Pyrodigal
Pyrodigal: Python bindings and interface to Prodigal, an efficient method for gene prediction in prokaryotes - Published in JOSS (2022)
Executorlib – Up-scaling Python workflows for hierarchical heterogenous high-performance computing
Executorlib – Up-scaling Python workflows for hierarchical heterogenous high-performance computing - Published in JOSS (2025)
dust_extinction
dust_extinction: Interstellar Dust Extinction Models - Published in JOSS (2024)
cellular_raza
cellular_raza: Cellular Agent-based Modeling from a Clean Slate - Published in JOSS (2025)
DynamicalSystems.jl
DynamicalSystems.jl: A Julia software library for chaos and nonlinear dynamics - Published in JOSS (2018)
gratia
gratia: An R package for exploring generalized additive models - Published in JOSS (2024)
Physics-Informed Neural networks for Advanced modeling
Physics-Informed Neural networks for Advanced modeling - Published in JOSS (2023)
Pyrokinetics - A Python library to standardise gyrokinetic analysis
Pyrokinetics - A Python library to standardise gyrokinetic analysis - Published in JOSS (2024)
PyAutoFit
PyAutoFit: A Classy Probabilistic Programming Language for Model Composition and Fitting - Published in JOSS (2021)
NeuralHydrology --- A Python library for Deep Learning research in hydrology
NeuralHydrology --- A Python library for Deep Learning research in hydrology - Published in JOSS (2022)
MNE-LSL
MNE-LSL: Real-time framework integrated with MNE-Python for online neuroscience research through LSL-compatible devices. - Published in JOSS (2025)
SkyPy
SkyPy: A package for modelling the Universe - Published in JOSS (2021)
ALNS
ALNS: a Python implementation of the adaptive large neighbourhood search metaheuristic - Published in JOSS (2023)
PlatiPy
PlatiPy: Processing Library and Analysis Toolkit for Medical Imaging in Python - Published in JOSS (2023)
Matching
Matching: A Python library for solving matching games - Published in JOSS (2020)
small_gicp
small_gicp: Efficient and parallel algorithms for point cloud registration - Published in JOSS (2024)
GCM-Filters
GCM-Filters: A Python Package for Diffusion-based Spatial Filtering of Gridded Data - Published in JOSS (2022)
OpenOA
OpenOA: An Open-Source Codebase For Operational Analysis of Wind Farms - Published in JOSS (2021)
Aurora
Aurora: An open-source Python implementation of the EMTF package for magnetotelluric data processing using MTH5 and mt_metadata - Published in JOSS (2024)
toqito -- Theory of quantum information toolkit
toqito -- Theory of quantum information toolkit: A Python package for studying quantum information - Published in JOSS (2021)
mpi4jax
mpi4jax: Zero-copy MPI communication of JAX arrays - Published in JOSS (2021)
eo-tides
eo-tides: Tide modelling tools for large-scale satellite Earth observation analysis - Published in JOSS (2025)
CloudnetPy
CloudnetPy: A Python package for processing cloud remote sensing data - Published in JOSS (2020)
scores
scores: A Python package for verifying and evaluating models and predictions with xarray - Published in JOSS (2024)
torchquad
torchquad: Numerical Integration in Arbitrary Dimensions with PyTorch - Published in JOSS (2021)
EZyRB
EZyRB: Easy Reduced Basis method - Published in JOSS (2018)
Nimbus
Nimbus: a Ruby gem to implement Random Forest algorithms in a genomic selection context - Published in JOSS (2017)
OpenSpace
OpenSpace: An open-source astrovisualization framework - Published in JOSS (2017)
simstudy
simstudy: Illuminating research methods through data generation - Published in JOSS (2020)
HyperCoast
HyperCoast: A Python Package for Visualizing and Analyzing Hyperspectral Data in Coastal Environments - Published in JOSS (2024)
pylustrator
pylustrator: code generation for reproducible figures for publication - Published in JOSS (2020)
Augmenty
Augmenty: A Python Library for Structured Text Augmentation - Published in JOSS (2024)
textnets
textnets: A Python package for text analysis with networks - Published in JOSS (2020)
PowerAPI
PowerAPI: A Python framework for building software-defined power meters - Published in JOSS (2024)
NOMAD CAMELS
NOMAD CAMELS: Configurable Application for Measurements, Experiments and Laboratory Systems - Published in JOSS (2024)
CCA-Zoo
CCA-Zoo: A collection of Regularized, Deep Learning based, Kernel, and Probabilistic CCA methods in a scikit-learn style framework - Published in JOSS (2021)
Jupyter Scatter
Jupyter Scatter: Interactive Exploration of Large-Scale Datasets - Published in JOSS (2024)
Caustics
Caustics: A Python Package for Accelerated Strong Gravitational Lensing Simulations - Published in JOSS (2024)
matador
matador: a Python library for analysing, curating and performing high-throughput density-functional theory calculations - Published in JOSS (2020)
multipers
multipers: Multiparameter Persistence for Machine Learning - Published in JOSS (2024)
PyAutoGalaxy
PyAutoGalaxy: Open-Source Multiwavelength Galaxy Structure & Morphology - Published in JOSS (2023)
ssdtools v2
ssdtools v2: An R package to fit Species Sensitivity Distributions - Published in JOSS (2025)
Collaborative Container Modules with Singularity Registry HPC
Collaborative Container Modules with Singularity Registry HPC - Published in JOSS (2021)
Netwulf
Netwulf: Interactive visualization of networks in Python - Published in JOSS (2019)
MNE-ICALabel
MNE-ICALabel: Automatically annotating ICA components with ICLabel in Python - Published in JOSS (2022)
