RT-utils
RT-utils: A Minimal Python Library for RT-struct Manipulation - Published in JOSS (2025)
jaxKAN
jaxKAN: A unified JAX framework for Kolmogorov-Arnold Networks - Published in JOSS (2025)
AMAT
AMAT: A Python package for rapid conceptual design of aerocapture and atmospheric Entry, Descent, and Landing (EDL) missions in a Jupyter environment - Published in JOSS (2021)
MoSDeF-dihedral-fit
MoSDeF-dihedral-fit: A lightweight software for fitting dihedrals within MoSDeF - Published in JOSS (2024)
The plebeian Graph Library
The plebeian Graph Library: A WebGL based network visualisation and diagnostics package - Published in JOSS (2024)
Sapsan
Sapsan: Framework for Supernovae Turbulence Modeling with Machine Learning - Published in JOSS (2021)
ldaPrototype
ldaPrototype: A method in R to get a Prototype of multiple Latent Dirichlet Allocations - Published in JOSS (2020)
VaMPy
VaMPy: An Automated and Objective Pipeline for Modeling Vascular Geometries - Published in JOSS (2023)
Spiner
Spiner: Performance Portable Routines for Generic, Tabulated, Multi-Dimensional Data - Published in JOSS (2022)
ungroup
ungroup: An R package for efficient estimation of smooth distributions from coarsely binned data - Published in JOSS (2018)
OpenGeoSysUncertaintyQuantification.jl
OpenGeoSysUncertaintyQuantification.jl: a Julia library implementing an uncertainty quantification toolbox for OpenGeoSys - Published in JOSS (2024)
IDTxl
IDTxl: The Information Dynamics Toolkit xl: a Python package for the efficient analysis of multivariate information dynamics in networks - Published in JOSS (2019)
DAFSA
DAFSA: a Python library for Deterministic Acyclic Finite State Automata - Published in JOSS (2020)
Python Implementation of Codon Adaptation Index
Python Implementation of Codon Adaptation Index - Published in JOSS (2018)
PySymmPol - Symmetric Polynomials
PySymmPol - Symmetric Polynomials - Published in JOSS (2024)
fitgrid
fitgrid: A Python package for multi-channel event-related time series regression modeling - Published in JOSS (2021)
ppdiag
ppdiag: Diagnostic Tools for Temporal Point Processes - Published in JOSS (2021)
FDTDX: High-Performance Open-Source FDTD Simulation with Automatic Differentiation
FDTDX: High-Performance Open-Source FDTD Simulation with Automatic Differentiation - Published in JOSS (2026)
Cocktail Shaker
Cocktail Shaker: An open source drug expansion and enumeration library for peptides - Published in JOSS (2020)
pyomo
An object-oriented algebraic modeling language in Python for structured optimization problems.
spatial-efd
spatial-efd: A spatial-aware implementation of elliptical Fourier analysis - Published in JOSS (2017)
FELINE
FELINE: A Tool to Detect Emission Line Galaxies in 3D Data - Published in JOSS (2025)
AGNI
AGNI: A radiative-convective model for lava planet atmospheres - Published in JOSS (2025)
Statmanager-kr
Statmanager-kr: A User-friendly Statistical Package for Python in Pandas - Published in JOSS (2024)
pynguin
The PYthoN General UnIt Test geNerator is a test-generation tool for Python
compareMCMCs
compareMCMCs: An R package for studying MCMC efficiency - Published in JOSS (2022)
trafilatura
Python & Command-line tool to gather text and metadata on the Web: Crawling, scraping, extraction, output as CSV, JSON, HTML, MD, TXT, XML
medrxivr
medrxivr: Accessing and searching medRxiv and bioRxiv preprint data in R - Published in JOSS (2020)
AgriFoodPy
AgriFoodPy: a package for modelling food systems - Published in JOSS (2024)
rrcf
rrcf: Implementation of the Robust Random Cut Forest algorithm for anomaly detection on streams - Published in JOSS (2019)
DUGseis
DUGseis: A Python package for real-time and post-processing of picoseismicity - Published in JOSS (2024)
Taguette
Taguette: open-source qualitative data analysis - Published in JOSS (2021)
Telewavesim
Telewavesim: Python software for teleseismic body wave modeling - Published in JOSS (2019)
Pyheartlib
Pyheartlib: A Python package for processing electrocardiogram signals - Published in JOSS (2024)
DiffOpt
DiffOpt: Parallel optimization of Jax models - Published in JOSS (2024)
