humanleague — Peer-reviewed • Rank 9.6 • Science 95%

humanleague: a C++ microsynthesis package with R and python interfaces - Published in JOSS (2018)

FeenoX — Peer-reviewed • Rank 6.6 • Science 98%

FeenoX: a cloud-first finite-element(ish) computational engineering tool - Published in JOSS (2024)

CeRULEo — Peer-reviewed • Rank 9.6 • Science 95%

CeRULEo: Comprehensive utilitiEs for Remaining Useful Life Estimation methOds - Published in JOSS (2023)

CutePeaks — Peer-reviewed • Rank 6.6 • Science 98%

CutePeaks: A modern viewer for Sanger trace file - Published in JOSS (2021)

primerForge — Peer-reviewed • Rank 4.6 • Science 100%

primerForge: a Python program for identifying primer pairs capable of distinguishing groups of genomes from each other - Published in JOSS (2024)

fairmetrics: An R package for group fairness evaluation • Rank 9.6 • Science 95%

fairmetrics: An R package for group fairness evaluation - Published in JOSS (2025)

Powering single-cell analyses in the browser with WebAssembly — Peer-reviewed • Rank 6.6 • Science 98%

Powering single-cell analyses in the browser with WebAssembly - Published in JOSS (2023)

delfies — Peer-reviewed • Rank 6.6 • Science 98%

delfies: a Python package for the detection of DNA breakpoints with neo-telomere addition - Published in JOSS (2025)

CoPro — Peer-reviewed • Rank 6.6 • Science 98%

CoPro: a data-driven modelling framework for conflict risk projections - Published in JOSS (2021)

PupillometryR — Peer-reviewed • Rank 11.6 • Science 93%

PupillometryR: An R package for preparing and analysing pupillometry data - Published in JOSS (2020)

txshift — Peer-reviewed • Rank 9.6 • Science 95%

txshift: Efficient estimation of the causal effects of stochastic interventions in R - Published in JOSS (2020)

PyBADS — Peer-reviewed • Rank 11.6 • Science 93%

PyBADS: Fast and robust black-box optimization in Python - Published in JOSS (2024)

GridFormat — Peer-reviewed • Rank 4.6 • Science 100%

GridFormat: header-only C++-library for grid file I/O - Published in JOSS (2023)

ATHENA — Peer-reviewed • Rank 4.6 • Science 100%

ATHENA: A Fortran package for neural networks - Published in JOSS (2024)

DCISolver.jl — Peer-reviewed • Rank 6.6 • Science 98%

DCISolver.jl: A Julia Solver for Nonlinear Optimization using Dynamic Control of Infeasibility - Published in JOSS (2022)

Mobilkit — Peer-reviewed • Rank 9.5 • Science 95%

Mobilkit: A Python Toolkit for Urban Resilience and Disaster Risk Management Analytics - Published in JOSS (2024)

GATree — Peer-reviewed • Rank 6.5 • Science 98%

GATree: Evolutionary decision tree classifier in Python - Published in JOSS (2024)

TDEP — Peer-reviewed • Rank 6.5 • Science 98%

TDEP: Temperature Dependent Effective Potentials - Published in JOSS (2024)

Terragon: A Unified Framework for Earth Observation Data Cube Generation • Rank 9.5 • Science 95%

Terragon: A Unified Framework for Earth Observation Data Cube Generation - Published in JOSS (2025)

Imagedata — Peer-reviewed • Rank 11.5 • Science 93%

Imagedata: A Python library to handle medical image data in NumPy array subclass Series - Published in JOSS (2022)

DiffCapAnalyzer — Peer-reviewed • Rank 9.5 • Science 95%

DiffCapAnalyzer: A Python Package for Quantitative Analysis of Total Differential Capacity Data - Published in JOSS (2020)

abspy — Peer-reviewed • Rank 11.5 • Science 93%

abspy: A Python package for 3D adaptive binary space partitioning and modeling - Published in JOSS (2025)

SATLLA0 — Peer-reviewed • Rank 4.5 • Science 100%

SATLLA0: A Flight Software Platform for Aerospace and STEM Education - Published in JOSS (2023)

Ethical Smart Grid — Peer-reviewed • Rank 4.5 • Science 100%

Ethical Smart Grid: a Gym environment for learning ethical behaviours - Published in JOSS (2023)

PyNM — Peer-reviewed • Rank 9.5 • Science 95%

PyNM: a Lightweight Python implementation of Normative Modeling - Published in JOSS (2022)

buildH — Peer-reviewed • Rank 9.5 • Science 95%

buildH: Build hydrogen atoms from united-atom molecular dynamics of lipids and calculate the order parameters - Published in JOSS (2021)

