SoftwareX

Article	Citations
An open-source parallel topology optimization framework based on unstructured 3D FEA using PETSc and Eigen	180
ReflectDetect: A software tool for AprilTag-guided in-flight radiometric calibration for UAV-mounted 2D snapshot multi-camera imagery	160
Update (3.0) to LyapXool: Quadratic programming	135
FMD: A parallel library for performing classical molecular dynamics simulations	114
FIDWaC - Fast inverse distance weighting and compression	104
Tab2KGWiz: Interactive assistant for mapping tabular data to knowledge graphs	69
XR4MCR: Multiplayer collaborative robotics maintenance training platform in extended reality	69
Editorial Board	64
ResoFox: A GUI-based tool for calculating resolution and relative intensity of neutron powder diffractometers	55
CacheSim: A cache simulation framework for evaluating caching algorithms on resource-constrained edge devices	44
TD-COF: A new method for detecting tandem duplications in next generation sequencing data	37
BOXVIA: Bayesian optimization executable and visualizable application	35
MyAphasia: A mobile application for the treatment of Aphasia in a hospital environment	35
AURA: An Adaptive Utility Ranking Algorithm for Multi-Criteria Decision Making with Python-based decision support interface	35
10StepsinExcelforWoS: Streamlining bibliometric analysis in web of science using Microsoft excel	34
HOST: Harmonic oscillator seasonal-trend model for analyzing the reoccurring nature of extreme events	34
STUDIO: A Python graphical tool for analyzing street user observations from video data	32
Exploiting Simu5G for generating datasets for training and testing AI models for 5G/6G network applications	32
Saihu: A common interface of worst-case delay analysis tools for time-sensitive networks	32
CNV-Z; a new tool for detecting copy number variation in next generation sequencing data	31
An application for solving minimization problems using the Harmony search algorithm	31
Q-Facies: A tool for the quantitative interpretation of groundwater hydrochemical facies	30
McDAPS: A multi-channel physiological signals display and analysis system for clinical researchers	29
Version [1.1]- [Handling decision-making in intuitionistic fuzzy environment: PyIFDM package]	28
MAWA: Enhancing mobile web browsing through web augmentation for improved user experience	28

EvalNE: A framework for network embedding evaluation	27
Web-based surface plasmon resonance signal processing system for fast analyte analysis	26
OpenIPDM: A probabilistic framework for estimating the deterioration and effect of interventions on bridges	26
An open-source application software to determine the preconsolidation pressure of soils in incremental loading oedometer testing: pySigmaP	26
I-STL2MOOSE: From STL data to integrated volumetrical meshes for MOOSE	25
UQpy Version 4.2: Uncertainty quantification with Python	25
juSPH: A Julia-based open-source package of parallel Smoothed Particle Hydrodynamics (SPH) for dam break problems	25
NCC: An R-package for analysis and simulation of platform trials with non-concurrent controls	25
SACETraj: An AutoCAD Catmull-Rom Spline Trajectory Interpolator	25
SST v1.0.0 with C API: Pluggable security solution for the Internet of Things	25
The SiLA 2 Manager for rapid device integration and workflow automation	24
FS-Studio: An extensive and efficient feature selection experimentation tool for Weka Explorer	24
IDOL: A web application for mixed integer linear multiobjective optimization	23
clickR: Semi-automatic pre-processing of messy data with change tracking for integral dataset cleaning	22
Muscle fatigue monitoring and analysis system: Myosense	22
DSIPTS: A high productivity environment for time series forecasting models	22
TROVA: TRansport Of water VApor	22
XCompress: LLM assisted Python-based text compression toolkit	22
BiometricIdentity dApp: Decentralized biometric authentication based on fuzzy commitment and blockchain	22
CensSpatial: An R package for estimation and diagnostics in spatial censored regression models	21
Version 1.1.1 - TROVA: TRansport Of water VApor	20
BioEmoDetector: A flexible platform for detecting emotions from health narratives	20
Version 2 — RPExpand: Software for Riesz projection expansion of resonance phenomena	20
DataMetProcess: An open-source package and Shiny application for the acquisition and processing of meteorological data from INMET	20
TimeAwareBPMN-js: An editor and temporal verification tool for Time-Aware BPMN processes	20
ScoreREM: A user-friendly Matlab-GUI for rapid eye movement (REM) sleep microstructure (Phasic/Tonic) annotation and quantification	20
GetSensorData: An extensible Android-based application for multi-sensor data registration	20
GenSDF: An MPI-Fortran based signed-distance-field generator for computational fluid dynamics applications	19
SolarQGIS: A QGIS application for calculating solar radiation on 3D vector GIS data	19
T-Ridership: A web tool for reprogramming public transportation fleets to minimize COVID-19 transmission	19
AMBER: Algorithm for Multiplexing spectrometer Background Estimation with Rotation-independence	19
Version [2.0] — [pyMCMA: Uniformly distributed Pareto-front representation]	19
pyMechOpt: A Python toolbox for optimizing of reaction mechanisms	19
SpinGlassPEPS.jl: Tensor-network package for Ising-like optimization on quasi-two-dimensional graphs	19
DAUD: A data driven algorithm to find discrete approximations of unknown continuous distributions	18
Climatrix: Xarray accessor for climate data sampling and reconstruction	18
Flow-models 2.0: Elephant flows modeling and detection with machine learning	18
REFRAME–A software framework for managing reactive dependencies in object-oriented applications	17
A covariate software tool to guide test activity allocation	17
WITio: A MATLAB data evaluation toolbox to script broader insights into big data from WITec microscopes	17
Kunai: A static analysis framework for Android apps	17
The StaDyn programming language	16
NUCLEUS – A Matlab-based graphical user interface for forward and inverse modelling of NMR relaxometry data	16
LitOrganizer: Automating the process of data extraction and organization for scientific literature reviews	16
VEqMon2D—Equations of motion generation tool of 2D vehicles with Matlab	16
QuITO: Numerical software for constrained nonlinear optimal control problems	16
Turn+: A MATLAB-based software for dynamic turning, chatter analysis, and surface roughness prediction	16
HAMLET: A modular agent-based Python framework for energy markets and systems	15
MFPP: Matrix-based flexible project planning	15
ShakerMaker: A framework that simplifies the simulation of seismic ground-motions	15

pyRuleAnalyzer: A python package for enhancing decision rules in tree-based machine learning models	15
DFT-MF: Enhanced deepfake detection using mouth movement and transfer learning	14
PNW-Cnet v4: Automated species identification for passive acoustic monitoring	14
clusEvol: An R package for Cluster Evolution Analytics	14
Phenoflow-ML: A next-generation phenotyping framework to capture ML-based phenotypes	14
EnMAP-Box: Imaging spectroscopy in QGIS	14
Rcall: An R interface for MATLAB	14
GraphXplore: Visual exploration and accessible preprocessing of medical data	14
E2	14
MALVADA: A framework for generating datasets of malware execution traces	14
BBR: An open-source standard workflow based on biophysical crop parameters for automatic Botrytis cinerea assessment in vineyards	14
Spectrally regularised LVMs: A spectral regularisation framework for latent variable models designed for single-channel applications	14
A C++17 thread pool for high-performance scientific computing	13
Floodsar: Automatic mapping of river flooding extent from multitemporal SAR imagery	13
PyQBench: A Python library for benchmarking gate-based quantum computers	13
ModelicaGridData: Massive power system simulation data generation and labeling tool using Modelica and Python	13
ShinyGAStool: A user-friendly tool for candidate gene association studies	13
Version v2.0.0 — Reinforced-lib: Rapid prototyping of reinforcement learning solutions	13
PLATFORM: Parallel Linear Algebra Tool FOr Reduced Modeling	13
MobiScout: A scalable cloud-based driving and activity monitoring platform featuring an IOS app and a WatchOS extension	13
Masked-Piper: Masking personal identities in visual recordings while preserving multimodal information	12
MitoSeg: Mitochondria segmentation tool	12
P2PFaaS: A framework for FaaS peer-to-peer scheduling and load balancing in Fog and Edge computing	12
xkl: A legacy software for detailed acoustic analysis of speech made modern	12
Version 2.0.0 - M-SPARC: Matlab-Simulation Package for Ab-initio Real-space Calculations	12
Spec2chat: A Python library for task-oriented dialogue generation from OpenAPI specifications	12
PyCinemetrics: Computational film studies tool based on deep learning and PySide2	12
TrAQ: A novel, versatile, semi-automated, two-dimensional motor behavioural tracking software	12
Version [7.1] – [IV-PSNR: Software for immersive video objective quality evaluation]	12
Development of an ABAQUS™ plug-in for predicting composite plates stiffness with in-plane periodicity	12
JGMP: Java bindings and wrappers for the GMP library	12
pyBaram: Parallel compressible flow solver in high-performance Python for teaching and research	12
EBAT: Evaluation of Behavioural Authentication Toolbox	12
WireGuard-AES: Hardware based encryption to WireGuard for VPN gateways	12
QPPLab: A generally applicable software package for detecting, analyzing, and visualizing large-scale quasiperiodic spatiotemporal patterns (QPPs) of brain activity	12
Diagnostic Expert Advisor: A platform for developing machine learning models on medical time-series data	12
Ordinalysis: Interpretability of multidimensional ordinal data	12
MorphoGen: Topology optimization software for Extremely Modular Systems	12
NER-FAM: Named entity recognition with faceted aggregation for multimedia web search engines	12
TeDDy: Templated decision diagram library	11
Pynblint: A quality assurance tool to improve the quality of Python Jupyter notebooks	11
Streetscape morphometrics: Expanding momepy to analyze urban form from the street point of view	11
Gdistns: R package for maximum goodness-of-fit estimates of the generalized G distributions	11
PATSMA: Parameter Auto-tuning for Shared Memory Algorithms	11
Causal ML: Python package for causal inference machine learning	11
HITS: Hyperplanes intersection tabu search for maximum score estimation	11
ZEN-garden: Optimizing energy transition pathways with user-oriented data handling	11
APLOSE: A web-based annotation platform for underwater passive acoustic monitoring	11
RIPN: A tool for implementing cyber-physical systems by using interpreted Petri Nets and teleo-reactive programs	11
Compression of triangulated solids’ surfaces by Decimating Reconstructable Triangles	11
Corrigendum to “RAVSim v2.0: Enhanced visualization and comparative analysis for neural network models” [SoftwareX volume 29, February 2025 Article Number: 102006]	10
GSITK: A sentiment analysis framework for agile replication and development	10
Emipy: An open-source Python-based tool to analyze industrial emissions in Europe	10
DigiRhythm: An R package for evaluating circadian rhythmicity in animals using the degree of functional coupling	10
Binary complex amplitude application: An all-in-one Matlab application for the advanced laser beam shaping with digital micromirror device	10
Atlantic cod growth model: Open source Python package for numerical growth experiments	10
India Policy Insights: A geospatial and temporal data science and visualization platform and architecture	10
TSSEARCH: Time Series Subsequence Search Library	10
Version [1.1]—[MSAT: Matrix stability analysis tool for shock-capturing schemes]	10
REMLA: An R package for robust expectation-maximization estimation for latent variable models	10
SimViz: Interactive visualizations to analyze similarity measures	10
Performing highly efficient Minima Hopping structure predictions using the Atomic Simulation Environment (ASE)	10
ArcNLET-Py: An ArcGIS-based nitrogen load estimation toolbox developed using python for ArcGIS pro	10
Decidim.viz: A data dashboard prototype for a digital democracy platform	10
ScaFi: A Scala DSL and Toolkit for Aggregate Programming	10
Docker Unified UIMA Interface: New perspectives for NLP on big data	10
DroneTimeline: Forensic timeline analysis for drones	10
STM: A software tool for predicting daily temperature in stored animal slurry	9
SimilarityTS: Toolkit for the evaluation of similarity for multivariate time series	9
pyMeshFOAM: Automated meshing for CFD and fluid–structure simulations	9
EMDLAB: An open-source finite element package for electromagnetic analysis of electrical machines	9
3TM: Software for the 3-Tau Model	9
TraClets: A trajectory representation and classification library	9
gosset: An R package for analysis and synthesis of ranking data in agricultural experimentation	9
Simplify: A Python library for optimizing pruned neural networks	9
Modelling biocontrol of invasive insects using WaspSim: A MATLAB simulation model	9
IPv6CC: IPv6 covert channels for testing networks against stegomalware and data exfiltration	9
libcommute/pycommute: A quantum operator algebra domain-specific language and exact diagonalization toolkit	9
An open-source toolbox for curvature capture in porous media	9
SmarTS: A Java package for smart contract test suite generation and execution	9

CellRex: Software platform for managing biological cell data	9
Power TAC: Software architecture for a competitive simulation of sustainable smart energy markets	9
Gideon Replay: A library to replay interactions in web-applications	9
FLAGR: A flexible high-performance library for rank aggregation	9
“dynmix”: An R package for the estimation of dynamic finite mixtures	9
OpenLSA: An open-source toolbox for computing full-field displacements from images of periodic patterns	9
Geospatial Analytics Extension for KNIME	9
Scymol: A python-based software package for initializing and running molecular dynamics simulations using LAMMPS	9
Cyberattack detection through GPML: Graph Processing for Machine Learning	9
Version [2.0] - [VIC-Borg: Multiobjective automatic calibration toolkit for VIC model]	8
PCAfold 2.0—Novel tools and algorithms for low-dimensional manifold assessment and optimization	8
3.0 - MOOSE: Enabling massively parallel multiphysics simulations	8
SWANe: Standardized workflow for advanced neuroimaging in epilepsy	8
quicR: An R library for streamlined data handling of real-time quaking induced conversion assays	8
tsdownsample: High-performance time series downsampling for scalable visualization	8
Corrigendum to “pyLAIS: A Python package for Layered Adaptive Importance Sampling” [SoftwareX 29 (2025), 101976]	8
Leveraging OpenSimMPLS: A simulation platform for GoS/MPLS networks in research and education	8
PickShift: A user-friendly Python tool to assess the surficial uncertainties associated with polygons extracted from historical planimetric data	8
Climaticpark-py - A python framework for the climatic simulation of vehicular parking lots	8
PyBanshee version (1.0): A Python implementation of the MATLAB toolbox BANSHEE for Non-Parametric Bayesian Networks with updated features	8
svds-C: A multi-thread C code for computing truncated singular value decomposition	8
Version [1.1.0]- [DLDiagnosis: A mobile and web application for diseases classification using Deep Learning]	8
〈	8
RINEXAV: GNSS global network selection open-source software based on qualitative analysis of RINEX files	8
Population potential on catchment area (PPCA): A Python-based tool for worldwide geospatial population analysis	8
FuzConvSteganalysis: Steganalysis via fuzzy logic and convolutional neural network	8
RAVSim v2.0: Enhanced visualization and comparative analysis for neural network models	8
Corrigendum to “LFG: An easy-to-use realistic synthetic LandFill Generator” [Software X Volume 28, December 2024, 101936]	8
VERONA: A python library for benchmarking deep learning in business process monitoring	8
Neutrostat: An R package for neutrosophic statistical models	7
HETOOL: A Half-Edge Topological Object-Oriented Library for generic 2-D geometric modeling	7
Update 2.5 to “Takin: An open-source software for experiment planning, visualisation, and data analysis”, (PII: S2352711016300152)	7
Yekta: A low-code framework for automated test models generation	7
A computerized tool for the kinematic limit analysis of 2D masonry structures failing on a tilting table	7
Traffic weaver: Semi-synthetic time-varying traffic generator based on averaged time series	7
KneeBones3Dify: Open-source software for segmentation and 3D reconstruction of knee bones from MRI data	7
OSLiFe-DiSC: Open source licenses discovering, selecting and comparing	7
Robustimizer: A graphical user interface application for efficient uncertainty quantification, robust optimization, and reliability-based optimization of processes and designs	7
SOLDIER: SOLution for Dam behavior Interpretation and safety Evaluation with boosted Regression trees	7
pyJSON Schema Loader and JSON Editor: A tool for file-based metadata management	7
Observer: An open-source framework for automating spectator for Real-time Strategy game of StarCraft	7
FCM-VSS: An AI powered secured fuzzy cognitive maps management toolkit for visualization, simulation and summarization	7
End to end navigation stack for nuclear power plant inspection with mobile robot	7
qNoise: A generator of non-Gaussian colored noise	7
MicEMD: Open-source toolbox for electromagnetic modeling, inversion, and classification in underground metal target detection	7
Version [	7
CtrlAer: Programmable real-time execution of scientific experiments using a domain specific language for the Raspberry Pi Pico/Pico 2	7
Fast parallel calculation of modified Bessel function of the second kind and its derivatives	7
Computing Continuum Simulator: A comprehensive framework for continuum architecture evaluation	7
Version [1.0]- HAT-VIS — A MATLAB-based hypergraph visualization tool	7
IST-ROS: A flexible object segmentation and tracking framework for robotics applications	7
MaSMaker: An open-source, portable software to create and integrate maze-like surfaces into arbitrary geometries	7
OpenPLC61850: An IEC 61850 MMS compatible open source PLC for smart grid research	7
Grain2mesh: A Python and cubit mesh generator from unprocessed mesoscale images	7
refellips: A Python package for the analysis of variable angle spectroscopic ellipsometry data	7
PlatformCommander — An open source software for an easy integration of motion platforms in research laboratories	7
OpenTEPES: Open-source Transmission and Generation Expansion Planning	7
Editorial Board	7
ASSUME: An agent-based simulation framework for exploring electricity market dynamics with reinforcement learning	7
3DRSP: Matlab-based random sphere packing code in three dimensions	7
robustDEA: A Java library for robust efficiency analysis	7
pymetamodels: A Python package for metamodeling and design automation	7
Data4Land: How to enrich land-use/land-cover with historical vector(s)	7
Hyperomet: An OpenSees interface for nonlinear analysis of unreinforced masonry buildings	7
TremorSoft: An decision support application for differential diagnosis between Parkinson’s disease and essential tremor	7
LeXInt: GPU-accelerated exponential integrators package	6
TFM: An R package for truncated factor model	6
Image2DEM: A geometrical digital twin generator for the detailed structural analysis of existing masonry infrastructure stock	6
HARD: A performance portable radiation hydrodynamics code based on FleCSI framework	6
TermX: The semantic interoperability, knowledge management and sharing platform	6
Version 2.0 – “DYNAblast – A software to obtain the behavior of composite laminated plates subjected to blast loads”	6
Daily Video: A tool for quality of experience (QoE) in long-term context research	6
AKFruitYield: Modular benchmarking and video analysis software for Azure Kinect cameras for fruit size and fruit yield estimation in apple orchards	6
EmintWeb: Creation of embedded web applications in C++ for specific systems	6
Wave-DNA: A software tool for simulating nonlinear acoustic waves emitted by moving boundaries	6
tx2_fcnn_node: An open-source ROS compatible tool for monocular depth reconstruction	6
PhaFiDyn: An explicit dynamic phase field damage model implementation	6
JuBat: A Julia-based framework for battery modelling using finite element method	6
CellularAutomataLib: 1D–3D cellular automata models in Modelica	6
APOTHEOSIS: An efficient approximate similarity search system	6
JaxSGMC: Modular stochastic gradient MCMC in JAX	6
Roborueda: Python-based GUI to control a wheelchair and monitor user posture	6
Hydrogen Permeation and Absorption Tool (HyPAT v2.0): An update to facilitate analyses of data from hydrogen absorption experiments	6
A directed greybox fuzzing tool for continuous integration	6
A new approach for drone tracking with drone using Proximal Policy Optimization based distributed deep reinforcement learning	6
Version [1.2]- [pyrepo-mcda - Reference Objects based MCDA Software Package]	6
RPaSDT—Rumor Propagation and Source Detection Toolkit	6
Identifying safety–critical concerns in unmanned aerial vehicle software platforms with SALIENT	6
Version 2.5 - TOUGH2Viewer 2.0: A multiplatform tool for fully 3D Voronoi TOUGH grids	6
DeepWealth: A generalizable open-source deep learning framework using satellite images for well-being estimation	6
TreeSim: An object-oriented individual tree simulator and 3D visualization tool in Python	6
WACline: A Software Product Line to harness heterogeneity in Web Annotation	6
PYCASO: Python module for calibration of cameras by Soloff’s method	6
Version [1.1]- [Crispyn — A Python library for determining criteria significance with objective weighting methods]	6
Matlatzinca: A PyBANSHEE-based graphical user interface for elicitation of non-parametric Bayesian networks from experts	6