Publications

NumberTitleVenueAuthorsLink
06.2015.2Performance analysis of a parallel, multi-node pipeline for DNA sequencingPPAM, 11th International Conference on Parallel Processing and Applied MathematicsD. Decap, J. Reumers, C. Herzeel, P. Costanza, J. Fostier in press
06.2015.1elPrep: high-performance preparation of sequence alignment/map files for variant callingPLOS OneC. Herzeel, P. Costanza, D. Decap, J. Fostier, J. Reumerspdf
04.2015.1Halvade: scalable sequence analysis with MapReduceJournal of BioinformaticsD. Decap, J. Reumers, C. Herzeel, P. Costanza, J. Fostierhtml+pdf
03.2015.1Scaling Machine Learning for Target Prediction in Drug Discovery using Apache SparkProceedings of the 15th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing: Workshop on Clusters, Clouds and Grids for Life SciencesD. Harnie, A. E. Vapirev, J. K. Wegner, A. Gedich, M. Steijaert, R. Wuyts, W. De Meuterpdf
11.2013.1Performance Analysis of BWA AlignmentTech ReportC. Herzeel, P. Costanza, T.J. Ashby, R. Wuytspdf
01.2014.1High-Level Strategies for Parallel Shared-Memory Sparse Matrix–Vector MultiplicationIEEE Transactions on Parallel and Distributed Systems 25(1), pp. 116-125A. N. Yzelman, D. Roose link
09.2013.2Resolving load balancing issues in BWA on NUMA multicore architecturesWorkshop on Parallel Computational Biology
In conjunction with the International Conference on Parallel Processing and Applied Mathematics
Warsaw, Poland, September 8-11, 2013
C. Herzeel, T. J. Ashby, P. Costanza, W. De Meuterpdf
09.2013.1Modeling the performance of geometric multigrid on many-core computer architecturesSubmitted to SIAM journal on Scientific ComputingP. Ghysels, W. Vanroose(preprint) pdf
07.2013.2Hiding global communication latency and increasing the arithmetic intensity in extreme-scale Krylov solvers
DOE Workshop on Applied Mathematics Research for Exascale Computing, 21-22 Aug 2013
W. Vanroose P. Ghysels, D. Roose, K. Meerbergenpdf
07.2013.1MulticoreBSP for C: a high-performance library for shared-memory parallel programmingInternational Symposium on High-level Parallel Programming and Applications (HLPP 2013)A. N. Yzelman, R. H. Bisseling, D. Roose, K. Meerbergenpreprint
06.2013.1High Performance Solvers for Implicit Particle in Cell SimulationsInternational Conference on Computational Science (ICCS 2013)Pawan Kumar, Stefano Markidis, Giovanni Lapenta, Karl Meerbergen, Dirk Roosepreprint (pdf),
DOI)
04.2013.1Sampled Simulation of Multi-Threaded Applications2013 IEEE International Symposium on Performance Analysis of Systems and Software ( ISPASS-2013)Trevor E. Carlson, Wim Heirman, Lieven Eeckhoutpdf
12.2012.1Hiding global synchronization latency in the preconditioned Conjugate Gradient algorithmSubmittedPieter Ghysels and Wim Vanroosepdf
11.2012.1Multi-threaded nested filtering factorization preconditionerSubmitted to Lecture Notes in Computer SciencePawan Kumar, Karl Meerbergen, Dirk Roosepreprint (pdf)
09.2012.2The Impact of Global Communication Latency
at Extreme Scales on Krylov Methods
12th International Conference on Algorithms and Architectures for Parallel Processing (ICA3PP-12)Thomas J. Ashby, Pieter Ghysels, Wim Heirman, Wim Vanroosepdf, DOI
09.2012.1Implementation of a 2D electrostatic Particle-in-Cell algorithm in unified parallel C with dynamic load-balancingComputers & Fluids, September, 2012Bart Verleye, Pierre Henri, Roel Wuyts, Giovanni Lapenta, Karl Meerbergenpreprint (pdf), DOI
08.2012.1An Investigation into the Performance of Reduction Algorithms under Load Imbalance2012 International European Conference on Parallel and Distributed Computing (EURO-PAR 2012)Petar Marendic, Jan Lemeire, Tom Haber, Dean Vucinic, Peter Schelkenspdf, doi
06.2012.1Power-Aware Multi-Core Simulation for Early Design Stage Hardware/Software Co-Optimization2012 International Conference on Parallel Architectures and Compilation Techniques (PACT-2012)Wim Heirman, Souradip Sarkar, Trevor E. Carlson, Ibrahim Hur, Lieven Eeckhoutpdf
04.2012.1Hiding global communication latency in the GMRES algorithm on massively parallel machinesTo appear in SIAM Journal on Scientific Computing (SISC)Pieter Ghysels, Tom Ashby, Karl Meerbergen, Wim Vanroosepdf
11.2011.1Improving the arithmetic intensity of multigrid with the help of polynomial smoothersFifteenth Copper Mountain Conference
on Multigrid Methods 2011 (Copper 2011)
Pieter Ghysels, Przemysław Kłosiewicz, Wim Vanroosepdf
09.2011.3Using Cycle Stacks to Understand Scaling Bottlenecks in Multi-Threaded Workloads2011 IEEE International Symposium on Workload Characterization (IISWC-2011)Wim Heirman, Trevor E. Carlson, Shuai Che, Kevin Skadron, Lieven Eeckhoutpdf
09.2011.2Sniper: Exploring the Level of Abstraction for Scalable and Accurate Parallel Multi-Core SimulationInternational Conference for High Performance Computing, Networking, Storage and Analysis (SC'11)Trevor E. Carlson, Wim Heirman, Lieven Eeckhoutpdf
09.2011.1Evaluating application vulnerability to soft errors in multi-level cache hierarchy4th Workshop on Resiliency in High Performance Computing (Resilience 2011)Zhe Ma, Trevor Carlson, Wim Heirman, Lieven Eeckhoutpdf
08.2011.2Using Fast and Accurate Simulation to Explore Hardware/Software Trade-offs in the Multi-Core EraParallel Computing 2011 (Parco2011)Wim Heirman, Trevor E. Carlson, Souradip Sarkar, Pieter Ghysels, Wim Vanroose, Lieven Eeckhoutpdf
08.2011.1Reactive Rebalancing for Scientific Simulations running on ExaScale High Performance ComputersParallel Computing 2011 (Parco2011)Roel Wuyts, Karl Meerbergen, Pascal Costanzapdf
07.2011.2Implementation of a 2D Electrostatic Particle in Cell algorithm in Unified Parallel C with dynamic load-balancingParallel Computational Fluid Dynamics 2011 (ParCFD2011)Bart Verleye, Pierre Henri, Roel Wuyts, Giovanni Lapenta, Karl Meerbergenpdf
07.2011.1Improving the Data Locality of Work Stealing - A Domain-specific ApproachSPLASH 2010 Workshop on Concurrency for the Application Programmer, Reno, Nevada, USA, October 18, 2010Pascal Costanza, Bruno De Fraine, Tom Van Cutsempdf