Devicely
Devicely: A Python package for reading, timeshifting and writing sensor data - Published in JOSS (2021)
hetGPy
hetGPy: Heteroskedastic Gaussian Process Modeling in Python - Published in JOSS (2025)
cogsworth
cogsworth: A Gala of COSMIC proportions combining binary stellar evolution and galactic dynamics - Published in JOSS (2025)
Beiwe
Beiwe: A data collection platform for high-throughput digital phenotyping - Published in JOSS (2021)
PyDMD
PyDMD: Python Dynamic Mode Decomposition - Published in JOSS (2018)
Brainchop
Brainchop: In-browser MRI volumetric segmentation and rendering - Published in JOSS (2023)
neworder
neworder: a dynamic microsimulation framework for Python - Published in JOSS (2021)
UncertainData.jl
UncertainData.jl: a Julia package for working with measurements and datasets with uncertainties. - Published in JOSS (2019)
Simframe
Simframe: A Python Framework for Scientific Simulations - Published in JOSS (2022)
bayes_spec
bayes_spec: A Bayesian Spectral Line Modeling Framework for Astrophysics - Published in JOSS (2024)
OpenCADD-KLIFS
OpenCADD-KLIFS: A Python package to fetch kinase data from the KLIFS database - Published in JOSS (2022)
DistriFS
DistriFS: A Platform and User Agnostic Approach to Dataset Distribution - Published in JOSS (2024)
unfold
unfold: removing the barriers to sharing and reproducing prospective life-cycle assessment databases - Published in JOSS (2023)
osiris
osiris: An R package to process climate impacts on agricultural yields for the Global Change Analysis Model - Published in JOSS (2023)
ELK
ELK: A python package for correcting, analyzing, and diagnosing TESS integrated light curves - Published in JOSS (2023)
cppTPSA/pyTPSA
cppTPSA/pyTPSA: a C++/Python package for truncated power series algebra - Published in JOSS (2024)
simChef
simChef: High-quality data science simulations in R - Published in JOSS (2024)
Simulating instrumental systematics of Cosmic Microwave Background experiments with s4cmb
Simulating instrumental systematics of Cosmic Microwave Background experiments with s4cmb - Published in JOSS (2021)
PDENLPModels.jl
PDENLPModels.jl: An NLPModel API for Optimization Problems with PDE-Constraints - Published in JOSS (2022)
CRE
CRE: An R package for interpretable discovery and inference of heterogeneous treatment effects - Published in JOSS (2023)
| SWEpy
| SWEpy: A Python Library for Quick and Easy Access and Manipulation of MEaSUREs CETB Files for SWE Analysis - Published in JOSS (2018)
libsoni
libsoni: A Python Toolbox for Sonifying Music Annotations and Feature Representations - Published in JOSS (2024)
dyPolyChord
dyPolyChord: dynamic nested sampling with PolyChord - Published in JOSS (2018)
SleepPy
SleepPy: A python package for sleep analysis from accelerometer data - Published in JOSS (2019)
Reiz
Reiz: Structural Source Code Search - Published in JOSS (2021)
SaffronTree
SaffronTree: Fast, reference-free pseudo-phylogenomic trees from reads or contigs. - Published in JOSS (2017)
Copper
Copper: a performance curve generator for building energy simulation - Published in JOSS (2023)
CRNPy
CRNPy: An Open-Source Python Library for Cosmic-Ray Neutron Probe Data Processing - Published in JOSS (2024)
TDAvec: Computing Vector Summaries of Persistence Diagrams for Topological Data Analysis in R and Python
TDAvec: Computing Vector Summaries of Persistence Diagrams for Topological Data Analysis in R and Python - Published in JOSS (2025)
Off-resonance CorrecTion OPen soUrce Software (OCTOPUS)
Off-resonance CorrecTion OPen soUrce Software (OCTOPUS) - Published in JOSS (2021)
robnptests -- An R package for robust two-sample location and dispersion tests
robnptests -- An R package for robust two-sample location and dispersion tests - Published in JOSS (2023)
DmpBbo
DmpBbo: A versatile Python/C++ library for Function Approximation, Dynamical Movement Primitives, and Black-Box Optimization - Published in JOSS (2019)
Archeofrag
Archeofrag: an R package for Refitting and Spatial Analysis in Archaeology - Published in JOSS (2022)
Eureka!
