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Guillaume Julien Chapuis

Email
Phone (505) 665-2425

Expertise

I'm interested in parallel computing in general (distributed computing, multi-core, GPGPU...), graph algorithms and performance modeling.

Education

  • Ph.D., Computer Science, ENS Cachan, France
  • Master's degree, Computer Science, INSA Rennes, France
 

LANL Positions

  • Postdoctoral research associate, 2015 -
  • Graduate student, 2013
 

Awards

  • Best paper award at ValueTools 2015
 

Publications

Journal Articles

[1] Hristo Djidjev, Guillaume Chapuis, Rumen Andonov, Sunil Thulasidasan, and Dominique Lavenier. All-pairs shortest path algorithms for planar graph for gpu-accelerated clusters. Journal of Parallel and Distributed Computing, 85:91–103, 2015

[2] Guillaume Chapuis, Mathilde Le Boudic-Jamin, Rumen Andonov, Hristo Djidjev, and Dominique Lavenier. Parallel seed-based approach to multiple protein structure similarities detection. Scientific Programming, vol. 2015, 2015

[3] Guillaume Chapuis, Olivier Filangi, Jean-Michel Elsen, Dominique Lavenier, and Pascale Le Roy. Graphics processing unit–accelerated quantitative trait loci detection Journal of Computational Biology, 20(9):672–686, 2013

[4] Keith R Bradnam, Joseph N Fass, Anton Alexandrov, Paul Baranay, Michael Bechner, Inanç Birol, Sébastien Boisvert, Jarrod A Chapman, Guillaume Chapuis, Rayan Chikhi, et al. Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species. GigaScience, 2(1):1–31, 2013

[5] Dent Earl, Keith Bradnam, John St John, Aaron Darling, Dawei Lin, Joseph Fass, Hung On Ken Yu, Vince Buffalo, Daniel R Zerbino, Mark Diekhans, et al. Assemblathon 1: a competitive assessment of de novo short read assembly methods. Genome research, 21(12):2224–2241, 2011

Conferences:

[6] Guillaume Chapuis, Stephan Eidenbenz, and Nandakishore Santhi. Gpu performance prediction through parallel discrete event simulation and common sense. In Proceedings of the 9th EAI International Conference on Performance Evaluation Methodologies and Tools. EAI International Conference on Performance Evaluation Methodologies and Tools, 2015. Accepted, to appear

[7] Guillaume Chapuis, Stephan Eidenbenz, Nandakishore Santhi, and Eun Jung Park. Simian integrated framework for parallel discrete event simulation on gpus. In Proceedings of the 2015 Winter simulation Conference. Winter Simulation Conference, 2015. Accepted, to appear

[8] Eun Jung Park, Stephan Eidenbenz, Nandakishore Santhi, and Guillaume Chapuis. Parameterized benchmarking of parallel discrete event simulation systems: Communication, computation, and memory. In Proceedings of the 2015 Winter simulation Conference. Winter Simulation Conference, 2015. Accepted, to appear

[9] Guillaume Chapuis and Hristo Djidjev. Shortest-path queries in planar graphs on gpu-accelerated architectures. In Proceedings of the 10th International Conference on Large-Scale Scientific Computations (LSSC). 10th International Conference on Large-Scale Scientific Computations (LSSC), 2015

[10] Guillaume Chapuis, Mathilde Le Boudic-Jamin, Rumen Andonov, Hristo Djidjev, and Dominique Lavenier. Parallel seed-based approach to protein structure similarity detection. In Parallel Processing and Applied Mathematics, pages 278–287. Springer, 2014

[11] Guillaume Chapuis, Hristo Djidjev, Rumen Andonov, Sunil Thulasidasan, and Dominique Lavenier. Efficient multi-gpu algorithm for all-pairs shortest paths. In International Parallel and Distributed Processing Symposium (IPDPS), 2014

[12] Guillaume Chapuis, Rayan Chikhi, and Dominique Lavenier. Parallel and memory-efficient reads indexing for genome assembly. In Parallel Processing and Applied Mathematics, pages 272–280. Springer, 2012

Book chapters:

[13] Guillaume Chapuis, Hristo Djidjev, Rumen Andonov, and Dominique Lavenier. Gpu-accelerated shortest paths computations for planar graphs. In Advances in GPU research and practice. Elsevier, 2015. Accepted, to appear

Software: