SoftwareX

Article	Citations
EvalNE: A framework for network embedding evaluation	170
An open-source parallel topology optimization framework based on unstructured 3D FEA using PETSc and Eigen	154
ReflectDetect: A software tool for AprilTag-guided in-flight radiometric calibration for UAV-mounted 2D snapshot multi-camera imagery	125
Version [1.1]- [Handling decision-making in intuitionistic fuzzy environment: PyIFDM package]	99
Update (3.0) to LyapXool: Quadratic programming	91
FMD: A parallel library for performing classical molecular dynamics simulations	67
Q-Facies: A tool for the quantitative interpretation of groundwater hydrochemical facies	67
Tab2KGWiz: Interactive assistant for mapping tabular data to knowledge graphs	61
OpenIPDM: A probabilistic framework for estimating the deterioration and effect of interventions on bridges	59
XR4MCR: Multiplayer collaborative robotics maintenance training platform in extended reality	53
Editorial Board	41
ResoFox: A GUI-based tool for calculating resolution and relative intensity of neutron powder diffractometers	37
IDOL: A web application for mixed integer linear multiobjective optimization	35
FS-Studio: An extensive and efficient feature selection experimentation tool for Weka Explorer	34
Web-based surface plasmon resonance signal processing system for fast analyte analysis	32
TD-COF: A new method for detecting tandem duplications in next generation sequencing data	32
I-STL2MOOSE: From STL data to integrated volumetrical meshes for MOOSE	32
The SiLA 2 Manager for rapid device integration and workflow automation	32
Exploiting Simu5G for generating datasets for training and testing AI models for 5G/6G network applications	30
juSPH: A Julia-based open-source package of parallel Smoothed Particle Hydrodynamics (SPH) for dam break problems	29
SST v1.0.0 with C API: Pluggable security solution for the Internet of Things	29
SACETraj: An AutoCAD Catmull-Rom Spline Trajectory Interpolator	29
HOST: Harmonic oscillator seasonal-trend model for analyzing the reoccurring nature of extreme events	29
CacheSim: A cache simulation framework for evaluating caching algorithms on resource-constrained edge devices	29
STUDIO: A Python graphical tool for analyzing street user observations from video data	28

BOXVIA: Bayesian optimization executable and visualizable application	28
MAWA: Enhancing mobile web browsing through web augmentation for improved user experience	27
Saihu: A common interface of worst-case delay analysis tools for time-sensitive networks	26
BiometricIdentity dApp: Decentralized biometric authentication based on fuzzy commitment and blockchain	25
McDAPS: A multi-channel physiological signals display and analysis system for clinical researchers	25
An open-source application software to determine the preconsolidation pressure of soils in incremental loading oedometer testing: pySigmaP	25
CNV-Z; a new tool for detecting copy number variation in next generation sequencing data	24
TROVA: TRansport Of water VApor	24
An application for solving minimization problems using the Harmony search algorithm	24
FIDWaC - Fast inverse distance weighting and compression	23
Kunai: A static analysis framework for Android apps	22
REFRAME–A software framework for managing reactive dependencies in object-oriented applications	22
NCC: An R-package for analysis and simulation of platform trials with non-concurrent controls	22
XCompress: LLM assisted Python-based text compression toolkit	22
DSIPTS: A high productivity environment for time series forecasting models	21
clickR: Semi-automatic pre-processing of messy data with change tracking for integral dataset cleaning	21
CensSpatial: An R package for estimation and diagnostics in spatial censored regression models	21
pyMechOpt: A Python toolbox for optimizing of reaction mechanisms	20
Version 2 — RPExpand: Software for Riesz projection expansion of resonance phenomena	20
ScoreREM: A user-friendly Matlab-GUI for rapid eye movement (REM) sleep microstructure (Phasic/Tonic) annotation and quantification	20
Version [2.0] — [pyMCMA: Uniformly distributed Pareto-front representation]	20
Flow-models 2.0: Elephant flows modeling and detection with machine learning	20
The StaDyn programming language	19
GetSensorData: An extensible Android-based application for multi-sensor data registration	19
Rcall: An R interface for MATLAB	19
