
Multiple comparative metagenomics using multiset k-mer counting. PeerJ Comput. Sci. 2: e94 (2016) - [c42]Dominique Lavenier, Jean-François Roy, David Furodet:
DNA mapping using Processor-in-Memory architecture. BIBM 2016: 1429-1435 - [c41]Hoang-Son Pham
Identifying Genetic Variant Combinations Using Skypatterns. DEXA Workshops 2016: 44-48 - 2015
- [j31]Gaëtan Benoit, Claire Lemaitre, Dominique Lavenier, Erwan Drezen, Thibault Dayris, Raluca Uricaru, Guillaume Rizk:
Reference-free compression of high throughput sequencing data with a probabilistic de Bruijn graph. BMC Bioinform. 16: 288:1-288:14 (2015) - [j30]Hristo N. Djidjev
All-Pairs Shortest Path algorithms for planar graph for GPU-accelerated clusters. J. Parallel Distributed Comput. 85: 91-103 (2015) - [j29]Naeem Abbas, Steven Derrien, Sanjay V. Rajopadhye, Patrice Quinton, Alexandre Cornu, Dominique Lavenier:
Combining execution pipelines to improve parallel implementation of HMMER on FPGA. Microprocess. Microsystems 39(7): 457-470 (2015) - [j28]Guillaume Chapuis, Mathilde Le Boudic-Jamin, Rumen Andonov
Parallel Seed-Based Approach to Multiple Protein Structure Similarities Detection. Sci. Program. 2015: 279715:1-279715:12 (2015) - 2014
- [j27]Erwan Drezen, Guillaume Rizk, Rayan Chikhi, Charles Deltel, Claire Lemaitre, Pierre Peterlongo
GATB: Genome Assembly & Analysis Tool Box. Bioinform. 30(20): 2959-2961 (2014) - [c40]Nicolas Maillet, Guillaume Collet, Thomas Vannier, Dominique Lavenier, Pierre Peterlongo:
Commet: Comparing and combining multiple metagenomic datasets. BIBM 2014: 94-98 - [c39]Hristo N. Djidjev
Efficient Multi-GPU Computation of All-Pairs Shortest Paths. IPDPS 2014: 360-369 - [c38]Erwan Drezen, Dominique Lavenier:
Quality Metrics for Benchmarking Sequences Comparison Tools. BSB 2014: 144-153 - [i1]Gaëtan Benoit, Claire Lemaitre, Dominique Lavenier, Guillaume Rizk:
Compression of high throughput sequencing data with probabilistic de Bruijn graph. CoRR abs/1412.5932 (2014) - 2013
- [j26]Guillaume Rizk, Dominique Lavenier, Rayan Chikhi:
DSK: k-mer counting with very low memory usage. Bioinform. 29(5): 652-653 (2013) - [j25]Guillaume Chapuis, Olivier Filangi
Graphics Processing Unit-Accelerated Quantitative Trait Loci Detection. J. Comput. Biol. 20(9): 672-686 (2013) - [c37]B. Sharat Chandra Varma
FAssem: FPGA Based Acceleration of De Novo Genome Assembly. FCCM 2013: 173-176 - [c36]Guillaume Chapuis, Mathilde Le Boudic-Jamin, Rumen Andonov, Hristo N. Djidjev
Parallel Seed-Based Approach to Protein Structure Similarity Detection. PPAM (2) 2013: 278-287 - [c35]François Moreews
Seamless coarse grained parallelism integration in intensive bioinformatics workflows. EuroMPI 2013: 277-282 - 2012
- [j24]Nicolas Maillet, Claire Lemaitre, Rayan Chikhi, Dominique Lavenier, Pierre Peterlongo
Compareads: comparing huge metagenomic experiments. BMC Bioinform. 13(S-19): S10 (2012) - 2011
- [j23]Mehdi Darouich, Stéphane Guyetant, Dominique Lavenier:
Étude quantitative d'algorithmes de stéréovision pour les systèmes embarqués d'aide à la conduite. Tech. Sci. Informatiques 30(5): 539-569 (2011) - [c34]Alexandre Cornu, Steven Derrien, Dominique Lavenier:
HLS Tools for FPGA: Faster Development with Better Performance. ARC 2011: 67-78 - [c33]Guillaume Chapuis, Rayan Chikhi, Dominique Lavenier:
Parallel and Memory-Efficient Reads Indexing for Genome Assembly. PPAM (2) 2011: 272-280 - [c32]Rayan Chikhi, Dominique Lavenier:
Localized Genome Assembly from Reads to Scaffolds: Practical Traversal of the Paired String Graph. WABI 2011: 39-48 - 2010
- [j22]Guillaume Rizk, Dominique Lavenier:
GASSST: global alignment short sequence search tool. Bioinform. 26(20): 2534-2540 (2010) - [c31]Mehdi Darouich, Stéphane Guyetant, Dominique Lavenier:
A Reconfigurable Disparity Engine for Stereovision in Advanced Driver Assistance Systems. ARC 2010: 306-317
2000 – 2009
- 2009
- [j21]Rayan Chikhi, Dominique Lavenier:
Paired-end read length lower bounds for genome re-sequencing. BMC Bioinform. 10(S-13): 0 (2009) - [j20]Van Hoa Nguyen
