GitHub
<code>gollum</code>
<code>gollum</code>: An intuitive programmatic and visual interface for precomputed synthetic spectral model grids - Published in JOSS (2024)
osfr
osfr: An R Interface to the Open Science Framework - Published in JOSS (2020)
OceanBioME.jl
OceanBioME.jl: A flexible environment for modelling the coupled interactions between ocean biogeochemistry and physics - Published in JOSS (2023)
Singularity Compose
Singularity Compose: Orchestration for Singularity Instances - Published in JOSS (2019)
AutoEmulate
AutoEmulate: A Python package for semi-automated emulation - Published in JOSS (2025)
Nanoq
Nanoq: ultra-fast quality control for nanopore reads - Published in JOSS (2022)
dustmaps
dustmaps: A Python interface for maps of interstellar dust - Published in JOSS (2018)
Scientific Computational Imaging Code (SCICO)
Scientific Computational Imaging Code (SCICO) - Published in JOSS (2022)
startinpy
startinpy: A Python library for modelling and processing 2.5D triangulated terrains - Published in JOSS (2024)
tpcp
tpcp: Tiny Pipelines for Complex Problems - A set of framework independent helpers for algorithms development and evaluation - Published in JOSS (2023)
cspy
cspy: A Python package with a collection of algorithms for the (Resource) Constrained Shortest Path problem - Published in JOSS (2020)
Pycapacity
Pycapacity: a real-time task-space capacity calculation package for robotics and biomechanics - Published in JOSS (2023)
MatchPy
MatchPy: Pattern Matching in Python - Published in JOSS (2018)
Pymer4
Pymer4: Connecting R and Python for Linear Mixed Modeling - Published in JOSS (2018)
Nostril
Nostril: A nonsense string evaluator written in Python - Published in JOSS (2018)
Speakerbox
Speakerbox: Few-Shot Learning for Speaker Identification with Transformers - Published in JOSS (2023)
Spafe
Spafe: Simplified python audio features extraction - Published in JOSS (2023)
pointcloudset
pointcloudset: Efficient Analysis of Large Datasets of Point Clouds Recorded Over Time - Published in JOSS (2021)
Pywaterflood
Pywaterflood: Well connectivity analysis through capacitance-resistance modeling - Published in JOSS (2024)
UralicNLP
UralicNLP: An NLP Library for Uralic Languages - Published in JOSS (2019)
Paicos
Paicos: A Python package for analysis of (cosmological) simulations performed with Arepo - Published in JOSS (2024)
checkpoint_schedules
checkpoint_schedules: schedules for incremental checkpointing of adjoint simulations - Published in JOSS (2024)
doped
doped: Python toolkit for robust and repeatable charged defect supercell calculations - Published in JOSS (2024)
flowMC
flowMC: Normalizing flow enhanced sampling package for probabilistic inference in JAX - Published in JOSS (2023)
Cabana
Cabana: A Performance Portable Library for Particle-Based Simulations - Published in JOSS (2022)
t8code - modular adaptive mesh refinement in the exascale era
t8code - modular adaptive mesh refinement in the exascale era - Published in JOSS (2025)
Clustergram
Clustergram: Visualization and diagnostics for cluster analysis - Published in JOSS (2023)
regional-mom6
regional-mom6: A Python package for automatic generation of regional configurations for the Modular Ocean Model 6 - Published in JOSS (2024)
piecewise-regression (aka segmented regression) in Python
piecewise-regression (aka segmented regression) in Python - Published in JOSS (2021)
EnsembleKalmanProcesses.jl
EnsembleKalmanProcesses.jl: Derivative-free ensemble-based model calibration - Published in JOSS (2022)
cfdm
cfdm: A Python reference implementation of the CF data model - Published in JOSS (2020)
f3dasm
f3dasm: Framework for Data-Driven Design and Analysis of Structures and Materials - Published in JOSS (2024)
tidynamics
tidynamics: A tiny package to compute the dynamics of stochastic and molecular simulations - Published in JOSS (2018)
SCIMAP
SCIMAP: A Python Toolkit for Integrated Spatial Analysis of Multiplexed Imaging Data - Published in JOSS (2024)
MCMCvis
MCMCvis: Tools to Visualize, Manipulate, and Summarize MCMC Output - Published in JOSS (2018)
EISPAC - The EIS Python Analysis Code
EISPAC - The EIS Python Analysis Code - Published in JOSS (2023)
InvertibleNetworks.jl
InvertibleNetworks.jl: A Julia package for scalable normalizing flows - Published in JOSS (2024)
OSTIR
OSTIR: open source translation initiation rate prediction - Published in JOSS (2021)
BioPsyKit
BioPsyKit: A Python package for the analysis of biopsychological data - Published in JOSS (2021)
Mashpit
Mashpit: sketching out genomic epidemiology - Published in JOSS (2024)
COOLEST
COOLEST: COde-independent Organized LEns STandard - Published in JOSS (2023)
MWRpy
MWRpy: A Python package for processing microwave radiometer data - Published in JOSS (2024)
ngsxfem
ngsxfem: Add-on to NGSolve for geometrically unfitted finite element discretizations - Published in JOSS (2021)
GTFS Segments
GTFS Segments: A Fast and Efficient Library to Generate Bus Stop Spacings - Published in JOSS (2024)
PyAutoCTI
PyAutoCTI: Open-Source Charge Transfer Inefficiency Calibration - Published in JOSS (2024)
abcvoting
abcvoting: A Python package for approval-based multi-winner voting rules - Published in JOSS (2023)
USAboundaries
USAboundaries: Historical and Contemporary Boundaries of the United States of America - Published in JOSS (2018)
