Related papers: BeatBox - HPC Simulation Environment for Biophysic…

LibBi is a software package for state-space modelling and Bayesian inference on modern computer hardware, including multi-core central processing units (CPUs), many-core graphics processing units (GPUs) and distributed-memory clusters of…

ECGSYN, a dynamical model that faithfully reproduces the main features of the human electrocardiogram (ECG), including heart rate variability, RR intervals and QT intervals is presented. Details of the underlying algorithm and an…

We present FabSim, a toolkit developed to simplify a range of computational tasks for researchers in diverse disciplines. FabSim is flexible, adaptable, and allows users to perform a wide range of tasks with ease. It also provides a…

Most particle induced X-ray emission (PIXE) data analysis codes are not focused on handling multilayered samples. We have developed an open-source library called "LibCPIXE", for PIXE data analysis. It is written in standard C and implements…

Medical image computing software is essential for identifying imaging biomarkers that can support diagnosis, prognosis, treatment planning, and clinical research. However, the lack of standardized, user-friendly, and reproducible software…

Palabos-npFEM is a computational framework for the simulation of blood flow with fully resolved constituents. The software resolves the trajectories and deformed state of blood cells, such as red blood cells and platelets, and the complex…

We introduce CircuitQ, an open-source toolbox for the analysis of superconducting circuits implemented in Python. It features the automated construction of a symbolic Hamiltonian of the input circuit and a dynamic numerical representation…

Computer-based simulations of non-invasive cardiac electrical outputs, such as electrocardiograms and body surface potential maps, usually entail severe computational costs due to the need of capturing fine-scale processes and to the…

We present Qibo, a new open-source software for fast evaluation of quantum circuits and adiabatic evolution which takes full advantage of hardware accelerators. The growing interest in quantum computing and the recent developments of…

This study focuses on the connection of a development kit that enables real-time monitoring of electrocardiogram (ECG) signals using a mobile system. A software developed on the Visual Studio .NET platform reads real-time ECG signals from…

In this paper, we present BIMS (Biomedical Information Management System). BIMS is a software architecture designed to provide a flexible computational framework to manage the information needs of a wide range of biomedical research…

Variations in High Performance Computing (HPC) system software configurations mean that applications are typically configured and built for specific HPC environments. Building applications can require a significant investment of time and…

In this paper, we present MASTISK (MAchine-learning and Synaptic-plasticity Technology Integrated Simulation frameworK). MASTISK is an open-source versatile and flexible tool developed in MATLAB for design exploration of dedicated…

The Herzberg Extensible Adaptive optics Real-Time Toolkit (HEART) is a complete framework written in C and Python for building next-generation adaptive optics (AO) system real-time controllers, with the performance needed for extremely…

The high-performance computing (HPC) community has recently seen a substantial diversification of hardware platforms and their associated programming models. From traditional multicore processors to highly specialized accelerators, vendors…

Quantum optimal control includes the family of pulse-shaping algorithms that aim to unlock the full potential of a variety of quantum technologies. Our Quantum Optimal Control Suite (QuOCS) unites experimental focus and model-based…

Brain-Computer Interface(BCI) systems support communication through direct measures of neural activity without muscle activity. Brain-Computer Interface systems need to be validated in long-term studies of real-world use by people with…

The numerical tools to simulate the bidomain model in cardiac electrophysiology are constantly developing due to the great clinical interest and scientific advances in mathematical models and computational power. The bidomain model consists…

Background: Model-based analysis of movements can help better understand human motor control. Here, the models represent the human body as an articulated multi-body system that reflects the characteristics of the human being studied.…

Cardiac fluid dynamics fundamentally involves interactions between complex blood flows and the structural deformations of the muscular heart walls and the thin, flexible valve leaflets. There has been longstanding scientific, engineering,…