DEPP - Differential Evolution Parallel Program
DEPP - Differential Evolution Parallel Program - Published in JOSS (2020)
PyMS
PyMS: Python for Mycorrhizal Symbiosis data analysis - Published in JOSS (2019)
SeqPeelSort
SeqPeelSort: a spike sorting algorithm for single sensillum recordings - Published in JOSS (2018)
TEfits
TEfits: Nonlinear regression for time-evolving indices - Published in JOSS (2020)
SISSO++
SISSO++: A C++ Implementation of the Sure-Independence Screening and Sparsifying Operator Approach - Published in JOSS (2022)
scikit-maad
Open-source and modular toolbox for quantitative soundscape analysis in Python
deflake.rs: Detect Flaky Tests in Rust Projects using Execution Data
deflake.rs: Detect Flaky Tests in Rust Projects using Execution Data - Published in JOSS (2025)
kinisi: Bayesian analysis of mass transport from molecular dynamics simulations
kinisi: Bayesian analysis of mass transport from molecular dynamics simulations - Published in JOSS (2024)
BaderKit: A Python Package for Grid-based Bader Charge Analysis
BaderKit: A Python Package for Grid-based Bader Charge Analysis - Published in JOSS (2026)
cytoscape-expand-collapse
A Cytoscape.js extension to expand/collapse nodes for better management of complexity of compound graphs
pytest
The pytest framework makes it easy to write small tests, yet scales to support complex functional testing
decimer
DECIMER Image Transformer is a deep-learning-based tool designed for automated recognition of chemical structure images. Leveraging transformer architectures, the model converts chemical images into SMILES strings, enabling the digitization of chemical data from scanned documents, literature, and patents.
SOLWEIG-GPU: GPU-Accelerated Thermal Comfort Modeling Framework for Urban Digital Twins
SOLWEIG-GPU: GPU-Accelerated Thermal Comfort Modeling Framework for Urban Digital Twins - Published in JOSS (2026)
geocat-examples
GeoCAT-examples provides a gallery of visualization examples demonstrating how to reproduce plots from NCL Applications scripts with packages in Python. It also includes some longer form examples demonstrating how to use functionality from various GeoCAT packages.
cytoscape-cose-bilkent
The CoSE layout for Cytoscape.js by Bilkent with enhanced compound node placement.
naturf
naturf: a package for generating urban parameters for numerical weather modeling - Published in JOSS (2024)