Eureka!: An End-to-End Pipeline for JWST Time-Series Observations - Published in JOSS (2022)
imager
imager: an R package for image processing based on CImg - Published in JOSS (2019)
ρμ
ρμ: A Java library of randomization enhancements and other math utilities - Published in JOSS (2022)
lys
lys: interactive multi-dimensional data analysis and visualization platform - Published in JOSS (2023)
UBayFS
UBayFS: An R Package for User Guided Feature Selection - Published in JOSS (2023)
PyHeatDemand - Processing Tool for Heat Demand Data
PyHeatDemand - Processing Tool for Heat Demand Data - Published in JOSS (2024)
MyQueue
MyQueue: Task and workflow scheduling system - Published in JOSS (2020)
lczexplore
lczexplore: an R package to explore Local Climate Zone classifications - Published in JOSS (2023)
ARCHES PiCar-X
ARCHES PiCar-X: Software for Digital Twin Research - Published in JOSS (2024)
GaitPy
GaitPy: An Open-Source Python Package for Gait Analysis Using an Accelerometer on the Lower Back - Published in JOSS (2019)
cartography
cartography: Create and Integrate Maps in your R Workflow - Published in JOSS (2016)
nimCSO
nimCSO: A Nim package for Compositional Space Optimization - Published in JOSS (2024)
The o80 C++ templated toolbox
The o80 C++ templated toolbox: Designing customized Python APIs for synchronizing realtime processes - Published in JOSS (2021)
SSN2
SSN2: The next generation of spatial stream network modeling in R - Published in JOSS (2024)
The Babelizer
The Babelizer: language interoperability for model coupling in the geosciences - Published in JOSS (2022)
Renard
Renard: A Modular Pipeline for Extracting Character Networks from Narrative Texts - Published in JOSS (2024)
pide
pide: Petrophysical Interpretation tools for geoDynamic Exploration. - Published in JOSS (2025)
fuelcell
fuelcell: A Python package and graphical user interface for electrochemical data analysis - Published in JOSS (2021)
PyEI
PyEI: A Python package for ecological inference - Published in JOSS (2021)
OGRe
OGRe: An Object-Oriented General Relativity Package for Mathematica - Published in JOSS (2021)
ukpopulation
ukpopulation: unified national and subnational population estimates and projections, including variants - Published in JOSS (2018)
r2ogs6
r2ogs6: An R wrapper of the OpenGeoSys 6 Multiphysics Simulator - Published in JOSS (2024)
Akantu
Akantu: an HPC finite-element library for contact and dynamic fracture simulations - Published in JOSS (2024)
GeneNetwork
GeneNetwork: framework for web-based genetics - Published in JOSS (2016)
oxDNA
oxDNA: coarse-grained simulations of nucleic acids made simple - Published in JOSS (2023)
stable-baselines3
PyTorch version of Stable Baselines, reliable implementations of reinforcement learning algorithms.
QMCTorch
QMCTorch: a PyTorch Implementation of Real-Space Quantum Monte Carlo Simulations of Molecular Systems - Published in JOSS (2023)
EDP
EDP: a program for projecting electron densities from VASP onto planes - Published in JOSS (2023)
hypr
hypr: An R package for hypothesis-driven contrast coding - Published in JOSS (2020)