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This article introduces WebXAII, an open-source web framework designed to facilitate research on human interaction with eXplainable Artificial Intelligence (XAI) systems. The field of XAI is rapidly expanding, driven by the growing societal…
GEANT4 is a particle physics simulation tool used to develop and optimize radiation detectors. While C++ based examples exist, Python's growing popularity necessitates the development of a more accessible Python bindings interface. This…
Multiple data views measured on the same set of participants is becoming more common and has the potential to deepen our understanding of many complex diseases by analyzing these different views simultaneously. Equally important, many of…
As camera pixel arrays have grown larger and faster, and optical microscopy techniques ever more refined, there has been an explosion in the quantity of data acquired during routine light microcopy. At the single-molecule level, analysis…
Co-simulation is commonly used for the analysis of complex cyber-physical energy systems (CPES). Different domain-specific simulation tools and modeling approaches are used to simulate all or parts of the system. The co-simulation framework…
Classical simulations of protein flexibility remain computationally expensive, especially for large proteins. A few years ago, we developed a fast method for predicting protein structure fluctuations that uses a single protein model as the…
Multiscale models provide a unique tool for studying complex processes that study events occurring at different scales across space and time. In the context of biological systems, such models can simulate mechanisms happening at the…
The ever-increasing quality and complexity of astronomical data underscores the need for new and powerful data analysis applications. This need has led to the development of Sherpa, a modeling and fitting program in the CIAO software…
This paper presents the design of InterPSS simulation engine, including its object model, open software architecture, and software development process. Several advanced applications, including an integrated transmission and distribution…
The enabling of scientific experiments that are embarrassingly parallel, long running and data-intensive into a cloud-based execution environment is a desirable, though complex undertaking for many researchers. The management of such…
Cyber Physical Systems (CPS) are the conjoining of an entities' physical and computational elements. The development of a typical CPS system follows a sequence from conceptual modeling, testing in simulated (virtual) worlds, testing in…
The advancement of machine learning and the availability of large-scale reaction datasets have accelerated the development of data-driven models for computer-aided synthesis planning (CASP) in the past decade. Here, we detail the newest…
Applications integrating analysis components require a programmable interface which defines statistical operations independently of any programming language. By separating concerns of scientific computing from application and implementation…
When designing new web applications, developers must cope with different kinds of constraints relative to the resources they rely on: software, hardware, network, online micro-services, or any combination of the mentioned entities.…
Raman spectroscopy is a non-destructive and label-free chemical analysis technique, which plays a key role in the analysis and discovery cycle of various branches of science. Nonetheless, progress in Raman spectroscopic analysis is still…
Tomographic imaging has benefited from advances in X-ray sources, detectors and optics to enable novel observations in science, engineering and medicine. These advances have come with a dramatic increase of input data in the form of faster…
Bio-inspired neural networks have the potential to advance our understanding of neural computation and improve the state-of-the-art of AI systems. Bio-electrical synapses directly transmit neural signals, by enabling fast current flow…
The reproducibility issue in science has come under increased scrutiny. One consistent suggestion lies in the use of scripted methods or workflows for data analysis. Image analysis is one area in science in which little can be done in…
Simflowny is an open platform which automatically generates parallel code of scientific dynamical models for different simulation frameworks. Here we present major upgrades on this software to support an extended set of families of models,…
Behavioral studies using personal digital devices typically produce rich longitudinal datasets of mixed data types. These data provide information about the behavior of users of these devices in real-time and in the users' natural…