GenSDF: An MPI-Fortran based signed-distance-field generator for computational fluid dynamics applications	19
SpinGlassPEPS.jl: Tensor-network package for Ising-like optimization on quasi-two-dimensional graphs	18
SolarQGIS: A QGIS application for calculating solar radiation on 3D vector GIS data	18
QuITO: Numerical software for constrained nonlinear optimal control problems	18
Climatrix: Xarray accessor for climate data sampling and reconstruction	18
VEqMon2D—Equations of motion generation tool of 2D vehicles with Matlab	18
DAUD: A data driven algorithm to find discrete approximations of unknown continuous distributions	18
AMBER: Algorithm for Multiplexing spectrometer Background Estimation with Rotation-independence	18
WITio: A MATLAB data evaluation toolbox to script broader insights into big data from WITec microscopes	18
BioEmoDetector: A flexible platform for detecting emotions from health narratives	17
BBR: An open-source standard workflow based on biophysical crop parameters for automatic Botrytis cinerea assessment in vineyards	17
T-Ridership: A web tool for reprogramming public transportation fleets to minimize COVID-19 transmission	17
ShakerMaker: A framework that simplifies the simulation of seismic ground-motions	17
TimeAwareBPMN-js: An editor and temporal verification tool for Time-Aware BPMN processes	17
LitOrganizer: Automating the process of data extraction and organization for scientific literature reviews	17
Turn+: A MATLAB-based software for dynamic turning, chatter analysis, and surface roughness prediction	16
Version 1.1.1 - TROVA: TRansport Of water VApor	16
EnMAP-Box: Imaging spectroscopy in QGIS	15
A C++17 thread pool for high-performance scientific computing	15
PNW-Cnet v4: Automated species identification for passive acoustic monitoring	15
pyBaram: Parallel compressible flow solver in high-performance Python for teaching and research	15
Masked-Piper: Masking personal identities in visual recordings while preserving multimodal information	15
DFT-MF: Enhanced deepfake detection using mouth movement and transfer learning	15
MFPP: Matrix-based flexible project planning	15
A covariate software tool to guide test activity allocation	15

MALVADA: A framework for generating datasets of malware execution traces	15
DataMetProcess: An open-source package and Shiny application for the acquisition and processing of meteorological data from INMET	15
clusEvol: An R package for Cluster Evolution Analytics	14
E2	14
MorphoGen: Topology optimization software for Extremely Modular Systems	14
PLATFORM: Parallel Linear Algebra Tool FOr Reduced Modeling	14
Pynblint: A quality assurance tool to improve the quality of Python Jupyter notebooks	14
Ordinalysis: Interpretability of multidimensional ordinal data	14
JGMP: Java bindings and wrappers for the GMP library	14
PATSMA: Parameter Auto-tuning for Shared Memory Algorithms	14
QPPLab: A generally applicable software package for detecting, analyzing, and visualizing large-scale quasiperiodic spatiotemporal patterns (QPPs) of brain activity	13
WireGuard-AES: Hardware based encryption to WireGuard for VPN gateways	13
TrAQ: A novel, versatile, semi-automated, two-dimensional motor behavioural tracking software	13
ZEN-garden: Optimizing energy transition pathways with user-oriented data handling	13
Spectrally regularised LVMs: A spectral regularisation framework for latent variable models designed for single-channel applications	13
MitoSeg: Mitochondria segmentation tool	13
GraphXplore: Visual exploration and accessible preprocessing of medical data	13
Phenoflow-ML: A next-generation phenotyping framework to capture ML-based phenotypes	13
Causal ML: Python package for causal inference machine learning	12
GenClass: A parallel tool for data classification based on Grammatical Evolution	12
APLOSE: A web-based annotation platform for underwater passive acoustic monitoring	12
PyQBench: A Python library for benchmarking gate-based quantum computers	12
Diagnostic Expert Advisor: A platform for developing machine learning models on medical time-series data	12
TeDDy: Templated decision diagram library	12
MobiScout: A scalable cloud-based driving and activity monitoring platform featuring an IOS app and a WatchOS extension	12
Floodsar: Automatic mapping of river flooding extent from multitemporal SAR imagery	12
P2PFaaS: A framework for FaaS peer-to-peer scheduling and load balancing in Fog and Edge computing	12
