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The continually increasing volume of DNA sequence data has resulted in a growing demand for fast implementations of core algorithms. Computation of pairwise alignments between candidate haplotypes and sequencing reads using Pair-HMMs is a…

Distributed, Parallel, and Cluster Computing · Computer Science 2026-01-27 Bertil Schmidt , Felix Kallenborn , Alexander Wichmann , Alejandro Chacon , Christian Hundt

The availability of low cost sensors has led to an unprecedented growth in the volume of spatial data. However, the time required to evaluate even simple spatial queries over large data sets greatly hampers our ability to interactively…

Databases · Computer Science 2020-04-09 Harish Doraiswamy , Juliana Freire

Workload consolidation, sharing physical resources among multiple workloads, is a promising technique to save cost and energy in cluster computing systems. This paper highlights a few challenges of workload consolidation for Hadoop as one…

Distributed, Parallel, and Cluster Computing · Computer Science 2016-11-15 Reza Moraveji , Javid Taheri , MohammadReza HosseinyFarahabady , Nikzad Babaii Rizvandi , Albert Y. Zomaya

Matlab is very widely used in scientific computing, but Matlab computational efficiency is lower than C language program. In order to improve the computing speed, some toolbox can use GPU to accelerate the computation. This paper describes…

Distributed, Parallel, and Cluster Computing · Computer Science 2015-05-26 Mingzhe Wang , Bo Wang , Qiu He , Xiuxiu Liu , Kunshuai Zhu

Join optimization has been dominated by Selinger-style, pairwise optimizers for decades. But, Selinger-style algorithms are asymptotically suboptimal for applications in graphic analytics. This suboptimality is one of the reasons that many…

Databases · Computer Science 2015-03-19 Dung Nguyen , Molham Aref , Martin Bravenboer , George Kollias , Hung Q. Ngo , Christopher Ré , Atri Rudra

The era of GPU-powered data analytics has arrived. In this paper, we argue that recent advances in hardware (e.g., larger GPU memory, faster interconnect and IO, and declining cost) and software (e.g., composable data systems and mature…

Matrix multiplication is a foundational operation in scientific computing and machine learning, yet its computational complexity makes it a significant bottleneck for large-scale applications. The shift to parallel architectures, primarily…

Distributed, Parallel, and Cluster Computing · Computer Science 2025-07-30 Mufakir Qamar Ansari , Mudabir Qamar Ansari

We study the performance of a cloud-based GPU-accelerated inference server to speed up event reconstruction in neutrino data batch jobs. Using detector data from the ProtoDUNE experiment and employing the standard DUNE grid job submission…

High Energy Physics - Experiment · Physics 2023-10-31 Tejin Cai , Kenneth Herner , Tingjun Yang , Michael Wang , Maria Acosta Flechas , Philip Harris , Burt Holzman , Kevin Pedro , Nhan Tran

GPUs in High-Performance Computing systems remain under-utilised due to the unavailability of schedulers that can safely schedule multiple applications to share the same GPU. The research reported in this paper is motivated to improve the…

Distributed, Parallel, and Cluster Computing · Computer Science 2017-12-14 Carlos Reano , Federico Silla , Dimitrios S. Nikolopoulos , Blesson Varghese

Graphics processing units (GPU) had evolved from a specialized hardware capable to render high quality graphics in games to a commodity hardware for effective processing blocks of data in a parallel schema. This evolution is particularly…

Distributed, Parallel, and Cluster Computing · Computer Science 2012-03-26 Luis Cabellos

In GPU-accelerated data analytics, the overhead of data transfer from CPU to GPU becomes a performance bottleneck when the data scales beyond GPU memory capacity due to the limited PCIe bandwidth. Data compression has come to rescue for…

Databases · Computer Science 2026-02-10 Gwangoo Yeo , Zhiyang Shen , Wei Cui , Matteo Interlandi , Rathijit Sen , Bailu Ding , Qi Chen , Minsoo Rhu

Spatial joins are among the most time-consuming spatial queries, remaining costly even in parallel and distributed systems. In this paper, we explore hardware acceleration for spatial joins by proposing SwiftSpatial, an FPGA-based…

Databases · Computer Science 2025-03-25 Wenqi Jiang , Oleh-Yevhen Khavrona , Martin Parvanov , Gustavo Alonso

Top-k selection, which identifies the largest or smallest k elements from a data set, is a fundamental operation in data-intensive domains such as databases and deep learning, so its scalability and efficiency are critical for these…

Data Structures and Algorithms · Computer Science 2025-01-28 Yifei Li , Bole Zhou , Jiejing Zhang , Xuechao Wei , Yinghan Li , Yingda Chen

The rapid growth of large-scale machine learning (ML) models has led numerous commercial companies to utilize ML models for generating predictive results to help business decision-making. As two primary components in traditional predictive…

Performance · Computer Science 2024-01-25 Wenbo Sun , Asterios Katsifodimos , Rihan Hai

Recent advances in graph databases (GDBs) have been driving interest in large-scale analytics, yet current systems fail to support higher-order (HO) interactions beyond first-order (one-hop) relations, which are crucial for tasks such as…

The recent improvements of graphics processing units (GPU) offer to the computer vision community a powerful processing platform. Indeed, a lot of highly-parallelizable computer vision problems can be significantly accelerated using GPU…

Computer Vision and Pattern Recognition · Computer Science 2008-04-10 Vincent Garcia , Eric Debreuve , Michel Barlaud

We present an implementation of the overlap-and-save method, a method for the convolution of very long signals with short response functions, which is tailored to GPUs. We have implemented several FFT algorithms (using the CUDA programming…

Mathematical Software · Computer Science 2022-11-08 Karel Adámek , Sofia Dimoudi , Mike Giles , Wesley Armour

Asynchronous tasks, when created with over-decomposition, enable automatic computation-communication overlap which can substantially improve performance and scalability. This is not only applicable to traditional CPU-based systems, but also…

Distributed, Parallel, and Cluster Computing · Computer Science 2022-03-23 Jaemin Choi , David F. Richards , Laxmikant V. Kale

Graphic Processing Units (GPUs) are getting increasingly important as target architectures in scientific High Performance Computing (HPC). NVIDIA established CUDA as a parallel computing architecture controlling and making use of the…

High Energy Physics - Lattice · Physics 2011-05-12 Frank Winter

The overwhelmingly increasing amount of stored data has spurred researchers seeking different methods in order to optimally take advantage of it which mostly have faced a response time problem as a result of this enormous size of data. Most…

Distributed, Parallel, and Cluster Computing · Computer Science 2014-02-18 H I Alzeini , Sh A Hameed , M H Habaebi