SunPy
SunPy: A Python package for Solar Physics - Published in JOSS (2020)
SALib
SALib: An open-source Python library for Sensitivity Analysis - Published in JOSS (2017)
tqdm
tqdm: A Fast, Extensible Progress Meter for Python and CLI - Published in JOSS (2019)
xclim
xclim: xarray-based climate data analytics - Published in JOSS (2023)
sourmash v4
sourmash v4: A multitool to quickly search, compare, and analyze genomic and metagenomic data sets - Published in JOSS (2024)
SpiceyPy
SpiceyPy: a Pythonic Wrapper for the SPICE Toolkit - Published in JOSS (2020)
scikit-fem
scikit-fem: A Python package for finite element assembly - Published in JOSS (2020)
pyhf
pyhf: pure-Python implementation of HistFactory statistical models - Published in JOSS (2021)
TextDescriptives
TextDescriptives: A Python package for calculating a large variety of metrics from text - Published in JOSS (2023)
scores
scores: A Python package for verifying and evaluating models and predictions with xarray - Published in JOSS (2024)
PsychroLib
PsychroLib: a library of psychrometric functions to calculate thermodynamic properties of air - Published in JOSS (2019)
TE-dependent analysis of multi-echo fMRI with tedana
TE-dependent analysis of multi-echo fMRI with tedana - Published in JOSS (2021)
New developments in PySDM and PySDM-examples v2
New developments in PySDM and PySDM-examples v2: collisional breakup, immersion freezing, dry aerosol initialization, and adaptive time-stepping - Published in JOSS (2023)
pyro
pyro: a framework for hydrodynamics explorations and prototyping - Published in JOSS (2019)
pentapy
pentapy: A Python toolbox for pentadiagonal linear systems - Published in JOSS (2019)
Pyglmnet
Pyglmnet: Python implementation of elastic-net regularized generalized linear models - Published in JOSS (2020)
physical_validation
physical_validation: A Python package to assess the physical validity of molecular simulation results - Published in JOSS (2022)
timeseriesflattener
timeseriesflattener: A Python package for summarizing features from (medical) time series - Published in JOSS (2023)
antimeridian
antimeridian: A Python package for correcting geometries that cross the 180th meridian - Published in JOSS (2025)
Underworld2
Underworld2: Python Geodynamics Modelling for Desktop, HPC and Cloud - Published in JOSS (2020)
biopeaks
biopeaks: a graphical user interface for feature extraction from heart- and breathing biosignals - Published in JOSS (2020)
PlanetMapper
PlanetMapper: A Python package for visualising, navigating and mapping Solar System observations - Published in JOSS (2023)
Pooltool
Pooltool: A Python package for realistic billiards simulation - Published in JOSS (2024)
xCDAT
xCDAT: A Python Package for Simple and Robust Analysis of Climate Data - Published in JOSS (2024)
AddaxAI
AddaxAI: A no-code platform to train and deploy custom YOLOv5 object detection models - Published in JOSS (2023)
Clouddrift
Clouddrift: a Python package to accelerate the use of Lagrangian data for atmospheric, oceanic, and climate sciences - Published in JOSS (2024)
CoastSeg
CoastSeg: an accessible and extendable hub for satellite-derived-shoreline (SDS) detection and mapping - Published in JOSS (2024)
OfflineMOT
OfflineMOT: A Python package for multiple objects detection and tracking from bird view stationary drone videos - Published in JOSS (2022)
PII-Codex
PII-Codex: a Python library for PII detection, categorization, and severity assessment - Published in JOSS (2023)
ewstools
ewstools: A Python package for early warning signals of bifurcations in time series data - Published in JOSS (2023)
Connectome Mapper 3
Connectome Mapper 3: A Flexible and Open-Source Pipeline Software for Multiscale Multimodal Human Connectome Mapping - Published in JOSS (2022)
BlueCelluLab
BlueCelluLab: Biologically Detailed Neural Network Experimentation API - Published in JOSS (2024)
WrightTools
WrightTools: a Python package for multidimensional spectroscopy - Published in JOSS (2019)
HRV
HRV: a Pythonic package for Heart Rate Variability Analysis - Published in JOSS (2020)
PolarToolkit
PolarToolkit: Python Tools for Convenient, Reproducible, and Open Polar Science - Published in JOSS (2024)
Kepler Mapper
Kepler Mapper: A flexible Python implementation of the Mapper algorithm. - Published in JOSS (2019)
stanscofi and benchscofi
stanscofi and benchscofi: a new standard for drug repurposing by collaborative filtering - Published in JOSS (2024)
buildH
buildH: Build hydrogen atoms from united-atom molecular dynamics of lipids and calculate the order parameters - Published in JOSS (2021)
ViMMS 2.0
ViMMS 2.0: A framework to develop, test and optimise fragmentation strategies in LC-MS metabolomics - Published in JOSS (2022)
Psifr
Psifr: Analysis and visualization of free recall data - Published in JOSS (2020)
pynguin
The PYthoN General UnIt Test geNerator is a test-generation tool for Python
graphenv
graphenv: a Python library for reinforcement learning on graph search spaces - Published in JOSS (2022)
cosasi
cosasi: Graph Diffusion Source Inference in Python - Published in JOSS (2022)
qsim
Fast C++ and Python library for state-vector simulation of quantum circuits.
catalystcoop.pudl
The Public Utility Data Liberation Project provides analysis-ready energy system data to climate advocates, researchers, policymakers, and journalists.
pastas
Pastas is an open-source Python framework for the analysis of groundwater time series.
pypartmc
Python (and C++) interface to PartMC with Jupyter/Python, Julia and Matlab examples
litstudy
LitStudy: Using the power of Python to automate scientific literature analysis from the comfort of a Jupyter notebook
runtest
:clapper: Numerically tolerant end-to-end test library for research software.
itk
Insight Toolkit (ITK) -- Official Repository. ITK builds on a proven, spatially-oriented architecture for processing, segmentation, and registration of scientific images in two, three, or more dimensions.
gstools
GSTools - A geostatistical toolbox: random fields, variogram estimation, covariance models, kriging and much more
transposonmapper
This repository contains the code for the transposonmapper package to map the transposons from the SATAY sequencing data.
atmospheric-inverse-methods-for-flux-optimization
Functions for optimizing surface fluxes of some tracer to be consistent with atmospheric measurements of that tracer.
cashocs
computational adjoint-based shape optimization and optimal control software for python
benchexec
BenchExec: A Framework for Reliable Benchmarking and Resource Measurement
numba-mpi
Numba @jit compatible wrappers for MPI C API tested on Linux, macOS and Windows
pyxem
An open-source Python library for multi-dimensional diffraction microscopy.
pysat
Generalized data analysis workflow via a consistent easy to use interface.
PyMPDATA v1
PyMPDATA v1: Numba-accelerated implementation of MPDATA with examples in Python, Julia and Matlab - Published in JOSS (2022)
kikuchipy
Toolbox for analysis of electron backscatter diffraction (EBSD) patterns
scikit-hep
Metapackage of Scikit-HEP project data analysis packages for Particle Physics.
python-dts-calibration
A Python package to load raw Distributed Temperature Sensing (DTS) files, perform a calibration, and plot the result.
kgml_waterbody-area
Using knowledge-guided machine learning to assess patterns of areal change in waterbodies across the contiguous US
geoschem-gcpy
Python toolkit for GEOS-Chem. Contains basic plotting scripts, plus the suite of GEOS-Chem benchmarking utilities.
pyelli
An open source ellipsometry analysis tool for reproducible and comprehensible building of optical models.
powergenome
A tool to quickly and easily create inputs for power systems models