Development of an ABAQUS™ plug-in for predicting composite plates stiffness with in-plane periodicity	12
Version 2.0.0 - M-SPARC: Matlab-Simulation Package for Ab-initio Real-space Calculations	12
ShinyGAStool: A user-friendly tool for candidate gene association studies	12
PyCinemetrics: Computational film studies tool based on deep learning and PySide2	12
ModelicaGridData: Massive power system simulation data generation and labeling tool using Modelica and Python	12
Version [7.1] – [IV-PSNR: Software for immersive video objective quality evaluation]	12
xkl: A legacy software for detailed acoustic analysis of speech made modern	12
STM: A software tool for predicting daily temperature in stored animal slurry	11
Gdistns: R package for maximum goodness-of-fit estimates of the generalized G distributions	11
ArcNLET-Py: An ArcGIS-based nitrogen load estimation toolbox developed using python for ArcGIS pro	11
Gideon Replay: A library to replay interactions in web-applications	11
Emipy: An open-source Python-based tool to analyze industrial emissions in Europe	11
IPv6CC: IPv6 covert channels for testing networks against stegomalware and data exfiltration	11
FLAGR: A flexible high-performance library for rank aggregation	11
Decidim.viz: A data dashboard prototype for a digital democracy platform	11
Scymol: A python-based software package for initializing and running molecular dynamics simulations using LAMMPS	11
“dynmix”: An R package for the estimation of dynamic finite mixtures	11
pyMeshFOAM: Automated meshing for CFD and fluid–structure simulations	11
Version [1.1]—[MSAT: Matrix stability analysis tool for shock-capturing schemes]	11
Simplify: A Python library for optimizing pruned neural networks	11
Power TAC: Software architecture for a competitive simulation of sustainable smart energy markets	11
Modelling biocontrol of invasive insects using WaspSim: A MATLAB simulation model	11
Corrigendum to “RAVSim v2.0: Enhanced visualization and comparative analysis for neural network models” [SoftwareX volume 29, February 2025 Article Number: 102006]	10
libcommute/pycommute: A quantum operator algebra domain-specific language and exact diagonalization toolkit	10
TSSEARCH: Time Series Subsequence Search Library	10
ScaFi: A Scala DSL and Toolkit for Aggregate Programming	10
FuzConvSteganalysis: Steganalysis via fuzzy logic and convolutional neural network	10
Compression of triangulated solids’ surfaces by Decimating Reconstructable Triangles	10
REMLA: An R package for robust expectation-maximization estimation for latent variable models	10
Performing highly efficient Minima Hopping structure predictions using the Atomic Simulation Environment (ASE)	10
SimilarityTS: Toolkit for the evaluation of similarity for multivariate time series	10
Docker Unified UIMA Interface: New perspectives for NLP on big data	10
Simplifying computational workflows with the Multiscale Atomic Zeolite Simulation Environment (MAZE)	10
DigiRhythm: An R package for evaluating circadian rhythmicity in animals using the degree of functional coupling	10
Atlantic cod growth model: Open source Python package for numerical growth experiments	10
Covira: A COVID-19 risk assessment, visualization and communication tool	10
Geospatial Analytics Extension for KNIME	10
HITS: Hyperplanes intersection tabu search for maximum score estimation	10
CellRex: Software platform for managing biological cell data	9
Streetscape morphometrics: Expanding momepy to analyze urban form from the street point of view	9
Binary complex amplitude application: An all-in-one Matlab application for the advanced laser beam shaping with digital micromirror device	9
3.0 - MOOSE: Enabling massively parallel multiphysics simulations	9
SmarTS: A Java package for smart contract test suite generation and execution	9
Cyberattack detection through GPML: Graph Processing for Machine Learning	9
TraClets: A trajectory representation and classification library	9
pycity_scheduling—A Python framework for the development and assessment of optimisation-based power scheduling algorithms for multi-energy systems in city districts	9
OpenLSA: An open-source toolbox for computing full-field displacements from images of periodic patterns	9
BDEsize: An R package for efficient determination of sample size in a balanced design of experiments	9
India Policy Insights: A geospatial and temporal data science and visualization platform and architecture	9
