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• W3200584885 abstract "Abstract Multi-scale simulations require parallelization to address large-scale problems, such as real-sized tumor simulations. BioFVM is a software package that solves diffusive transport Partial Differential Equations for 3-D biological simulations successfully applied to tissue and cancer biology problems. Currently, BioFVM is only shared-memory parallelized using OpenMP, greatly limiting the execution of large-scale jobs in HPC clusters. We present BioFVM-X: an enhanced version of BioFVM capable of running on multiple nodes. BioFVM-X uses MPI+OpenMP to parallelize the generic core kernels of BioFVM and shows promising scalability in large 3-D problems with several hundreds diffusible substrates and $$approx $$ <mml:math xmlns:mml=http://www.w3.org/1998/Math/MathML> <mml:mo>≈</mml:mo> </mml:math> 0.5 billion voxels. The BioFVM-X source code, examples and documentation, are available under the BSD 3-Clause license at https://gitlab.bsc.es/gsaxena/biofvm_x ." @default.
• W3200584885 created "2021-09-27" @default.
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• W3200584885 date "2021-01-01" @default.
• W3200584885 modified "2023-09-29" @default.
• W3200584885 title "BioFVM-X: An MPI+OpenMP 3-D Simulator for Biological Systems" @default.
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• W3200584885 doi "https://doi.org/10.1007/978-3-030-85633-5_18" @default.
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