TSrepr R package
TSrepr R package: Time Series Representations - Published in JOSS (2018)
SPARC-X-API
SPARC-X-API: Versatile Python Interface for Real-space Density Functional Theory Calculations - Published in JOSS (2025)
Carnival
Carnival: JVM Property graph data unification toolkit - Published in JOSS (2025)
CLIMLAB
CLIMLAB: a Python toolkit for interactive, process-oriented climate modeling - Published in JOSS (2018)
openmpp
openmpp: An R package for dynamic microsimulation modeling using OpenM++ - Published in JOSS (2025)
GraphBin-Tk
GraphBin-Tk: assembly graph-based metagenomic binning toolkit - Published in JOSS (2025)
NMRInversions.jl, a Julia package for time-domain Nuclear Magnetic Resonance
NMRInversions.jl, a Julia package for time-domain Nuclear Magnetic Resonance - Published in JOSS (2025)
PyRASA - Spectral parametrization in python based on IRASA
PyRASA - Spectral parametrization in python based on IRASA - Published in JOSS (2025)
fastfrechet
fastfrechet: An R package for fast implementation of Fréchet regression with distributional responses - Published in JOSS (2025)
BREADR
BREADR: An R Package for the Bayesian Estimation of Genetic Relatedness from Low-coverage Genotype Data - Published in JOSS (2025)
Slicer-Liver
Slicer-Liver: A 3D Slicer Extension for Liver Surgery Planning - Published in JOSS (2025)
constrained_manipulability
constrained_manipulability: A ROS 2 library to Compute and Visualize Constrained Capacities for Robotic Manipulators - Published in JOSS (2025)
Limbo
Limbo: A Flexible High-performance Library for Gaussian Processes modeling and Data-Efficient Optimization - Published in JOSS (2018)
MRI-NUFFT
MRI-NUFFT: Doing non-Cartesian MRI has never been easier - Published in JOSS (2025)
An Introduction to prismAId
An Introduction to prismAId: Open-Source and Open Science AI for Advancing Information Extraction in Systematic Reviews - Published in JOSS (2025)
Combining a Probability and a Non-Probability Sample in a Capture-Recapture Setting
Combining a Probability and a Non-Probability Sample in a Capture-Recapture Setting - Published in JOSS (2018)
GEM
GEM: A Python package for graph embedding methods - Published in JOSS (2018)
FLAM
FLAM: Fast Linear Algebra in MATLAB - Algorithms for Hierarchical Matrices - Published in JOSS (2020)
COVID-19 Data Hub
COVID-19 Data Hub - Published in JOSS (2020)
dcgp
dcgp: Differentiable Cartesian Genetic Programming made easy. - Published in JOSS (2020)
MTEX2Gmsh
MTEX2Gmsh: a tool for generating 2D meshes from EBSD data - Published in JOSS (2020)
DORiE
DORiE: A Discontinuous Galerkin Solver for Soil Water Flow and Passive Solute Transport Based on DUNE - Published in JOSS (2020)
CapacityExpansion
CapacityExpansion: A capacity expansion modeling framework in Julia - Published in JOSS (2020)
qMRLab
qMRLab: Quantitative MRI analysis, under one umbrella - Published in JOSS (2020)
UnfoldMakie.jl
UnfoldMakie.jl: EEG/ERP visualization package - Published in JOSS (2025)
A parallel global multiobjective framework for optimization
A parallel global multiobjective framework for optimization: pagmo - Published in JOSS (2020)
emba
emba: R package for analysis and visualization of biomarkers in boolean model ensembles - Published in JOSS (2020)
CPgeneProfiler
CPgeneProfiler: A lightweight R package to profile the Carbapenamase genes from genome assemblies - Published in JOSS (2020)
Peacock.jl
Peacock.jl: Photonic crystals in Julia - Published in JOSS (2020)
Pysewer
Pysewer: A Python Library for Sewer Network Generation in Data Scarce Regions - Published in JOSS (2024)
ocean_data_tools
ocean_data_tools: A MATLAB toolbox for interacting with bulk freely-available oceanographic data - Published in JOSS (2020)
PhenoFeatureFinder