RIPN: A tool for implementing cyber-physical systems by using interpreted Petri Nets and teleo-reactive programs	9
DroneTimeline: Forensic timeline analysis for drones	9
gosset: An R package for analysis and synthesis of ranking data in agricultural experimentation	9
GSITK: A sentiment analysis framework for agile replication and development	9

3TM: Software for the 3-Tau Model	9
Yekta: A low-code framework for automated test models generation	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
PCAfold 2.0—Novel tools and algorithms for low-dimensional manifold assessment and optimization	8
OpenPLC61850: An IEC 61850 MMS compatible open source PLC for smart grid research	8
Population potential on catchment area (PPCA): A Python-based tool for worldwide geospatial population analysis	8
Update 2.5 to “Takin: An open-source software for experiment planning, visualisation, and data analysis”, (PII: S2352711016300152)	8
HETOOL: A Half-Edge Topological Object-Oriented Library for generic 2-D geometric modeling	8
VERONA: A python library for benchmarking deep learning in business process monitoring	8
Corrigendum to “pyLAIS: A Python package for Layered Adaptive Importance Sampling” [SoftwareX 29 (2025), 101976]	8
svds-C: A multi-thread C code for computing truncated singular value decomposition	8
Version [2.0] - [VIC-Borg: Multiobjective automatic calibration toolkit for VIC model]	8
tsdownsample: High-performance time series downsampling for scalable visualization	8
PickShift: A user-friendly Python tool to assess the surficial uncertainties associated with polygons extracted from historical planimetric data	8
quicR: An R library for streamlined data handling of real-time quaking induced conversion assays	8
SWANe: Standardized workflow for advanced neuroimaging in epilepsy	8
Hyperomet: An OpenSees interface for nonlinear analysis of unreinforced masonry buildings	8
Traffic weaver: Semi-synthetic time-varying traffic generator based on averaged time series	8
MicEMD: Open-source toolbox for electromagnetic modeling, inversion, and classification in underground metal target detection	8
ASSUME: An agent-based simulation framework for exploring electricity market dynamics with reinforcement learning	8
〈qo|	8
qNoise: A generator of non-Gaussian colored noise	8
Climaticpark-py - A python framework for the climatic simulation of vehicular parking lots	8
TremorSoft: An decision support application for differential diagnosis between Parkinson’s disease and essential tremor	8
Editorial Board	8
Trial Monitor: Scaffolding personalised Web dashboards for Human–Computer Interaction field trials	7
A new approach for drone tracking with drone using Proximal Policy Optimization based distributed deep reinforcement learning	7
CoCoStyle: Mixed initiative co-creative system to support creative process of fashion design	7
RINEXAV: GNSS global network selection open-source software based on qualitative analysis of RINEX files	7
FCM-VSS: An AI powered secured fuzzy cognitive maps management toolkit for visualization, simulation and summarization	7
Fast parallel calculation of modified Bessel function of the second kind and its derivatives	7
SOLDIER: SOLution for Dam behavior Interpretation and safety Evaluation with boosted Regression trees	7
MaSMaker: An open-source, portable software to create and integrate maze-like surfaces into arbitrary geometries	7
CtrlAer: Programmable real-time execution of scientific experiments using a domain specific language for the Raspberry Pi Pico/Pico 2	7
PyBanshee version (1.0): A Python implementation of the MATLAB toolbox BANSHEE for Non-Parametric Bayesian Networks with updated features	7
pymetamodels: A Python package for metamodeling and design automation	7
TIQA-PSI: Toolbox for perceptual Image Quality Assessment of Pan-Sharpened Images	7
ENTIRETY — sEmanNTIc pRovisioning and govErning ioT devices in smart energY domain	7
robustDEA: A Java library for robust efficiency analysis	7
Robustimizer: A graphical user interface application for efficient uncertainty quantification, robust optimization, and reliability-based optimization of processes and designs	7
Data4Land: How to enrich land-use/land-cover with historical vector(s)	7
Growth Data—An automatic solution for seedling growth analysis via RGB-Depth imaging sensors	7
A computerized tool for the kinematic limit analysis of 2D masonry structures failing on a tilting table	7
