PyArmadillo
PyArmadillo: a streamlined linear algebra library for Python - Published in JOSS (2021)
graphenv
graphenv: a Python library for reinforcement learning on graph search spaces - Published in JOSS (2022)
Recan
Recan: Python tool for analysis of recombination events in viral genomes - Published in JOSS (2020)
treemaker
treemaker: A Python tool for constructing a Newick formatted tree from a set of classifications. - Published in JOSS (2018)
seg1d
seg1d: A Python package for Automated segmentation of one-dimensional (1D) data - Published in JOSS (2020)
popkinmocks
popkinmocks: mock IFU datacubes for modelling stellar populations and kinematics - Published in JOSS (2023)
STARRED
STARRED: a two-channel deconvolution method with Starlet regularization - Published in JOSS (2023)
Learning Simulator
Learning Simulator: A simulation software for animal and human learning - Published in JOSS (2021)
MetObs - a Python toolkit for using non-traditional meteorological observations
MetObs - a Python toolkit for using non-traditional meteorological observations - Published in JOSS (2024)
cosasi
cosasi: Graph Diffusion Source Inference in Python - Published in JOSS (2022)
FEniCS-arclength
FEniCS-arclength: A numerical continuation package in FEniCS for nonlinear problems in solid mechanics - Published in JOSS (2024)
MyPTV
MyPTV: A Python Package for 3D Particle Tracking - Published in JOSS (2022)
VlaPy
VlaPy: A Python package for Eulerian Vlasov-Poisson-Fokker-Planck Simulations - Published in JOSS (2020)
Surjectors
Surjectors: surjection layers for density estimation with normalizing flows - Published in JOSS (2024)
plotastic
plotastic: Bridging Plotting and Statistics in Python - Published in JOSS (2024)
gdess
gdess: A framework for evaluating simulated atmospheric CO₂ in Earth System Models - Published in JOSS (2022)
PyCVI
PyCVI: A Python package for internal Cluster Validity Indices, compatible with time-series data - Published in JOSS (2024)
tissueloc
tissueloc: Whole slide digital pathology image tissue localization - Published in JOSS (2019)
CheSweet
CheSweet: An application to predict glycan’s chemicals shifts - Published in JOSS (2018)
tesliper
tesliper: a theoretical spectroscopist's little helper - Published in JOSS (2022)
DeBEIR
DeBEIR: A Python Package for Dense Bi-Encoder Information Retrieval - Published in JOSS (2023)
BATMAN
BATMAN: Statistical analysis for expensive computer codes made easy - Published in JOSS (2018)
pySRURGS - a python package for symbolic regression by uniform random global search
pySRURGS - a python package for symbolic regression by uniform random global search - Published in JOSS (2019)
Text detection in screen images with a Convolutional Neural Network
Text detection in screen images with a Convolutional Neural Network - Published in JOSS (2017)
AstronomicAL
AstronomicAL: an interactive dashboard for visualisation, integration and classification of data with Active Learning - Published in JOSS (2021)
Mantik
Mantik: A Workflow Platform for the Development of Artificial Intelligence on High-Performance Computing Infrastructures - Published in JOSS (2024)
SHGYield
SHGYield - Published in JOSS (2017)
Foam
Foam: A Python package for forward asteroseismic modelling of gravity modes - Published in JOSS (2024)
Minimalist And Customisable Optimisation Package
Minimalist And Customisable Optimisation Package - Published in JOSS (2021)
IBCAO_py
IBCAO_py: A matplotlib library for using the International Bathymetric Chart of the Arctic Ocean with cartopy and matplotlib - Published in JOSS (2017)
BluVision Macro - a software for automated powdery mildew and rust disease quantification on detached leaves.
