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UID:submissions.pasc-conference.org_PASC23_sess178_pap112@linklings.com
SUMMARY:Lessons Learned from a Performance Analysis and Optimization of a 
 Multiscale Cellular Simulation
DESCRIPTION:Paper\n\nMarc Clascą, Marta Garcia-Gasulla, Arnau Montagud, an
 d Jose Carbonell Caballero (Barcelona Supercomputing Center) and Alfonso V
 alencia (Barcelona Supercomputing Center, ICREA)\n\nThis work presents a c
 omprehensive performance analysis and multiscale agent-based cellular simu
 lation optimization. The optimizations applied are guided by detailed perf
 ormance analysis and include memory management, load balance, and a locali
 ty-aware parallelization. The outcome of this paper is not only the speedu
 p of 2.4x achieved by the optimized version with respect to the original P
 hysiCell code. But also the lessons learned and best practices when develo
 ping parallel HPC codes to obtain efficient and highly performant applicat
 ions, especially in the computational biology field.\n\nDomain: Life Scien
 ces\n\nSession Chair: John Biddiscombe (ETH Zurich / CSCS)
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