PhenoFeatureFinder: a python package for linking developmental phenotypes to omics features - Published in JOSS (2024)
zalpha
zalpha: an R package for the identification of regions of the genome under selection - Published in JOSS (2020)
Multiscale Solar Water Heating
Multiscale Solar Water Heating - Published in JOSS (2020)
MiTfAT
MiTfAT: A Python-based Analysis Tool for Molecular fMRI Experiments. - Published in JOSS (2021)
Motorcycle
Motorcycle: A spectral boundary-integral method for seismic cycles on multiple faults - Published in JOSS (2023)
gamut
gamut: A Geospatial R Package to Analyze Multisectoral Urban Teleconnections - Published in JOSS (2021)
JASP for Audit
JASP for Audit: Bayesian Tools for the Auditing Practice - Published in JOSS (2021)
DPFEHM
DPFEHM: a differentiable subsurface physics simulator - Published in JOSS (2023)
Bam-readcount - rapid generation of basepair-resolution sequence metrics
Bam-readcount - rapid generation of basepair-resolution sequence metrics - Published in JOSS (2022)
PyBullet Industrial
PyBullet Industrial: A process-aware robot simulation - Published in JOSS (2023)
brains-py, A framework to support research on energy-efficient unconventional hardware for machine learning
brains-py, A framework to support research on energy-efficient unconventional hardware for machine learning - Published in JOSS (2023)
MicroTracker.jl
MicroTracker.jl: A Julia package for microbot research - Published in JOSS (2024)
goFlux
goFlux: A user-friendly way to calculate GHG fluxes yourself, regardless of user experience - Published in JOSS (2024)
GIRFReco.jl
GIRFReco.jl: An Open-Source Pipeline for Spiral Magnetic Resonance Image (MRI) Reconstruction in Julia - Published in JOSS (2024)
SigCorr
SigCorr: A Python package for studies of trials factors - Published in JOSS (2023)
DemeterWatch
DemeterWatch: A Java tool to detect Law of Demeter violations in Java collections - Published in JOSS (2025)
QuantumACES.jl
QuantumACES.jl: design noise characterisation experiments for quantum computers - Published in JOSS (2025)
LongMemory.jl
LongMemory.jl: Generating, Estimating, and Forecasting Long Memory Models in Julia - Published in JOSS (2025)
rjaf
rjaf: Regularized Joint Assignment Forest with Treatment Arm Clustering - Published in JOSS (2025)
ReadmeReady
ReadmeReady: Free and Customizable Code Documentation with LLMs - A Fine-Tuning Approach - Published in JOSS (2025)
OPTIMUS
OPTIMUS: A Multidimensional Global Optimization Package - Published in JOSS (2025)
Pydre
Pydre: A Python package for driving simulation data reduction - Published in JOSS (2025)
pengWann
pengWann: Descriptors of chemical bonding from Wannier functions - Published in JOSS (2025)
DIFFICE-jax
DIFFICE-jax: Differentiable neural-network solver for data assimilation of ice shelves in JAX - Published in JOSS (2025)
Minterpy
Minterpy: multivariate polynomial interpolation in Python - Published in JOSS (2025)
EXP
EXP: a Python/C++ package for basis function expansion methods in galactic dynamics - Published in JOSS (2025)
BESMARTS
BESMARTS: A toolkit for data-driven force field design using binary-encoded SMARTS - Published in JOSS (2025)
PathSim - A System Simulation Framework
PathSim - A System Simulation Framework - Published in JOSS (2025)
AutoEIS
AutoEIS: Automated equivalent circuit modeling from electrochemical impedance spectroscopy data using statistical machine learning - Published in JOSS (2025)
ParquetDB
ParquetDB: A Lightweight Python Parquet-Based Database - Published in JOSS (2025)
pooledpeaks
pooledpeaks: Open-Source Fragment Scoring and Analysis Workflow for Population Genetic Analyses of Microsatellite Markers in Pooled Samples - Published in JOSS (2025)
CUDA-METRO
