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Single-cell sequencing technologies reveal cellular heterogeneity at high resolution, advancing our understanding of biological complexity. As datasets start to scale to tens of millions of cells, computational workflows face substantial…

I present a new GPU implementation of the wavelet tree data structure. It includes binary rank and select support structures that provide at least 10 times higher throughput of binary rank and select queries than the best publicly available…

Data Structures and Algorithms · Computer Science 2025-05-07 Marco Franzreb , Martin Burtscher , Stephan Rudolph

As in various fields like scientific research and industrial application, the computation time optimization is becoming a task that is of increasing importance because of its highly parallel architecture. The graphics processing unit is…

Performance · Computer Science 2017-10-18 Huichao Hong , Lixin Zheng , Shuwan Pan

Similarity search finds application in specialized database systems handling complex data such as images or videos, which are typically represented by high-dimensional features and require specific indexing structures. This paper tackles…

Computer Vision and Pattern Recognition · Computer Science 2018-06-07 Jeff Johnson , Matthijs Douze , Hervé Jégou

We implement a quantum optimal control algorithm based on automatic differentiation and harness the acceleration afforded by graphics processing units (GPUs). Automatic differentiation allows us to specify advanced optimization criteria and…

Quantum Physics · Physics 2017-04-19 Nelson Leung , Mohamed Abdelhafez , Jens Koch , David I. Schuster

GPUs are popular devices for accelerating scientific calculations. However, as GPU code is usually written in low-level languages, it breaks the abstractions of high-level languages popular with scientific programmers. To overcome this, we…

Distributed, Parallel, and Cluster Computing · Computer Science 2016-04-13 Tim Besard , Pieter Verstraete , Bjorn De Sutter

In the past few years, General Purpose Graphics Processors (GPUs) have been used to significantly speed up numerous applications. One of the areas in which GPUs have recently led to a significant speed-up is model checking. In model…

Distributed, Parallel, and Cluster Computing · Computer Science 2017-12-29 Nathan Cassee , Anton Wijs

The past decade has witnessed a dramatic acceleration of lattice quantum chromodynamics calculations in nuclear and particle physics. This has been due to both significant progress in accelerating the iterative linear solvers using…

High Energy Physics - Lattice · Physics 2016-12-26 M. A. Clark , Bálint Joó , Alexei Strelchenko , Michael Cheng , Arjun Gambhir , Richard Brower

The computational power of High-Performance Computing (HPC) systems is constantly increasing, however, their input/output (IO) performance grows relatively slowly, and their storage capacity is also limited. This unbalance presents…

Graphics Processing Units (GPUs) were once used solely for graphical computation tasks but with the increase in the use of machine learning applications, the use of GPUs to perform general-purpose computing has increased in the last few…

Hardware Architecture · Computer Science 2021-02-16 Asim Ikram , Muhammad Awais Ali , Mirza Omer Beg

GPUs are broadly used in I/O-intensive big data applications. Prior works demonstrate the benefits of using GPU-side file system layer, GPUfs, to improve the GPU performance and programmability in such workloads. However, GPUfs fails to…

Distributed, Parallel, and Cluster Computing · Computer Science 2021-09-14 Vasilis Dimitsas , Mark Silberstein

3D Gaussian Splatting has gained widespread adoption across diverse applications due to its exceptional rendering performance and visual quality. While most existing methods rely on rasterization to render Gaussians, recent research has…

Graphics · Computer Science 2026-01-29 Junseo Lee , Sangyun Jeon , Jungi Lee , Junyong Park , Jaewoong Sim

The advent of hardware ray tracing (RT) units has brought unprecedented realism to real-time rendered computer graphics. However, the potential of these units extends beyond graphics, offering acceleration for various computational tasks…

Hardware Architecture · Computer Science 2025-05-22 Fangjia Shen , Aaron Barnes , Anusuya Nallathambi , Timothy G. Rogers

Graphics Processing Units (GPUs) are high performance co-processors originally intended to improve the use and quality of computer graphics applications. Once, researchers and practitioners noticed the potential of using GPU for general…

Numerical Analysis · Computer Science 2016-07-12 K. Parand , Saeed Zafarvahedian , Sayyed A. Hossayni

Text analytics directly on compression (TADOC) has proven to be a promising technology for big data analytics. GPUs are extremely popular accelerators for data analytics systems. Unfortunately, no work so far shows how to utilize GPUs to…

Databases · Computer Science 2021-06-15 Feng Zhang , Zaifeng Pan , Yanliang Zhou , Jidong Zhai , Xipeng Shen , Onur Mutlu , Xiaoyong Du

A recent trend in real-time rendering is the utilization of the new hardware ray tracing capabilities. Often, usage of a distance field representation is proposed as an alternative when hardware ray tracing is deemed too costly, and the two…

Graphics · Computer Science 2023-05-15 Pieterjan Bartels , Takahiro Harada

The complex regulatory dynamics of a biological network can be succinctly captured using discrete logic models. Given even sparse time-course data from the system of interest, previous work has shown that global optimization schemes are…

Molecular Networks · Quantitative Biology 2026-04-22 Joyce Reimer , Pranta Saha , Chris Chen , Neeraj Dhar , Brook Byrns , Steven Rayan , Gordon Broderick

Developing high performance embedded vision applications requires balancing run-time performance with energy constraints. Given the mix of hardware accelerators that exist for embedded computer vision (e.g. multi-core CPUs, GPUs, and…

Computer Vision and Pattern Recognition · Computer Science 2019-07-01 Murad Qasaimeh , Kristof Denolf , Jack Lo , Kees Vissers , Joseph Zambreno , Phillip H. Jones

Cloud database systems, particularly their middleware and query execution layers, use sorting as a core operation in query processing, indexing and join execution. Distribution-dependence and limited parallelism are key issues inherent in…

Distributed, Parallel, and Cluster Computing · Computer Science 2026-05-13 Michael Dang'ana

Modern Graphics Processing Units (GPUs) are well provisioned to support the concurrent execution of thousands of threads. Unfortunately, different bottlenecks during execution and heterogeneous application requirements create imbalances in…