Related papers: cubic: CUDA-accelerated 3D Bioimage Computing
We present a GPU-accelerated backend for QOCO, a C-based solver for quadratic objective second-order cone programs (SOCPs) based on a primal-dual interior point method. Our backend uses NVIDIA's cuDSS library to perform a direct sparse LDL…
An important topic in medical research is the process of improving the images obtained from medical devices. As a consequence, there is also a need to improve medical image resolution and analysis. Another issue in this field is the large…
Researchers manipulate and measure quantum processing units via the classical electronics control system. We developed an open-source FPGA-based quantum bit control system called QubiC for superconducting qubits. After a few years of qubit…
Medical image analysis plays a key role in precision medicine as it allows the clinicians to identify anatomical abnormalities and it is routinely used in clinical assessment. Data curation and pre-processing of medical images are critical…
The Euclid Quick Data Release 1 (Q1) encompasses 30 million sources across 63.1 square degrees, marking the beginning of petabyte-scale data delivery through Data Release 1 (DR1) and subsequent releases. Systematic exploitation of such…
Neurosymbolic AI is an emerging compositional paradigm that fuses neural learning with symbolic reasoning to enhance the transparency, interpretability, and trustworthiness of AI. It also exhibits higher data efficiency making it promising…
Our understanding of the physics of biological molecules, such as proteins and DNA, is limited because the approximations we usually apply to model inert materials are not in general applicable to soft, chemically inhomogeneous systems. The…
Quantum computing is a rapidly evolving field that enables exponential speed-up over classical algorithms. At the heart of this revolutionary technology are quantum circuits, which serve as vital tools for implementing, analyzing, and…
The challenge of replicating research results has posed a significant impediment to the field of molecular biology. The advent of modern intelligent systems has led to notable progress in various domains. Consequently, we embarked on an…
A large part of modern research, especially in the broad field of complex systems, relies on the numerical integration of PDEs, with and without stochastic noise. This is usually done with eiher in-house made codes or external packages like…
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,…
With the increase in Artificial Intelligence driven approaches, researchers are requesting unprecedented volumes of medical imaging data which far exceed the capacity of traditional on-premise client-server approaches for making the data…
Background and Objective. B-spline interpolation (BSI) is a popular technique in the context of medical imaging due to its adaptability and robustness in 3D object modeling. A field that utilizes BSI is Image Guided Surgery (IGS). IGS…
Reliable parameter extraction from experimental data is central to quantitative analysis in spectroscopy, diffraction, photoluminescence, chromatography, microscopy, and time-resolved measurements. We present FitED, a Python-based desktop…
Early hardware limitations of GPU (lack of synchronization primitives and limited memory caching mechanisms) can make GPU-based computation inefficient. Now Bio-technologies bring more chances to Bioinformatics and Biological Engineering.…
Immersed boundary methods (IBMs) facilitate the simulation of flows around stationary, moving, and deforming bodies on Cartesian grids. However, extending these simulations to the large grid sizes required for realistic flow problems…
A range of computational biology software (GROMACS, AMBER, NAMD, LAMMPS, OpenMM, Psi4 and RELION) was benchmarked on a representative selection of HPC hardware, including AMD EPYC 7742 CPU nodes, NVIDIA V100 and AMD MI250X GPU nodes, and an…
Rotation measure (RM) synthesis is a widely used polarization processing algorithm for reconstructing polarized structures along the line of sight. Performing RM synthesis on large datasets produced by telescopes like LOFAR can be…
For over two decades, image-based profiling has revolutionized cell phenotype analysis. Image-based profiling processes rich, high-throughput, microscopy data into thousands of unbiased measurements that reveal phenotypic patterns powerful…
We present the methodology of a photon-conserving, spatially-adaptive, ray-tracing radiative transfer algorithm, designed to run on multiple parallel Graphic Processing Units (GPUs). Each GPU has thousands computing cores, making them…