tidyHeatmap
tidyHeatmap: an R package for modular heatmap production based on tidy principles - Published in JOSS (2020)
DIANNA
DIANNA: Deep Insight And Neural Network Analysis - Published in JOSS (2022)
MParT
MParT: Monotone Parameterization Toolkit - Published in JOSS (2022)
EPyT-Flow
EPyT-Flow: A Toolkit for Generating Water Distribution Network Data - Published in JOSS (2024)
PypeIt
PypeIt: The Python Spectroscopic Data Reduction Pipeline - Published in JOSS (2020)
nomisr
nomisr: Access 'Nomis' UK Labour Market Data - Published in JOSS (2018)
VeridicalFlow
VeridicalFlow: a Python package for building trustworthy data science pipelines with PCS - Published in JOSS (2022)
uravu
uravu: Making Bayesian modelling easy(er) - Published in JOSS (2020)
Nanomesh
Nanomesh: A Python workflow tool for generating meshes from image data - Published in JOSS (2022)
Virgo
Virgo: A Versatile Spectrometer for Radio Astronomy - Published in JOSS (2021)
21cmFAST v3
21cmFAST v3: A Python-integrated C code for generating 3D realizations of the cosmic 21cm signal. - Published in JOSS (2020)
xphyle
xphyle: Extraordinarily simple file handling - Published in JOSS (2017)
py-sc-fermi
py-sc-fermi: self-consistent Fermi energies and defect concentrations from electronic structure calculations - Published in JOSS (2023)
TrackerControl
TrackerControl: Transparency and Choice around App Tracking - Published in JOSS (2022)
CASTRO
CASTRO: A Massively Parallel Compressible Astrophysics Simulation Code - Published in JOSS (2020)
HylleraasMD
HylleraasMD: Massively parallel hybrid particle-field molecular dynamics in Python - Published in JOSS (2023)
LenslessPiCam
LenslessPiCam: A Hardware and Software Platform for Lensless Computational Imaging with a Raspberry Pi - Published in JOSS (2023)
Rasusa
Rasusa: Randomly subsample sequencing reads to a specified coverage - Published in JOSS (2022)
libecpint
libecpint: A C++ library for the efficient evaluation of integrals over effective core potentials - Published in JOSS (2021)
MetaWards
MetaWards: A flexible metapopulation framework for modelling disease spread - Published in JOSS (2022)
swiftsimio
swiftsimio: A Python library for reading SWIFT data - Published in JOSS (2020)
VIP
VIP: A Python package for high-contrast imaging - Published in JOSS (2023)
Astronomical échelle spectroscopy data analysis with `muler`
Astronomical échelle spectroscopy data analysis with `muler` - Published in JOSS (2022)
A GPU-Accelerated Open-Source Python Package for Calculating Powder Diffraction, Small-Angle-, and Total Scattering with the Debye Scattering Equation
A GPU-Accelerated Open-Source Python Package for Calculating Powder Diffraction, Small-Angle-, and Total Scattering with the Debye Scattering Equation - Published in JOSS (2024)
instances
The largest collection of PyTorch image encoders / backbones. Including train, eval, inference, export scripts, and pretrained weights -- ResNet, ResNeXT, EfficientNet, NFNet, Vision Transformer (ViT), MobileNetV4, MobileNet-V3 & V2, RegNet, DPN, CSPNet, Swin Transformer, MaxViT, CoAtNet, ConvNeXt, and more
MF2
MF2: A Collection of Multi-Fidelity Benchmark Functions in Python - Published in JOSS (2020)
BurnMan -- a Python toolkit for planetary geophysics, geochemistry and thermodynamics
BurnMan -- a Python toolkit for planetary geophysics, geochemistry and thermodynamics - Published in JOSS (2023)
Nempy
Nempy: A Python package for modelling the Australian National Electricity Market dispatch procedure - Published in JOSS (2022)
Choice-Learn
Choice-Learn: Large-scale choice modeling for operational contexts through the lens of machine learning - Published in JOSS (2024)
effmass
effmass: An effective mass package - Published in JOSS (2018)
SelfEEG
SelfEEG: A Python library for Self-Supervised Learning in Electroencephalography - Published in JOSS (2024)
Stripy
Stripy: A Python module for (constrained) triangulation in Cartesian coordinates and on a sphere. - Published in JOSS (2019)
ENZO
ENZO: An Adaptive Mesh Refinement Code for Astrophysics (Version 2.6) - Published in JOSS (2019)
MODULO
MODULO: A Python toolbox for data-driven modal decomposition - Published in JOSS (2024)
fmcmc
fmcmc: A friendly MCMC framework - Published in JOSS (2019)
LangFair
LangFair: A Python Package for Assessing Bias and Fairness in Large Language Model Use Cases - Published in JOSS (2025)
Zoobot
Zoobot: Adaptable Deep Learning Models for Galaxy Morphology - Published in JOSS (2023)
A Framework to Quality Control Oceanographic Data
A Framework to Quality Control Oceanographic Data - Published in JOSS (2020)
VIVO
VIVO: a system for research discovery - Published in JOSS (2019)
Cadabra2
Cadabra2: computer algebra for field theory revisited - Published in JOSS (2018)
terrainr
terrainr: An R package for creating immersive virtual environments - Published in JOSS (2022)
adrt
adrt: approximate discrete Radon transform for Python - Published in JOSS (2023)
GeophysicalFlows.jl
GeophysicalFlows.jl: Solvers for geophysical fluid dynamics problems in periodic domains on CPUs & GPUs - Published in JOSS (2021)
SweetBean
SweetBean: A declarative language for behavioral experiments with human and artificial participants - Published in JOSS (2025)