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SoftwareX
Scopus
ISSN 2352-7110 · Elsevier · 2,432 articles in the index
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Journal Article
multisphere: a Python implementation of the Multi Sphere Shape generator (MSS) for DEM simulations
multisphere is an open-source Python package for generating multi-sphere representations of complex particles for use in DEM simulations. It reconstructs triangulated surface meshes and voxelized volumes as sets of intersecting spheres and provides tools for evaluation, visualization, and export…
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Journal Article
Magboltz-GUI: a Python-based graphical user interface for Magboltz
Magboltz is widely used to compute electron transport properties in gas mixtures for detector applications. Its traditional text-based workflow, however, can be a barrier for routine use, especially to users who are not already familiar with the program. We present Magboltz-GUI, a Python-based…
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Journal Article
SeqTUI: A terminal-based viewer and command-line toolkit for molecular sequences
Large molecular sequence datasets are often processed on remote servers and within command-line pipelines, where using graphical viewers is inconvenient. SeqTUI provides a fast terminal-based viewer coupled with a command-line toolkit for routine operations on nucleotide and amino-acid sequences…
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Journal Article
Predicting fishing vs. not-fishing in small-scale fisheries: A sample vessel tracking dataset and a reproducible machine learning approachGitHub
Predicting fishing activity from vessel tracking data is crucial for quantifying fishing effort. This study addresses this challenge by classifying the fishing versus non-fishing activity status of small-scale vessels using passive gears, with a suite of different algorithms, ranging from basic…
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Journal Article
flexPTP: Precision time protocol implementation for microcontrollers
An ever-increasing ratio of real-time, distributed, embedded systems mandates precise time synchronization. Standard clock synchronization methods, such as the IEEE 1588 Precision Time Protocol, are available but their adaptation to low-power, microcontroller-based embedded systems is not quite…
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Journal Article
ObServML: Deployable Python application for compact and modular systems monitoring
ObservML enables the combination of training and deploying ML monitoring models within a single microservices-based system. Its application focuses on monitoring problems that can be solved with fault detection and isolation (FDI), time series analysis, and process mining through an…
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Journal Article
YOLIC labeling: A semi-automated image annotation tool with segment anything model for cell-wise labeling
We introduce YOLIC Labeling, a tool designed to streamline the creation of high-quality datasets for cell wise object localization and classification. This tool integrates the Segment Anything Model (SAM) with customizable cell configurations (predefined regions of interest within images) to offer…
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Journal Article
cIPMA: An R package for combined importance-performance map analysis
Combined importance–performance map analysis (cIPMA) extends partial least squares structural equation modeling (PLS-SEM) by integrating importance as sufficiency estimates with bottleneck diagnostics necessity thresholds from Necessary Condition Analysis (NCA). While conceptually powerful, the…
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Journal Article
SurVigilance: An application for accessing global pharmacovigilance data
Even though several publicly accessible pharmacovigilance databases are available, extracting data from them is a technically challenging process. Existing tools typically focus on a single database. We present SurVigilance, an open-source tool that streamlines the process of retrieving safety data…
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Journal Article
DGFS-BE Solver: An open-source Discontinuous Galerkin Fast Spectral Solver for the full Boltzmann equation
This paper introduces the DGFS-BE solver, an open-source Discontinuous Galerkin Fast Spectral solver designed to address the complexities of the Boltzmann equation, a fundamental equation in kinetic theory. The solver combines the Discontinuous Galerkin method for spatial discretization with fast…
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Journal Article
ElyteOS: Software for automated electrolyte preparation, measurement, and data management
ElyteOS is a graphical user interface written in Python 3.8.3 that enables the automation of the processes of electrolyte preparation, measurement, data storage, and data visualization. It provides a user-friendly interface and acts as a framework for automating lab equipment with different…
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Journal Article
Version 0.2.0 – TreeEyed: A QGIS plugin for tree monitoring in silvopastoral systems using state of the art AI models
TreeEyed was developed to facilitate tree monitoring in silvopastoral systems as an open source and easy to use QGIS Plugin that leverages state of the art AI models for tree detection, tree segmentation and canopy height estimation. Over six thousand downloads from >20 different countries from the…
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Journal Article
cationCalc4EPMA: A MATLAB-based open-source tool for reproducible cation calculations from EPMA datasets
Electron probe microanalysis (EPMA) provides precise chemical compositions of minerals, but transforming oxide weight percentages into cation-based formulas remains a critical and often irreproducible step in petrological workflows. We present cationCalc4EPMA, an open-source MATLAB tool that…
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Journal Article
MRAC-LLM Toolbox: An interactive model reference adaptive control enhanced with large language models
This paper presents the MRAC-LLM Toolbox, a MATLAB-based software that integrates classical Model Reference Adaptive Control (MRAC) with Large Language Model (LLM) assistance for interactive control system design. The software enables users to specify performance requirements through a graphical…
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Journal Article
BPMN graph transformation: A unified multi-format parser library for standardized graph-based business process model integration
Heterogeneous Business Process Model and Notation (BPMN) platforms present critical integration challenges, as approximately 75% of large enterprises employ multiple modeling tools lacking unified transformation capabilities. Existing solutions address only single-format conversions or provide…
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Journal Article
DUUIgateway: A web service for platform-independent, ubiquitous big data NLP
Distributed processing of unstructured text data is a challenge in the rapidly changing and evolving natural language processing (NLP) landscape. This landscape is characterized by heterogeneous systems, models, and formats, and especially by the increasing influence of AI systems. While many of…
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Journal Article
prismatools: An open-source Python package for accessing and analyzing PRISMA hyperspectral data
Hyperspectral remote sensing captures hundreds of contiguous, narrow spectral bands in the VNIR and SWIR ranges, enabling detailed analysis of vegetation, water quality, soil properties, and other environmental variables. prismatools is an open-source Python package that facilitates processing…
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Journal Article
Dropout insight: Educational risk dashboard with counterfactual explanations
The prediction and prevention of students at risk of dropout are two of the most important challenges in the educational domain. Although some commercial predictive tools support at-risk estimation and provide explanations of the associated factors, none of them offer recommendations to address or…
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Journal Article
A toolbox for real orthogonal polynomials
This paper presents an open-source, cross-platform toolbox for discrete orthogonal polynomials (DOPs), enabling their practical use in scientific computing and signal/image processing workflows. The proposed toolbox includes six DOP families: Hahn, Meixner, Charlier, Krawtchouk, Tchebichef, and…
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