PIVA: Photoemission Interface for Visualization and Analysis • Rank 9.5 • Science 95%

PIVA: Photoemission Interface for Visualization and Analysis - Published in JOSS (2025)

ExpFamilyPCA.jl — Peer-reviewed • Rank 4.5 • Science 100%

ExpFamilyPCA.jl: A Julia Package for Exponential Family Principal Component Analysis - Published in JOSS (2025)

LATTE — Peer-reviewed • Rank 9.5 • Science 95%

LATTE: Lightcurve Analysis Tool for Transiting Exoplanets - Published in JOSS (2020)

Comrade — Peer-reviewed • Rank 9.5 • Science 95%

Comrade: Composable Modeling of Radio Emission - Published in JOSS (2022)

ExoTETHyS — Peer-reviewed • Rank 9.5 • Science 95%

ExoTETHyS: Tools for Exoplanetary Transits around host stars - Published in JOSS (2020)

OpenRepGrid.ic — Peer-reviewed • Rank 6.5 • Science 98%

OpenRepGrid.ic: A software for Interpretive Clustering - Published in JOSS (2023)

MIRP — Peer-reviewed • Rank 11.5 • Science 93%

MIRP: A Python package for standardised radiomics - Published in JOSS (2024)

Volume Segmantics — Peer-reviewed • Rank 6.4 • Science 98%

Volume Segmantics: A Python Package for Semantic Segmentation of Volumetric Data Using Pre-trained PyTorch Deep Learning Models - Published in JOSS (2022)

nicegui • Rank 27.4 • Science 77%

Create web-based user interfaces with Python. The nice way.

SarcGraph — Peer-reviewed • Rank 4.4 • Science 100%

SarcGraph: A Python package for analyzing the contractile behavior of pluripotent stem cell-derived cardiomyocytes - Published in JOSS (2023)

PyLithics — Peer-reviewed • Rank 4.4 • Science 100%

PyLithics: A Python package for stone tool analysis - Published in JOSS (2022)

CHAMP is a HPC Access and Metadata Portal — Peer-reviewed • Rank 4.4 • Science 100%

CHAMP is a HPC Access and Metadata Portal - Published in JOSS (2022)

Mango.jl — Peer-reviewed • Rank 4.4 • Science 100%

Mango.jl: A Julia-Based Multi-Agent Simulation Framework - Published in JOSS (2024)

diffsol: Rust crate for solving differential equations • Rank 17.4 • Science 87%

diffsol: Rust crate for solving differential equations - Published in JOSS (2026)

Geodata-Harvester — Peer-reviewed • Rank 6.4 • Science 98%

Geodata-Harvester: A Python package to jumpstart geospatial data extraction and analysis - Published in JOSS (2023)

splithalf — Peer-reviewed • Rank 9.4 • Science 95%

splithalf: robust estimates of split half reliability - Published in JOSS (2021)

Octopus Sensing — Peer-reviewed • Rank 9.4 • Science 95%

Octopus Sensing: A Python library for human behavior studies - Published in JOSS (2022)

Pynteny — Peer-reviewed • Rank 6.4 • Science 98%

Pynteny: a Python package to perform synteny-aware, profile HMM-based searches in sequence databases - Published in JOSS (2023)

simcardems — Peer-reviewed • Rank 9.4 • Science 95%

simcardems: A FEniCS-based cardiac electro-mechanics solver - Published in JOSS (2023)

hdme — Peer-reviewed • Rank 9.4 • Science 95%

hdme: High-Dimensional Regression with Measurement Error - Published in JOSS (2019)

Shekar: A Python Toolkit for Persian Natural Language Processing • Rank 11.4 • Science 93%

Shekar: A Python Toolkit for Persian Natural Language Processing - Published in JOSS (2025)

A reproducible Snakemake pipeline to analyse Illumina paired-end data from ChiP-Seq experiments — Peer-reviewed • Rank 4.4 • Science 100%

A reproducible Snakemake pipeline to analyse Illumina paired-end data from ChiP-Seq experiments - Published in JOSS (2019)

pyCeterisParibus — Peer-reviewed • Rank 9.4 • Science 95%

pyCeterisParibus: explaining Machine Learning models with Ceteris Paribus Profiles in Python - Published in JOSS (2019)

clustertools — Peer-reviewed • Rank 9.3 • Science 95%

clustertools: A Python Package for Analyzing Star Cluster Simulations - Published in JOSS (2023)