 

Presentations

NumberTitleDateVenueAuthorsLink
06.2012.1Implementation of a Particle in Cell algorithm in PEANOJune 25-29, 2012PEANO Workshop at The 11th International Symposium on Parallel and Distributed Computing, München, Germany, June 25-29, 2012Bart Verleyepdf
08.2011.2Using Fast and Accurate Simulation to Explore Hardware/Software Trade-offs in the Multi-Core EraAugust 31, 2011Parallel Computing 2011 (Parco2011)Wim Heirman, Trevor E. Carlson, Pieter Ghysels, Wim Vanroose, Lieven Eeckhoutpdf
08.2011.1Reactive Rebalancing for Scientific Simulations running on ExaScale High Performance ComputersAugust 30, 2011Parallel Computing 2011 (Parco2011)Roel Wuyts, Karl Meerbergen, Pascal Costanzapdf
05.2011.13D Reconnection theory: kinetic aspectsMay 12, 20114th SOLAIRE Network Meeting (SOLAIRE'11)Giovanni Lapenta, Stefano Markidispdf
04.2011.1Effects of turbulent reconnection on the evolution of dipolarisation fronts in the Earth magnetotailApril 8, 2011European Geosciences Union General Assembly 2011 (EGU 2011)Giovanni Lapenta, S. Markidis, M. Goldman, D. Newmanpdf
 

Comments are closed.