PLAST: parallel local alignment search tool for database comparison. BMC Bioinform. 10: 329 (2009) - [c30]Guillaume Rizk, Dominique Lavenier:
GPU Accelerated RNA Folding Algorithm. ICCS (1) 2009: 1004-1013 - [c29]Van Hoa Nguyen
Implementing protein seed-based comparison algorithm on the SGI RASC-100 platform. IPDPS 2009: 1-7 - [c28]Pierre Peterlongo, Jacques Nicolas, Dominique Lavenier, Raoul Vorc'h, Joël Querellou:
c-GAMMA: Comparative Genome Analysis of Molecular Markers. PRIB 2009: 255-269 - 2008
- [j19]Pierre Peterlongo
Optimal neighborhood indexing for protein similarity search. BMC Bioinform. 9 (2008) - [j18]Xianyang Jiang, Dominique Lavenier, Stephen S.-T. Yau:
Coding Region Prediction Based on a Universal DNA Sequence Representation Method. J. Comput. Biol. 15(10): 1237-1256 (2008) - [c27]Dominique Lavenier:
Ordered index seed algorithm for intensive DNA sequence comparison. IPDPS 2008: 1-8 - [c26]Xiaochun Ye, Van Hoa Nguyen
Efficient Parallelization of a Protein Sequence Comparison Algorithm on Manycore Architecture. PDCAT 2008: 167-170 - [c25]Van Hoa Nguyen
Speeding up subset seed algorithm for intensive protein sequence comparison. RIVF 2008: 57-63 - 2007
- [j17]Mathieu Giraud
Path-Equivalent Developments in Acyclic Weighted Automata. Int. J. Found. Comput. Sci. 18(4): 799-811 (2007) - [j16]Dominique Lavenier, Gilles Georges, Xinchun Liu:
A Reconfigurable Index FLASH Memory tailored to Seed-Based Genomic Sequence Comparison Algorithms. J. VLSI Signal Process. 48(3): 255-269 (2007) - [c24]Pierre Peterlongo, Laurent Noé
Protein Similarity Search with Subset Seeds on a Dedicated Reconfigurable Hardware. PPAM 2007: 1240-1248 - 2006
- [j15]Sébastien Tempel, Mathieu Giraud, Dominique Lavenier, Israël-César Lerman, Anne-Sophie Valin, Ivan Couée
Domain organization within repeated DNA sequences: application to the study of a family of transposable elements. Bioinform. 22(16): 1948-1954 (2006) - [c23]Dominique Lavenier, Xinchun Liu, Gilles Georges:
Seed-based genomic sequence comparison using a FPGA/FLASH accelerator. FPT 2006: 41-48 - [c22]Mathieu Giraud
Path-Equivalent Removals of epsilon-transitions in a Genomic Weighted Finite Automaton. CIAA 2006: 23-33 - 2005
- [j14]Rumen Andonov, Dominique Lavenier, Philippe Veber, Nicola Yanev:
Dynamic programming for LR-PCR segmentation of bacterium genomes. Concurr. Comput. Pract. Exp. 17(14): 1657-1668 (2005) - [j13]Mathieu Giraud, Dominique Lavenier:
Dealing with Hardware Space Limits when Removing Epsilon-Transitions in a Genomic Weighted Finite Automaton. J. Autom. Lang. Comb. 10(2/3): 265-285 (2005) - [j12]Stéphane Guyetant, Mathieu Giraud
Cluster of re-configurable nodes for scanning large genomic banks. Parallel Comput. 31(1): 73-96 (2005) - [j11]Raphaël David, Dominique Lavenier, Sébastien Pillement
Du microprocesseur au circuit FPGA. Une analyse sous l'angle de la reconfiguration. Tech. Sci. Informatiques 24(4): 395-422 (2005) - [j10]Mathieu Giraud
Encodage linéaire d'automates pondérés. Filtrage de motifs génomiques et application sur l'architecture prototype R-disk. Tech. Sci. Informatiques 24(6): 703-724 (2005) - [c21]Nicolas Ventroux, Frédéric Blanc, Dominique Lavenier:
A Low Complex Scheduling Algorithm for Multi-processor System-on-Chip. Parallel and Distributed Computing and Networks 2005: 540-545 - 2004
- [c20]Rumen Andonov, Dominique Lavenier, Philippe Veber, Nicola Yanev:
Dynamic Programming for LR-PCR Segmention of Bacterium Genomes. IPDPS 2004 - [c19]Mathieu Giraud
Linear Encoding Scheme for Weighted Finite Automata. CIAA 2004: 146-155 - 2003
- [j9]Maya B. Gokhale, Janette Frigo, Kevin McCabe, James Theiler, Christophe Wolinski, Dominique Lavenier:
Experience with a Hybrid Processor: K-Means Clustering. J. Supercomput. 26(2): 131-148 (2003) - [j8]Frédéric Raimbault, Dominique Lavenier:
ROOM. Des machines reconfigurables orientées objet pour les applications spécifiques. Tech. Sci. Informatiques 22(6): 759-782 (2003) - [c18]Dominique Lavenier, Stéphane Guyetant, Steven Derrien, Stéphane Rubini:
