AGNI
AGNI: A radiative-convective model for lava planet atmospheres - Published in JOSS (2025)
medrxivr
medrxivr: Accessing and searching medRxiv and bioRxiv preprint data in R - Published in JOSS (2020)
bayes_spec
bayes_spec: A Bayesian Spectral Line Modeling Framework for Astrophysics - Published in JOSS (2024)
cartography
cartography: Create and Integrate Maps in your R Workflow - Published in JOSS (2016)
geocmeans
geocmeans: An R package for spatial fuzzy c-means - Published in JOSS (2023)
MMM
MMM: A C++ library for simulating large herbivores - Published in JOSS (2021)
Logodetect
Logodetect: One-shot detection of logos in image and video data - Published in JOSS (2022)
aion
aion: An R Package to Represent Archaeological Time Series - Published in JOSS (2024)
qtl2pleio
qtl2pleio: Testing pleiotropy vs. separate QTL in multiparental populations - Published in JOSS (2019)
bíogo/ncbi
bíogo/ncbi: interfaces to NCBI services for the Go language - Published in JOSS (2017)
mcbette
mcbette: model comparison using babette - Published in JOSS (2020)
GFAKluge
GFAKluge: A C++ library and command line utilities for the Graphical Fragment Assembly formats - Published in JOSS (2019)
bikedata
bikedata - Published in JOSS (2017)
shmlast
shmlast: An improved implementation of Conditional Reciprocal Best Hits with LAST and Python - Published in JOSS (2017)
DetectorChecker
DetectorChecker: analyzing patterns of defects in detector screens - Published in JOSS (2020)
gym-saturation
gym-saturation: an OpenAI Gym environment for saturation provers - Published in JOSS (2022)
DE-Sim
DE-Sim: an object-oriented, discrete-event simulation tool for data-intensive modeling of complex systems in Python - Published in JOSS (2020)
CancerSim
CancerSim: A Cancer Simulation Package for Python 3 - Published in JOSS (2020)
pyscses
pyscses: a PYthon Space-Charge Site-Explicit Solver - Published in JOSS (2019)
Gillespie.jl: Stochastic Simulation Algorithm in Julia
Gillespie.jl: Stochastic Simulation Algorithm in Julia - Published in JOSS (2016)
cuIBM
cuIBM: a GPU-based immersed boundary method code - Published in JOSS (2017)
PetIBM
PetIBM: toolbox and applications of the immersed-boundary method on distributed-memory architectures - Published in JOSS (2018)
tacmagic
tacmagic: Positron emission tomography analysis in R - Published in JOSS (2019)
geoclaw-landspill
geoclaw-landspill: an oil land-spill and overland flow simulator for pipeline rupture events - Published in JOSS (2021)
refsplitr
refsplitr: Author name disambiguation, author georeferencing, and mapping of coauthorship networks with Web of Science data - Published in JOSS (2020)
concstats
concstats: Market Structure, Concentration and Inequality Measures, with R - Published in JOSS (2023)
The SuiteSparse Matrix Collection Website Interface
The SuiteSparse Matrix Collection Website Interface - Published in JOSS (2019)
ticktack
ticktack: A Python package for carbon box modelling - Published in JOSS (2023)
RNMC
RNMC: kinetic Monte Carlo implementations for complex reaction networks - Published in JOSS (2024)
chloroExtractor
chloroExtractor: extraction and assembly of the chloroplast genome from whole genome shotgun data - Published in JOSS (2018)
Ensight4Matlab
Ensight4Matlab: read, process, and write files in EnSight® Gold format from C++ or MATLAB® - Published in JOSS (2017)
Panako
Panako: a scalable audio search system - Published in JOSS (2022)
Samewords
Samewords: Automatic word disambigation in critical text editions - Published in JOSS (2019)
MiSTree
MiSTree: a Python package for constructing and analysing Minimum Spanning Trees - Published in JOSS (2019)
kima
kima: Exoplanet detection in radial velocities - Published in JOSS (2018)
Varistran
Varistran: Anscombe's variance stabilizing transformation for RNA-seq gene expression data - Published in JOSS (2017)
The MFrontGenericInterfaceSupport project
The MFrontGenericInterfaceSupport project - Published in JOSS (2020)
G³M-f a global gradient-based groundwater modelling framwork
G³M-f a global gradient-based groundwater modelling framwork - Published in JOSS (2018)
malan
malan: MAle Lineage ANalysis - Published in JOSS (2018)
COSplay
COSplay: Contrast Optimized Stimulation Player - Published in JOSS (2019)
Git-RDM
Git-RDM: A research data management plugin for the Git version control system - Published in JOSS (2016)
CoreRobotics
CoreRobotics: An object-oriented C++ library with cross-language wrappers for cross-platform robot control - Published in JOSS (2018)
graphenv
graphenv: a Python library for reinforcement learning on graph search spaces - Published in JOSS (2022)
WDPM
WDPM: the Wetland DEM Ponding Model - Published in JOSS (2021)
bleiglas
bleiglas: An R package for interpolation and visualisation of spatiotemporal data with 3D tessellation - Published in JOSS (2021)
treemaker
treemaker: A Python tool for constructing a Newick formatted tree from a set of classifications. - Published in JOSS (2018)
rOPTRAM
rOPTRAM: Deriving Soil Moisture from Satellite Imagery in R - Published in JOSS (2024)
easyvvuq
Python 3 framework to facilitate verification, validation and uncertainty quantification (VVUQ) for a wide variety of simulations.
