jsPsych
jsPsych: Enabling an Open-Source Collaborative Ecosystem of Behavioral Experiments - Published in JOSS (2023)
alchemlyb
alchemlyb: the simple alchemistry library - Published in JOSS (2024)
DrWatson
DrWatson: the perfect sidekick for your scientific inquiries - Published in JOSS (2020)
ReproZip
ReproZip: The Reproducibility Packer - Published in JOSS (2016)
OpenSpace
OpenSpace: An open-source astrovisualization framework - Published in JOSS (2017)
Rdataretriever
Rdataretriever: R Interface to the Data Retriever - Published in JOSS (2021)
<code>gollum</code>
<code>gollum</code>: An intuitive programmatic and visual interface for precomputed synthetic spectral model grids - Published in JOSS (2024)
Nextclade
Nextclade: clade assignment, mutation calling and quality control for viral genomes - Published in JOSS (2021)
A Python Library for Pre- and Post-Processing of DAMASK Simulations
A Python Library for Pre- and Post-Processing of DAMASK Simulations - Published in JOSS (2025)
PlanetMapper
PlanetMapper: A Python package for visualising, navigating and mapping Solar System observations - Published in JOSS (2023)
TopoPyScale
TopoPyScale: A Python Package for Hillslope Climate Downscaling - Published in JOSS (2023)
ThermoParser
ThermoParser: Streamlined Analysis of Thermoelectric Properties - Published in JOSS (2024)
Simframe
Simframe: A Python Framework for Scientific Simulations - Published in JOSS (2022)
pyPhenology
pyPhenology: A python framework for plant phenology modelling - Published in JOSS (2018)
pymeasure
Scientific measurement library for instruments, experiments, and live-plotting
G'MIC
G'MIC: An Open-Source Self-Extending Framework for Image Processing - Published in JOSS (2025)
maxsmooth
maxsmooth: Derivative Constrained Function Fitting - Published in JOSS (2020)
cwl_runner
Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊
APAV
APAV: An Open-Source Python Package for Mass Spectrum Analysis in Atom Probe Tomography - Published in JOSS (2023)
maidr-legacy
[DEPRECATED prototype] Multimodal Access and Interactive Data Representation
qmflows
This library tackles the construction and efficient execution of computational chemistry workflows
ShakeNBreak
ShakeNBreak: Navigating the defect configurational landscape - Published in JOSS (2022)
nano-qmflows
Package containing several workflows to compute molecular properties for nanomaterials
lumin
LUMIN - a deep learning and data science ecosystem for high-energy physics.
gstools
GSTools - A geostatistical toolbox: random fields, variogram estimation, covariance models, kriging and much more
adapt-diagnostics
A package for designing activity-informed nucleic acid diagnostics for viruses.
datahugger
One downloader for many scientific data and code repositories! DOI :open_hands: Data
spectrafit
📊📈🔬 SpectraFit is a command-line and Jupyter-notebook tool for quick data-fitting based on the regular expression of distribution functions.
https://github.com/bluebrain/bioexplorer
The Blue Brain BioExplorer (BBBE) is a tool for data visualization experts and scientists to extract and analyze scientific data from visualization and interactive exploration
VAPOR
VAPOR is the Visualization and Analysis Platform for Ocean, Atmosphere, and Solar Researchers
pymatgen
Python Materials Genomics (pymatgen) is a robust materials analysis code that defines classes for structures and molecules with support for many electronic structure codes. It powers the Materials Project.
mdanalysis
MDAnalysis is a Python library to analyze molecular dynamics simulations.
academic-observatory-workflows
Telescopes, Workflows and Data Services for the Academic Observatory
gromacswrapper
GromacsWrapper wraps system calls to GROMACS tools into thin Python classes (GROMACS 4.6.5 - 2024 supported).
hn2016_falwa
Python library for computing Finite-Amplitude Local Wave Activity Diagnostics from climate data.
lintf2_ether_ana_postproc
Analysis postprocessing utilities for my molecular dynamics simulations of LiTFSI-Ether mixtures
auto-fox
A library for analyzing potential energy surfaces (PESs) and using the resulting PES descriptors for constructing forcefield parameters.
loris
LORIS is a web-accessible database solution for longitudinal multi-site studies.
gval
A high-level Python framework to evaluate the skill of geospatial datasets by comparing candidates to benchmark maps producing agreement maps and metrics.
stellarium
Stellarium is a free GPL software which renders realistic skies in real time with OpenGL. It is available for Linux/Unix, Windows and macOS. With Stellarium, you really see what you can see with your eyes, binoculars or a small telescope.
neurodocker
Generate custom Docker and Singularity images, and minimize existing containers
lib_rapid
An optimised derivative of the LibRapid C++ library. Made with love for mathematics and computer science.
scperturb
scPerturb: A resource and a python/R tool for single-cell perturbation data
particula
Particula is an open-source, Python-based aerosol simulator. Particula captures gas-particle interactions, transformations, and dynamics to power predictive aerosol science.
https://github.com/dallinger/dallinger
Laboratory automation for the behavioral and social sciences; human culture on a chip.
https://github.com/jspsych/jspsych-contrib
An open repository of jsPsych plugins and extensions, without any official support
https://github.com/abinit/abipy
Open-source library for analyzing the results produced by ABINIT
remoterenderedvr
Prototype for conducting experiments with remote rendering for VR.
https://github.com/broadinstitute/gatk
Official code repository for GATK versions 4 and up