Districtgenerator — Peer-reviewed • Rank 6.3 • Science 98%

Districtgenerator: Generating building-specific load profiles for residential districts. - Published in JOSS (2025)

scikit-learn • Rank 40.3 • Science 64%

scikit-learn: machine learning in Python

robot_collision_checking — Peer-reviewed • Rank 4.3 • Science 100%

robot_collision_checking: A Lightweight ROS 2 Interface to FCL (Flexible Collision Library) - Published in JOSS (2025)

QuantizedSystemSolver — Peer-reviewed • Rank 4.3 • Science 100%

QuantizedSystemSolver: A discontinuous ODE system solver in Julia. - Published in JOSS (2025)

rgugik — Peer-reviewed • Rank 11.3 • Science 93%

rgugik: Search and Retrieve Spatial Data from the Polish Head Office of Geodesy and Cartography in R - Published in JOSS (2021)

WaveletsExt.jl — Peer-reviewed • Rank 6.3 • Science 98%

WaveletsExt.jl: Extending the boundaries of wavelets in Julia - Published in JOSS (2022)

R-Opitools – An Opinion Analytical Tool for Big Digital Text Document (DTD) — Peer-reviewed • Rank 9.3 • Science 95%

R-Opitools – An Opinion Analytical Tool for Big Digital Text Document (DTD) - Published in JOSS (2021)

ropenblas — Peer-reviewed • Rank 11.3 • Science 93%

ropenblas: Download, Compile and Link OpenBLAS Library with R - Published in JOSS (2021)

cirq • Rank 27.3 • Science 77%

Python framework for creating, editing, and invoking Noisy Intermediate-Scale Quantum (NISQ) circuits.

Grama — Peer-reviewed • Rank 9.3 • Science 95%

Grama: A Grammar of Model Analysis - Published in JOSS (2020)

scida — Peer-reviewed • Rank 9.3 • Science 95%

scida: scalable analysis for scientific big data - Published in JOSS (2024)

pykoop • Rank 9.3 • Science 95%

Koopman operator identification library in Python, compatible with `scikit-learn`

rsudp — Peer-reviewed • Rank 11.3 • Science 93%

rsudp: A Python package for real-time seismic monitoring with Raspberry Shake instruments - Published in JOSS (2021)

TDAstats — Peer-reviewed • Rank 11.3 • Science 93%

TDAstats: R pipeline for computing persistent homology in topological data analysis - Published in JOSS (2018)

lidarwind — Peer-reviewed • Rank 4.3 • Science 100%

lidarwind: A Python package for retrieving wind profiles from Doppler lidar observations - Published in JOSS (2023)

interflow — Peer-reviewed • Rank 4.3 • Science 100%

interflow: A Python package to organize, calculate, and visualize sectoral interdependency flow data - Published in JOSS (2022)

Caffeine — Peer-reviewed • Rank 6.3 • Science 98%

Caffeine: A parallel runtime library for supporting modern Fortran compilers - Published in JOSS (2025)

Bruker2nifti — Peer-reviewed • Rank 11.3 • Science 93%

Bruker2nifti: Magnetic Resonance Images converter from Bruker ParaVision to Nifti format - Published in JOSS (2017)

deepface • Rank 27.3 • Science 77%

A Lightweight Face Recognition and Facial Attribute Analysis (Age, Gender, Emotion and Race) Library for Python

GeoBO — Peer-reviewed • Rank 9.2 • Science 95%

GeoBO: Python package for Multi-Objective Bayesian Optimisation and Joint Inversion in Geosciences - Published in JOSS (2021)

eixport — Peer-reviewed • Rank 11.2 • Science 93%

eixport: An R package to export emissions to atmospheric models - Published in JOSS (2018)

stemflow — Peer-reviewed • Rank 9.2 • Science 95%

stemflow: A Python Package for Adaptive Spatio-Temporal Exploratory Model - Published in JOSS (2024)

SpmImage Tycoon — Peer-reviewed • Rank 6.2 • Science 98%

SpmImage Tycoon: Organize and analyze scanning probe microscopy data - Published in JOSS (2022)

DTW-C++ — Peer-reviewed • Rank 4.2 • Science 100%

DTW-C++: Fast dynamic time warping and clustering of time series data - Published in JOSS (2024)

snSMART — Peer-reviewed • Rank 9.2 • Science 95%

snSMART: An R Package for Small Sample, Sequential, Multiple Assignment, Randomized Trial Data Analysis - Published in JOSS (2024)