PlatformCommander — An open source software for an easy integration of motion platforms in research laboratories	7
Version [1.1	7
refellips: A Python package for the analysis of variable angle spectroscopic ellipsometry data	7
pyJSON Schema Loader and JSON Editor: A tool for file-based metadata management	7
ExactPack: A python library of exact analytic solutions	7
pyGRETA, pyCLARA, pyPRIMA: A pre-processing suite to generate flexible model regions for energy system models	7
OSLiFe-DiSC: Open source licenses discovering, selecting and comparing	7
Rhizomer: Interactive semantic knowledge graphs exploration	7
IST-ROS: A flexible object segmentation and tracking framework for robotics applications	7
Version [1.0]- HAT-VIS — A MATLAB-based hypergraph visualization tool	7
1DCSEMQWE: 1D Controlled Source Electromagnetic Method in Geophysics Using Quadrature With Extrapolation	7
OpenTEPES: Open-source Transmission and Generation Expansion Planning	7
Leveraging OpenSimMPLS: A simulation platform for GoS/MPLS networks in research and education	7
Version [1.1.0]- [DLDiagnosis: A mobile and web application for diseases classification using Deep Learning]	7
Computing Continuum Simulator: A comprehensive framework for continuum architecture evaluation	7
End to end navigation stack for nuclear power plant inspection with mobile robot	7
DATTES: Data analysis tools for tests on energy storage	7
Daily Video: A tool for quality of experience (QoE) in long-term context research	6
Drop Project: An automatic assessment tool for programming assignments	6
Version 0.2 - CrackDect: Detecting crack densities in images of fiber-reinforced polymers	6
2D-xtDCR-LTBEM: A Fortran code for numerical solutions to the unsteady anisotropic-DCR equation of spatio-temporal coefficients	6
LeXInt: GPU-accelerated exponential integrators package	6
In-Cognitive: A web-based Python application for fuzzy cognitive map design, simulation, and uncertainty analysis based on the Monte Carlo method	6
DeepWealth: A generalizable open-source deep learning framework using satellite images for well-being estimation	6
TermX: The semantic interoperability, knowledge management and sharing platform	6
iCorrVision-2D: An integrated python-based open-source Digital Image Correlation software for in-plane measurements (Part 1)	6
TFM: An R package for truncated factor model	6
PhaFiDyn: An explicit dynamic phase field damage model implementation	6
Identifying safety–critical concerns in unmanned aerial vehicle software platforms with SALIENT	6
cmaRs: A powerful predictive data mining package in R	6
Version 2.0 – “DYNAblast – A software to obtain the behavior of composite laminated plates subjected to blast loads”	6
Matlatzinca: A PyBANSHEE-based graphical user interface for elicitation of non-parametric Bayesian networks from experts	6
TrustML: A Python package for computing the trustworthiness of ML models	6
The Contiki-NG open source operating system for next generation IoT devices	6
EmintWeb: Creation of embedded web applications in C++ for specific systems	6
TreeSim: An object-oriented individual tree simulator and 3D visualization tool in Python	6
CityZones: A geospatial multi-tier software tool to compute urban risk zones	6
EvaMol: A python tool for evaluating molecules in hit-to-lead optimization	6
tx2_fcnn_node: An open-source ROS compatible tool for monocular depth reconstruction	6
An NLP-driven face recognition system to improve Alzheimer’s patient engagement and care [MEMORY LANE]	6
RPaSDT—Rumor Propagation and Source Detection Toolkit	6
JuBat: A Julia-based framework for battery modelling using finite element method	6
Image2DEM: A geometrical digital twin generator for the detailed structural analysis of existing masonry infrastructure stock	6
hyperbox-brain: A Python toolbox for hyperbox-based machine learning algorithms	6
Digital ecosystem for FAIR time series data management in environmental system science	6
Version [1.1]- [Crispyn — A Python library for determining criteria significance with objective weighting methods]	6
Beachmeter – a simple tool for semi-automatic beach morphodynamics measurement	6
A directed greybox fuzzing tool for continuous integration	6
Subgroups: A Python library for Subgroup Discovery	6
topoEEG: An Python-framework for analyzing EEG data in neurodegeneratives disease through Topological Deep Learning	6
Hybrid adaptive battery parameter estimation approach for equivalent circuit model toolbox	6