PyMap3D
PyMap3D: 3-D coordinate conversions for terrestrial and geospace environments - Published in JOSS (2018)
Phylogemetric
Phylogemetric: A Python library for calculating phylogenetic network metrics - Published in JOSS (2016)
TraitDB
TraitDB: Web application database of phenotypic trait data. - Published in JOSS (2019)
The stantargets R package
The stantargets R package: a workflow framework for efficient reproducible Stan-powered Bayesian data analysis pipelines - Published in JOSS (2021)
VCC
VCC: A framework for building containerized reproducible cluster software environments - Published in JOSS (2017)
PoUnce
PoUnce: A framework for automatized uncertainty quantification simulations on high-performance clusters - Published in JOSS (2023)
reper
reper: Genome-wide identification, classification and quantification of repetitive elements without an assembled genome - Published in JOSS (2018)
A Python module to combine $p$ values arising from discrete tests.
A Python module to combine $p$ values arising from discrete tests. - Published in JOSS (2024)
ACEInhibPKPD
ACEInhibPKPD: An open-source MATLAB app for a pharmacokinetic/pharmacodynamic model of ACE inhibition - Published in JOSS (2017)
xesn
xesn: Echo state networks powered by Xarray and Dask - Published in JOSS (2024)
idvf
idvf: Iterative Inversion of Deformation Vector Field with Adaptive Bi-residual Feedback Control - Published in JOSS (2019)
fellingdater
fellingdater: a toolkit to estimate, report and combine felling dates derived from historical tree-ring series - Published in JOSS (2024)
cowfootR: An R Package for Dairy Farm Carbon Footprint Assessment
cowfootR: An R Package for Dairy Farm Carbon Footprint Assessment - Published in JOSS (2026)
sdmbench
sdmbench: R package for benchmarking species distribution models - Published in JOSS (2018)
fibergen
fibergen: An introductory tool for FFT-based material homogenization - Published in JOSS (2019)
SymbiotaR2
SymbiotaR2: An R Package for Accessing Symbiota2 Data - Published in JOSS (2020)
stacomiR
stacomiR : a common tool for monitoring fish migration - Published in JOSS (2019)
whalestrike
whalestrike: An R package for simulating ship strikes on whales - Published in JOSS (2024)
@kit-data-manager/react-pid-component
The PID-Component is a web component that can be used to display PIDs, ORCiDs, and possibly other identifiers in a user-friendly way. It is easily extensible to support other identifier types.
Discrete Laplace mixture model with applications in forensic genetics
Discrete Laplace mixture model with applications in forensic genetics - Published in JOSS (2018)
ersilia
The Ersilia Model Hub, a repository of AI/ML models for infectious and neglected disease research.
integron_finder
Bioinformatics tool to find integrons in bacterial genomes
RxInfer
RxInfer: A Julia package for reactive real-time Bayesian inference - Published in JOSS (2023)
iga
IGA is the InvenioRDM GitHub Archiver, a standalone program as well as a GitHub Action that lets you automatically archive GitHub software releases in an InvenioRDM repository.
macsyfinder
MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.
widoco
Wizard for documenting ontologies. WIDOCO is a step by step generator of HTML templates with the documentation of your ontology. It uses the LODE environment to create part of the template.
geoextent
Python library for extrating geospatial extent of files and directories with multiple data formats
biorad
R package for analysis and visualisation of biological signals in weather radar data
o2r-meta
Metadata toolsuite for an extract-map-validate workflow supporting reproducible research
khroma
Colour Schemes for Scientific Data Visualization - :exclamation: This is a read-only mirror from https://codeberg.org/tesselle/khroma
python-neo
Neo is a package for representing electrophysiology data in Python, together with support for reading a wide range of neurophysiology file formats