ImagingReso — Peer-reviewed • Rank 9.2 • Science 95%

ImagingReso: A Tool for Neutron Resonance Imaging - Published in JOSS (2017)

Sentiment Analysis of Twitter Data (saotd) — Peer-reviewed • Rank 9.2 • Science 95%

Sentiment Analysis of Twitter Data (saotd) - Published in JOSS (2019)

omni-fig — Peer-reviewed • Rank 9.2 • Science 95%

omni-fig: Unleashing Project Configuration and Organization in Python - Published in JOSS (2024)

MARTINI — Peer-reviewed • Rank 9.2 • Science 95%

MARTINI: The Little Match and Replace Tool for Automatic Code Rewriting - Published in JOSS (2022)

https://github.com/finsberg/fenicsx-beat • Rank 9.2 • Science 95%

pydynpd — Peer-reviewed • Rank 11.2 • Science 93%

pydynpd: A Python package for dynamic panel model - Published in JOSS (2023)

Moead-framework — Peer-reviewed • Rank 9.2 • Science 95%

Moead-framework: a modular MOEA/D Python framework - Published in JOSS (2022)

The Kestrel software for simulations of morphodynamic Earth-surface flows — Peer-reviewed • Rank 4.2 • Science 100%

The Kestrel software for simulations of morphodynamic Earth-surface flows - Published in JOSS (2024)

Rosalution — Peer-reviewed • Rank 4.2 • Science 100%

Rosalution: Supporting data accessibility, integration, curation, interoperability, and reuse for precision animal modeling - Published in JOSS (2023)

General binary file parser. — Peer-reviewed • Rank 9.2 • Science 95%

General binary file parser. - Published in JOSS (2018)

JavaPermutationTools — Peer-reviewed • Rank 6.2 • Science 98%

JavaPermutationTools: A Java Library of Permutation Distance Metrics - Published in JOSS (2018)

Metrics As Scores — Peer-reviewed • Rank 6.2 • Science 98%

Metrics As Scores: A Tool- and Analysis Suite and Interactive Application for Exploring Context-Dependent Distributions - Published in JOSS (2023)

cstag and cstag-cli — Peer-reviewed • Rank 11.2 • Science 93%

cstag and cstag-cli: tools for manipulating and visualizing cs tags - Published in JOSS (2024)

PySLSQP — Peer-reviewed • Rank 9.2 • Science 95%

PySLSQP: A transparent Python package for the SLSQP optimization algorithm modernized with utilities for visualization and post-processing - Published in JOSS (2024)

WhaleConnect — Peer-reviewed • Rank 4.2 • Science 100%

WhaleConnect: A General-Purpose, Cross-Platform Network Communication Application - Published in JOSS (2024)

pyprop8 — Peer-reviewed • Rank 9.2 • Science 95%

pyprop8: A lightweight code to simulate seismic observables in a layered half-space - Published in JOSS (2022)

QUIT — Peer-reviewed • Rank 9.1 • Science 95%

QUIT: QUantitative Imaging Tools - Published in JOSS (2018)

Sync Toolbox — Peer-reviewed • Rank 11.1 • Science 93%

Sync Toolbox: A Python Package for Efficient, Robust, and Accurate Music Synchronization - Published in JOSS (2021)

Python Active-subspaces Utility Library — Peer-reviewed • Rank 9.1 • Science 95%

Python Active-subspaces Utility Library - Published in JOSS (2016)

Fundus Image Toolbox — Peer-reviewed • Rank 9.1 • Science 95%

Fundus Image Toolbox: A Python package for fundus image processing - Published in JOSS (2025)

LINFA — Peer-reviewed • Rank 9.1 • Science 95%

LINFA: a Python library for variational inference with normalizing flow and annealing - Published in JOSS (2024)

A tool for qualitative data analysis designed to support computational thinking — Peer-reviewed • Rank 11.1 • Science 93%

A tool for qualitative data analysis designed to support computational thinking - Published in JOSS (2024)

nnTensor — Peer-reviewed • Rank 11.1 • Science 93%

nnTensor: An R package for non-negative matrix/tensor decomposition - Published in JOSS (2023)

ViMMS 2.0 — Peer-reviewed • Rank 9.1 • Science 95%

ViMMS 2.0: A framework to develop, test and optimise fragmentation strategies in LC-MS metabolomics - Published in JOSS (2022)

spectrapepper — Peer-reviewed • Rank 9.1 • Science 95%

spectrapepper: A Python toolbox for advanced analysis of spectroscopic data for materials and devices. - Published in JOSS (2021)