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Finite-difference methods based on high-order stencils are widely used in seismic simulations, weather forecasting, computational fluid dynamics, and other scientific applications. Achieving HPC-level stencil computations on one…
Cell segmentation in microscopy is a challenging problem, since cells are often asymmetric and densely packed. This becomes particularly challenging for extremely large images, since manual intervention and processing time can make…
High performance computing (HPC) systems underwent a significant increase in their processing capabilities. Modern HPC systems combine large numbers of homogeneous and heterogeneous computing resources. Scalability is, therefore, an…
The recently proposed panoptic segmentation task presents a significant challenge of image understanding with computer vision by unifying semantic segmentation and instance segmentation tasks. In this paper we present an efficient and novel…
With the growing complexity in architecture and the size of large-scale computing systems, monitoring and analyzing system behavior and events has become daunting. Monitoring data amounting to terabytes per day are collected by sensors…
The Segment Anything Model (SAM) has advanced interactive segmentation but is limited by the high computational cost on high-resolution images. This requires downsampling to meet GPU constraints, sacrificing the fine-grained details needed…
Modern imaging instruments can produce terabytes to petabytes of data for a single experiment. The biggest barrier to processing big image datasets has been computational, where image analysis algorithms often lack the efficiency needed to…
In recent years, it has become increasingly common for high performance computers (HPC) to possess some level of heterogeneous architecture - typically in the form of GPU accelerators. In some machines these are isolated within a dedicated…
The introduction of AI and ML technologies into medical devices has revolutionized healthcare diagnostics and treatments. Medical device manufacturers are keen to maximize the advantages afforded by AI and ML by consolidating multiple…
The substantial memory bandwidth and computational demands of large language models (LLMs) present critical challenges for efficient inference. To tackle this, the literature has explored heterogeneous systems that combine neural processing…
Numerical end-to-end simulation in Adaptive Optics (AO) is a key tool in the development of complex systems, from the initial design to the commissioning phase. Based on our previous experience with PASSATA, we decided to develop a new AO…
X-ray ptychography imaging at synchrotron facilities like the Advanced Photon Source (APS) involves controlling instrument hardwares to collect a set of diffraction patterns from overlapping coherent illumination spots on extended samples,…
Direct automatic segmentation of objects from 3D medical imaging, such as magnetic resonance (MR) imaging, is challenging as it often involves accurately identifying a number of individual objects with complex geometries within a large…
The attention layer, a core component of Transformer-based LLMs, brings out inefficiencies in current GPU systems due to its low operational intensity and the substantial memory requirements of KV caches. We propose a High-bandwidth…
Many hyperparameter optimization (HyperOpt) methods assume restricted computing resources and mainly focus on enhancing performance. Here we propose a novel cloud-based HyperOpt (CHOPT) framework which can efficiently utilize shared…
The FFT of three-dimensional (3D) input data is an important computational kernel of numerical simulations and is widely used in High Performance Computing (HPC) codes running on a large number of processors. Performance of many scientific…
Automatic medical image segmentation plays a critical role in scientific research and medical care. Existing high-performance deep learning methods typically rely on large training datasets with high-quality manual annotations, which are…
Medical image segmentation relies heavily on large-scale deep learning models, such as UNet-based architectures. However, the real-world utility of such models is limited by their high computational requirements, which makes them…
Computing with high-dimensional (HD) vectors, also referred to as $\textit{hypervectors}$, is a brain-inspired alternative to computing with scalars. Key properties of HD computing include a well-defined set of arithmetic operations on…
3D object part segmentation is essential in computer vision applications. While substantial progress has been made in 2D object part segmentation, the 3D counterpart has received less attention, in part due to the scarcity of annotated 3D…