Dolphin
Dolphin: A Python package for large-scale InSAR PS/DS processing - Published in JOSS (2024)
HPX - The C++ Standard Library for Parallelism and Concurrency
HPX - The C++ Standard Library for Parallelism and Concurrency - Published in JOSS (2020)
PVGeo
PVGeo: an open-source Python package for geoscientific visualization in VTK and ParaView - Published in JOSS (2019)
Sports2D
Sports2D: Compute 2D human pose and angles from a video or a webcam - Published in JOSS (2024)
The Python Sky Model 3 software
The Python Sky Model 3 software - Published in JOSS (2021)
Easy SimAuto (ESA)
Easy SimAuto (ESA): A Python Package that Simplifies Interacting with PowerWorld Simulator - Published in JOSS (2020)
MontePy
MontePy: a Python library for reading, editing, and writing MCNP input files. - Published in JOSS (2025)
HNN-core
HNN-core: A Python software for cellular and circuit-level interpretation of human MEG/EEG - Published in JOSS (2023)
GNOLL
GNOLL: Efficient Multi-Lingual Software for Real-World Dice Notation and Extensions - Published in JOSS (2023)
ADIOS4DOLFINx
ADIOS4DOLFINx: A framework for checkpointing in FEniCS - Published in JOSS (2024)
UXsim
UXsim: lightweight mesoscopic traffic flow simulator in pure Python - Published in JOSS (2025)
pynucastro
pynucastro: an interface to nuclear reaction rates and code generator for reaction network equations - Published in JOSS (2018)
GlobalSensitivity.jl
GlobalSensitivity.jl: Performant and Parallel Global Sensitivity Analysis with Julia - Published in JOSS (2022)
Additive Bayesian Networks
Additive Bayesian Networks - Published in JOSS (2024)
smol
smol: A Python package for cluster expansions and beyond - Published in JOSS (2022)
pyro
pyro: a framework for hydrodynamics explorations and prototyping - Published in JOSS (2019)
Copulas.jl
Copulas.jl: A fully Distributions.jl-compliant copula package - Published in JOSS (2024)
DelaunayTriangulation.jl
DelaunayTriangulation.jl: A Julia package for Delaunay triangulations and Voronoi tessellations in the plane - Published in JOSS (2024)
Generating synthetic star catalogs from simulated data for next-gen observatories with py-ananke
Generating synthetic star catalogs from simulated data for next-gen observatories with py-ananke - Published in JOSS (2024)
grlc
grlc: the git repository linked data API constructor. - Published in JOSS (2021)
movement_primitives
movement_primitives: Imitation Learning of Cartesian Motion with Movement Primitives - Published in JOSS (2024)
Gibbs Sea Water Oceanographic Toolbox of TEOS-10 implemented in Rust
Gibbs Sea Water Oceanographic Toolbox of TEOS-10 implemented in Rust - Published in JOSS (2024)
netrankr
netrankr: An R package for total, partial, and probabilistic rankings in networks - Published in JOSS (2022)
SCALib
SCALib: A Side-Channel Analysis Library - Published in JOSS (2023)
hIPPYlib
hIPPYlib: An Extensible Software Framework for Large-Scale Inverse Problems - Published in JOSS (2018)
Atramhasis
Atramhasis: An online SKOS vocabulary editor - Published in JOSS (2023)
Symfem
Symfem: a symbolic finite element definition library - Published in JOSS (2021)
phasespace
phasespace: n-body phase space generation in Python - Published in JOSS (2019)
ncompare
ncompare: A Python package for comparing netCDF structures - Published in JOSS (2024)
volesti
volesti: A C++ library for sampling and volume computation on convex bodies - Published in JOSS (2025)
colorspace
colorspace: A Python Toolbox for Manipulating and Assessing Colors and Palettes - Published in JOSS (2024)
wrenfold
wrenfold: Symbolic code generation for robotics - Published in JOSS (2025)
VILLASnode
VILLASnode: An Open-Source Real-time Multi-protocol Gateway - Published in JOSS (2025)
pentapy
pentapy: A Python toolbox for pentadiagonal linear systems - Published in JOSS (2019)
DeepRiver
DeepRiver: A Deep Learning Library for Data Streams - Published in JOSS (2025)
GWSurrogate
GWSurrogate: A Python package for gravitational wave surrogate models - Published in JOSS (2025)
PyExperimenter
PyExperimenter: Easily distribute experiments and track results - Published in JOSS (2023)
alv
alv: a console-based viewer for molecular sequence alignments - Published in JOSS (2018)
otoole
otoole: OSeMOSYS Tools for Energy Work - Published in JOSS (2023)
xagg
xagg: A Python package to aggregate gridded data onto polygons - Published in JOSS (2024)
GWPopulation
GWPopulation: Hardware agnostic population inference for compact binaries and beyond - Published in JOSS (2025)
pyCSEP
pyCSEP: A Python Toolkit For Earthquake Forecast Developers - Published in JOSS (2022)
qnm
qnm: A Python package for calculating Kerr quasinormal modes, separation constants, and spherical-spheroidal mixing coefficients - Published in JOSS (2019)
PyCUTEst
PyCUTEst: an open source Python package of optimization test problems - Published in JOSS (2022)
graphsim
graphsim: An R package for simulating gene expression data from graph structures of biological pathways - Published in JOSS (2020)
OApackage
OApackage: A Python package for generation and analysis of orthogonal arrays, optimal designs and conference designs - Published in JOSS (2019)
spgrep
spgrep: On-the-fly generator of space-group irreducible representations - Published in JOSS (2023)
fractopo
fractopo: A Python package for fracture network analysis - Published in JOSS (2023)