Synaptus
Synaptus: A Matlab/Octave toolbox for synthetic aperture ultrasound imaging - Published in JOSS (2022)
The 3D Slicer RVXLiverSegmentation plug-in for interactive liver anatomy reconstruction from medical images
The 3D Slicer RVXLiverSegmentation plug-in for interactive liver anatomy reconstruction from medical images - Published in JOSS (2022)
TSE
TSE: A triple stellar evolution code - Published in JOSS (2024)
AliasFinder
AliasFinder: A Python script to search for the true planetary frequency within radial velocity data - Published in JOSS (2020)
MSMExplorer
MSMExplorer: Data Visualizations for Biomolecular Dynamics - Published in JOSS (2017)
Bayesian model reconstruction based on spectral line observations with pomme
Bayesian model reconstruction based on spectral line observations with pomme - Published in JOSS (2024)
Excimontec v1.0
Excimontec v1.0: An Open-Source Software Tool for Kinetic Monte Carlo Simulations of Organic Electronic Devices - Published in JOSS (2020)
geocat-viz
GeoCAT-viz contains tools to help plot geoscience data, including convenience and plotting functions that are used to facilitate plotting geosciences data with Matplotlib, Cartopy, and other visualization packages.
FEniCS-arclength
FEniCS-arclength: A numerical continuation package in FEniCS for nonlinear problems in solid mechanics - Published in JOSS (2024)
GENRE (GPU Elastic-Net REgression)
GENRE (GPU Elastic-Net REgression): A CUDA-Accelerated Package for Massively Parallel Linear Regression with Elastic-Net Regularization - Published in JOSS (2020)
ShUShER
ShUShER: private browser-based placement of sensitive genome samples on phylogenetic trees - Published in JOSS (2021)
pollucheck v1.0
pollucheck v1.0: A package to explore open-source air pollution data - Published in JOSS (2021)
SeqIKPy: a Python package for inverse kinematics in insects
SeqIKPy: a Python package for inverse kinematics in insects - Published in JOSS (2026)
Taxonomy Resolver
Taxonomy Resolver: A Python package for building and filtering taxonomy trees - Published in JOSS (2025)
napari-clusters-plotter
A napari plugin for clustering objects according to their properties.
papaya2
papaya2: 2D Irreducible Minkowski Tensor computation - Published in JOSS (2020)
MSG
MSG: A software package for interpolating stellar spectra in pre-calculated grids - Published in JOSS (2023)
UPOsHam
UPOsHam: A Python package for computing unstable periodic orbits in two-degree-of-freedom Hamiltonian systems - Published in JOSS (2020)
TransiFlow: A Python package for performing bifurcation analysis on fluid flow problems
TransiFlow: A Python package for performing bifurcation analysis on fluid flow problems - Published in JOSS (2026)
Virtual Engineering: Python framework for engineering process design
Virtual Engineering: Python framework for engineering process design - Published in JOSS (2025)