A Reconfigurable Parallel Disk System for Filtering Genomic Banks. Engineering of Reconfigurable Systems and Algorithms 2003: 154-166 - 2001
- [c17]Yan Solihin, Kirk W. Cameron, Yong Luo, Dominique Lavenier, Maya B. Gokhale:
Mutable Functional Units: Initial Results. FCCM 2001: 283-284 - [c16]Janette Frigo, Maya B. Gokhale, Dominique Lavenier:
Evaluation of the streams-C C-to-FPGA compiler: an applications perspective. FPGA 2001: 134-140 - [c15]Loïc Lagadec, Dominique Lavenier, Erwan Fabiani, Bernard Pottier:
Placing, Routing, and Editing Virtual FPGAs. FPL 2001: 357-366 - [c14]Yan Solihin, Kirk W. Cameron
Mutable Functional Units and Their Applications on Microprocessors. ICCD 2001: 234-239 - 2000
- [j7]Dominique Lavenier:
An FPGA systolic array using pseudo-random bit generators for computing Goldbach partitions. Integr. 30(1): 77-89 (2000) - [c13]Erwan Fabiani, Dominique Lavenier:
Placement of Linear Arrays. FPL 2000: 849-852
1990 – 1999
- 1998
- [c12]Dominique Lavenier, Yannick Saouter
Computing Goldbach Partitions Using Pseudo-random Bit Generator Operators on a FPFA Systolic Array. FPL 1998: 316-325 - 1997
- [b1]Dominique Lavenier:
Conception d'architectures systoliques integrées. University of Rennes 1, France, 1997 - [j6]Pascale Guerdoux-Jamet, Dominique Lavenier:
SAMBA: hardware accelerator for biological sequence comparison. Comput. Appl. Biosci. 13(6): 609-615 (1997) - [c11]Dominique Lavenier, Jean-Lin Pacherie:
Parallel Processing for Scanning Genomic Data-Bases. PARCO 1997: 81-88 - 1996
- [j5]Dominique Lavenier:
Dedicated Hardware for Biological Sequence Comparison. J. Univers. Comput. Sci. 2(2): 77-86 (1996) - [j4]Roderick McConnell, Dominique Lavenier:
Prototyping of VLSI components from a formal specification. J. VLSI Signal Process. 12(2): 177-186 (1996) - [c10]Pascale Guerdoux-Jamet, Dominique Lavenier, Charles Wagner, Patrice Quinton:
Design and Implementation of a Parallel Architecture for Biological Sequence Comparison. Euro-Par, Vol. I 1996: 11-24 - 1995
- [j3]Dominique Lavenier, Frédéric Raimbault, Patrice Frison:
I/O and computation overlap on SIMD systolic arrays. J. VLSI Signal Process. 9(3): 153-165 (1995) - [c9]Pascale Guerdoux-Jamet, Dominique Lavenier:
Systolic Filter for Fast DNA Similarity Search. ASAP 1995: 145-156 - 1994
- [j2]Patrice Frison, François Charot, Eric Gautrin, Dominique Lavenier, Patrice Quinton, Frédéric Raimbault, Charles Wagner:
From Equations to Hardware. Towards the Systematic Mapping of Algorithms onto Parallel Architectures. Int. J. Pattern Recognit. Artif. Intell. 8(2): 417-438 (1994) - [c8]Dominique Lavenier, Roderick McConnell:
From behavioral to RTL models: an approach. RSP 1994: 153-161 - 1993
- [j1]Dominique Lavenier:
An integrated 2D systolic array for spelling correction. Integr. 15(1): 97-111 (1993) - [c7]Frédéric Raimbault, Dominique Lavenier:
RELACS for systolic programming. ASAP 1993: 132-135 - [c6]Patrice Frison, Dominique Lavenier, Frédéric Raimbault:
I/O data management on SIMD systolic arrays. ASAP 1993: 273-284 - 1992
- [c5]François Charot, Patrice Frison, Eric Gautrin, Dominique Lavenier, Patrice Quinton, Charles Wagner:
From Equations to Hardware: Towards Systematic Mapping of Algorithms onto Parallel Architectures. ICPIA 1992: 1-15 - 1991
- [c4]Patrice Frison, Dominique Lavenier:
Experience in the design of paralle processor arrays. Algorithms and Parallel VLSI Architectures 1991: 233-242 - [c3]Patrice Frison, Dominique Lavenier:
A Fully Integrated Systolic Spelling Co-Processor. VLSI 1991: 257-266 - 1990
- [c2]Patrice Frison, Eric Gautrin, Dominique Lavenier, J. L. Scharbarg:
Designing specific systolic arrays with the API15C chip. ASAP 1990: 505-517
1980 – 1989
- 1988
- [c1]Patrice Frison, Dominique Lavenier:
Fast Machine for Prototyping String Correction Algorithms. RIAO 1988: 1085-1100
Coauthor Index
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last updated on 2024-10-07 22:13 CEST by the dblp team
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