CUDA-METRO: Parallel Metropolis Monte Carlo for 2D Atomistic Spin Texture Simulation - Published in JOSS (2025)
target-methylseq-qc
target-methylseq-qc: a lightweight pipeline for collecting metrics from targeted sequence mapping files. - Published in JOSS (2025)
remotePARTS
remotePARTS: Spatiotemporal autoregression analyses for large data sets - Published in JOSS (2025)
popclass
popclass: A Python Package for Classifying Microlensing Events - Published in JOSS (2025)
corrp
corrp: An R package for multiple correlation-like analysis and clustering in mixed data - Published in JOSS (2025)
EKF_CAL
EKF_CAL: Extended Kalman Filter-based Calibration and Localization - Published in JOSS (2025)
MDPSolver
MDPSolver: An Efficient Solver for Markov Decision Processes - Published in JOSS (2025)
SAnTex
SAnTex: A Python-based Library for Seismic Anisotropy Calculation - Published in JOSS (2025)
AquaCrop.jl
AquaCrop.jl: A Process-Based Model of Crop Growth - Published in JOSS (2025)
elfe3D v1.0.1
elfe3D v1.0.1: Modelling with the total electric field approach using finite elements in 3D - Published in JOSS (2025)
<code>diverse-seq</code>
<code>diverse-seq</code>: an application for alignment-free selecting and clustering biological sequences - Published in JOSS (2025)
AI-ANNE
AI-ANNE: (A) (N)eural (N)et for (E)xploration - Published in JOSS (2025)
Giga Connectome
Giga Connectome: a BIDS-app for time series and functional connectome extraction - Published in JOSS (2025)
ICAT
ICAT: The Interactive Corpus Analysis Tool - Published in JOSS (2025)
Mozzie
Mozzie: a computationally efficient simulator for the spatio-temporal modelling of mosquitoes - Published in JOSS (2025)
Pointcloud
Pointcloud: Implementation of point clouds as graphs in the 3D plant modeling platform GroIMP - Published in JOSS (2025)
RiverFlowDynamics v1.0
RiverFlowDynamics v1.0: A Landlab component for computing two-dimensional river flow dynamics - Published in JOSS (2025)
Syclops
Syclops: A Modular Pipeline for Procedural Generation of Synthetic Data - Published in JOSS (2025)
medRCT
medRCT: Causal mediation analysis estimating interventional effects mapped to a target trial in R - Published in JOSS (2025)
DataAssimilationBenchmarks.jl
DataAssimilationBenchmarks.jl: a data assimilation research framework. - Published in JOSS (2022)
Solar Data Tools
Solar Data Tools: a Python library for automated analysis of unlabeled PV data - Published in JOSS (2025)
AutoUncertainties
AutoUncertainties: A Python Package for Uncertainty Propagation - Published in JOSS (2025)
MEDUSA
MEDUSA: An R tool to model equity and distributional impacts - Published in JOSS (2025)
dpest
dpest: Streamlining Creation of PEST input files for DSSAT Crop Model Calibration - Published in JOSS (2025)
PointClouds.jl
PointClouds.jl: Fast & flexible processing of lidar data - Published in JOSS (2025)
TurboFlow
TurboFlow: Meanline Modelling of Axial Turbines - Published in JOSS (2025)
3DQLayers
3DQLayers: Volumetric Layer Based Analysis for Quantitative Renal MRI - Published in JOSS (2025)
Lighter
Lighter: Configuration-Driven Deep Learning - Published in JOSS (2025)
gaia
gaia: An R package to estimate crop yield responses to temperature and precipitation - Published in JOSS (2025)
bisonpicsuite
bisonpicsuite: A set of R packages to estimate wood bison population parameters from remote camera data. - Published in JOSS (2025)
VectoRose
VectoRose: A new package for analysing and visualising 3D non-unit vectors in Python - Published in JOSS (2025)
ExcelToShiny
ExcelToShiny: An R Package for Automating Shiny Dashboard Creation from Excel Templates - Published in JOSS (2025)
PAAT
PAAT: Physical Activity Analysis Toolbox for the analysis of hip-worn raw accelerometer data in Python - Published in JOSS (2025)