BluVision Macro - a software for automated powdery mildew and rust disease quantification on detached leaves. - Published in JOSS (2020)
LightTwinSVM
LightTwinSVM: A Simple and Fast Implementation of Standard Twin Support Vector Machine Classifier - Published in JOSS (2019)
Reel1.0 - A visualization tool for evaluating powder diffraction refinements
Reel1.0 - A visualization tool for evaluating powder diffraction refinements - Published in JOSS (2021)
mikecalsetup
mikecalsetup: an open-source python tool for automatically creating calibration setups of MIKE SHE models in PEST or OSTRICH - Published in JOSS (2023)
LiGuard
LiGuard: Interactively and Rapidly Create Point-Cloud and Image Processing Pipelines - Published in JOSS (2025)
Multivariate Covariance Generalized Linear Models in Python
Multivariate Covariance Generalized Linear Models in Python: The mcglm library - Published in JOSS (2024)
DMT-core
DMT-core: A Python Toolkit for Semiconductor Device Engineers - Published in JOSS (2022)
DeepTrees: Tree Crown Segmentation and Analysis in Remote Sensing Imagery with PyTorch
DeepTrees: Tree Crown Segmentation and Analysis in Remote Sensing Imagery with PyTorch - Published in JOSS (2025)
pyelli
An open source ellipsometry analysis tool for reproducible and comprehensible building of optical models.
https://github.com/mphowardlab/lammpsio
Python tools for working with LAMMPS files
btllib
btllib: A C++ library with Python interface for efficient genomic sequence processing - Published in JOSS (2022)
SSAPy - Space Situational Awareness for Python
SSAPy - Space Situational Awareness for Python - Published in JOSS (2025)
Pore2Chip
Pore2Chip: All-in-one python tool for soil microstructure analysis and micromodel design - Published in JOSS (2025)
powerfactory-tools
A Python toolbox for the (external) control of DIgSILENT PowerFactory.
gedidb
A toolbox for processing and providing Global Ecosystem Dynamics Investigation (GEDI) L2A-B and L4A-C data
NeuroCAPs
NeuroCAPs: A Python Package for Performing Co-Activation Patterns Analyses on Resting-State and Task-Based fMRI Data - Published in JOSS (2025)
MiTfAT
MiTfAT: A Python-based Analysis Tool for Molecular fMRI Experiments. - Published in JOSS (2021)
GNU Data Language 1.0
GNU Data Language 1.0: a free/libre and open-source drop-in replacement for IDL/PV-WAVE - Published in JOSS (2022)
python-ags4
python-ags4: A Python library to read, write, and validate AGS4 geodata files - Published in JOSS (2022)
KeepDelta
KeepDelta: A Python Library for Human-Readable Data Differencing - Published in JOSS (2025)
Pyra
Pyra: Automated EM27/SUN Greenhouse Gas Measurement Software - Published in JOSS (2023)
Jabberwocky
Jabberwocky: an ontology-aware toolkit for manipulating text - Published in JOSS (2020)
SpectriPy
SpectriPy: Enhancing Cross-Language Mass Spectrometry Data Analysis with R and Python - Published in JOSS (2025)
PyCCEA
PyCCEA: A Python package of cooperative co-evolutionary algorithms for feature selection in high-dimensional data - Published in JOSS (2025)
COHESIVM
COHESIVM: Combinatorial h+/e- Sample Investigation using Voltaic Measurements - Published in JOSS (2025)
C4DYNAMICS: The Python framework for state-space modeling and algorithm development
C4DYNAMICS: The Python framework for state-space modeling and algorithm development - Published in JOSS (2025)
pengWann
pengWann: Descriptors of chemical bonding from Wannier functions - Published in JOSS (2025)
Blobmodel
Blobmodel: A Python package for generating superpositions of pulses in one and two dimensions - Published in JOSS (2025)
motila
Pipeline for analyzing microglial fine process motility from 4D/5D multi-photon imaging data
EXP
EXP: a Python/C++ package for basis function expansion methods in galactic dynamics - Published in JOSS (2025)
agweather-qaqc
agweather-qaqc: An Interactive Python Package for Quality Assurance and Quality Control of Daily Agricultural Weather Data and Calculation of Reference Evapotranspiration - Published in JOSS (2024)
rabpro
rabpro: global watershed boundaries, river elevation profiles, and catchment statistics - Published in JOSS (2022)
PyBispectra
PyBispectra: A toolbox for advanced electrophysiological signal processing using the bispectrum - Published in JOSS (2025)
PathSim - A System Simulation Framework
PathSim - A System Simulation Framework - Published in JOSS (2025)