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Brain modeling has been receiving significant attention over the years, both for its neuroscientific potential and for its challenges in the context of high-performance computing. The development of physiologically plausible neuron models comes at the cost of increased complexity. In this work, we have selected a highly computationally demanding model of the Inferior-Olivary Nucleus (InfOli) based...
Bioinformatics is an interdisciplinary field that applies techniques from computer science, statistics and engineering to guide in the study of large biological data. Protein structure and sequence analysis is very important in bioinformatics mainly in understanding cellular processes which helps in simplifying the development of drugs for metabolic pathways. Protein sequence alignment is a technique...
This paper studies the implementation and optimization of a high-order weighted essentially non-oscillatory (WENO) solver to the solution of the Euler equations on the multi-core and many-core architectures (Intel Ivy Bridge CPU, Intel Xeon Phi 7110P coprocessor and NVIDIA Kepler K20c GPU). The implementation of up to ninth-order accurate WENO schemes is used in the solver. For the GPU platform, both...
In this paper, we accelerate a double-precision alternating direction implicit (ADI) solver for three-dimensional compressible Navier-Stokes equations from our in-house computational fluid dynamics (CFD) software on the latest multi-core and many-core architectures (Intel Ivy Bridge CPU, Intel Xeon Phi 7110P coprocessor and NVIDIA Kepler K20c GPU). For the GPU platform, both the OpenACC-based and...
In this paper, we present an approach to resize integral images directly in the integral image domain. For the special case of resizing by a power of two, we propose a highly parallelizable variant of our approach, which is identical to bilinear resizing in the image domain in terms of results, but requires fewer operations per pixel. Furthermore, we modify a parallelized state-of-the-art object detection...
General-purpose computing on an ever-broadening array of parallel devices has led to an increasingly complex and multi-dimensional landscape with respect to programmability and performance optimization. The growing diversity of parallel architectures presents many challenges to the domain scientist, including device selection, programming model, and level of investment in optimization. All of these...
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