Graphorge: An open-source forge of graph neural networks • Science 87%

Graphorge: An open-source forge of graph neural networks - Published in JOSS (2026)

tangram, an open platform for modular, real-time air traffic management research • Science 96%

tangram, an open platform for modular, real-time air traffic management research - Published in JOSS (2025)

simulist • Science 67%

An R package for simulating line lists

https://github.com/alcrene/emdcmp • Science 49%

Original implementation of the EMD (empirical model discrepancy) model comparison criterion

https://github.com/albertzhaoca/albertzhaoca • Science 44%

https://github.com/alberto-santini/kpgf • Science 49%

The 0-1 Knapsack Problem with Group Fairness

sysexits-f18 • Science 44%

A Fortran 2018 version of the sysexits.h codes.

powerfactory-tools • Science 75%

A Python toolbox for the (external) control of DIgSILENT PowerFactory.

times_model • Science 23%

The Integrated MARKAL-EFOM System (TIMES) - a bottom-up optimization model for energy-environment systems

lielab • Science 44%

Numerical Lie-theory in C++ and Python.

testsite • Science 44%

morpheus-oracle • Science 44%

Auto-tuners for automatic sparse matrix format selection.

baysc: An R package for Bayesian survey clustering • Science 87%

baysc: An R package for Bayesian survey clustering - Published in JOSS (2026)

mspconverter • Science 44%

A package to convert tandem mass spectra files from MSP to MGF format

dos-detection-on-network-data • Science 44%

biodiscvr: Biomarker Discovery Using Composite Value Ratios • Science 87%

biodiscvr: Biomarker Discovery Using Composite Value Ratios - Published in JOSS (2026)

Napari-3D-Counter: A manual cell counter for napari • Science 87%

Napari-3D-Counter: A manual cell counter for napari - Published in JOSS (2026)

retrieveseq • Science 44%

RetrieveSeq is a GUI application that performs batch download of how many gene sequences you wish from Ensembl database. Mind you: this application is still under development. Our goal is to increase its functions, as well as provide more database options.

PySGN: A Python package for constructing synthetic geospatial networks • Science 87%

PySGN: A Python package for constructing synthetic geospatial networks - Published in JOSS (2026)

kms-nl • Science 44%

tekstboek Kwantitatieve Methoden en Statistiek (Nederlandstalige versie, NL), beschikbaar via https://hugoquene.github.io/KMS-NL/

mapping-pipeline • Science 44%

This repo will combine all the steps of mapping EHR data to the CAPACITY registry in one big docker-compose file

evoxels: A differentiable physics framework for voxel-based microstructure simulations • Science 87%

evoxels: A differentiable physics framework for voxel-based microstructure simulations - Published in JOSS (2026)

bua-vivo-ontology-extensions • Science 67%

Extensions to VIVO ontologies describing entities in the German academic domain

OptiGob: A decision support tool for Agriculture, Forestry and Other Land Use transitions • Science 87%

OptiGob: A decision support tool for Agriculture, Forestry and Other Land Use transitions - Published in JOSS (2026)

csv-demo • Science 44%

Tissue Data Explorer: a website template for presenting tissue sample research findings • Science 95%

Tissue Data Explorer: a website template for presenting tissue sample research findings - Published in JOSS (2026)

pmv-si-2023-2-pe5-t4-t5-grp04 • Science 44%

pmv-si-2023-2-pe5-t4-t5-grp04 created by GitHub Classroom

targene-pipeline • Science 44%

Nextflow pipeline for Targeted-Learning of genetic effects

perihpx • Science 67%

Implementation of finite element and finite difference approximation of Nonlocal models

yolov8 • Science 44%

SkyRank: a unified toolkit for Skyline ranking, benchmarking, and visualization • Science 87%

SkyRank: a unified toolkit for Skyline ranking, benchmarking, and visualization - Published in JOSS (2026)

etl-forge • Science 54%

ParaDigMa: a Python toolbox for extracting Parkinson's disease digital biomarkers from daily life wrist sensor data • Science 92%

ParaDigMa: a Python toolbox for extracting Parkinson's disease digital biomarkers from daily life wrist sensor data - Published in JOSS (2026)

rmcmc • Science 57%

Robust Markov chain Monte Carlo methods in R

starship • Science 44%

Starship OpenVSP models and related material

titan • Science 67%

Tight-binding suite code for electronic structure of nanomaterials

datatidy24sta5069z • Science 44%

Tidy data for analysis for STA5069Z course

coronaryarteries • Science 44%

opentransportontology • Science 44%

Repository for the Open Transport Ontology (OTO)

xr_fresh: Automated Time Series Feature Extraction for Remote Sensing & Gridded Data • Science 93%

xr_fresh: Automated Time Series Feature Extraction for Remote Sensing & Gridded Data - Published in JOSS (2025)

clubes_de_ciencias_sdms • Science 54%

Material for 1 week course in species distribution modeling using R notebooks, MaxEnt, and GIS packages.

Chemical Recommender System: Replacement Suggestions for Small Molecules • Science 87%

Chemical Recommender System: Replacement Suggestions for Small Molecules - Published in JOSS (2026)

SpectralUnmixing • Science 44%

Spectral unmixing, oriented towards imaging spectroscopy data. Lots of flavors included.

MujocoROS2Control: Seamless MuJoCo Integration with ROS 2 for Robot Simulation and Control • Science 87%

MujocoROS2Control: Seamless MuJoCo Integration with ROS 2 for Robot Simulation and Control - Published in JOSS (2025)

circhist • Science 54%

CircHist - circular / polar / angle histogram in MATLAB

emgflow • Science 44%

Github repository for the EMGFlow Python package.

paranormal_investigators • Science 44%

redm • Science 52%

Applications of Empirical Dynamic Modeling from Time Series

MatrixBandwidth • Science 44%

Fast algorithms for matrix bandwidth minimization and matrix bandwidth recognition in Julia.

WorMe: A user-oriented software for <em>Caenorhabditis elegans</em> length determination • Science 87%

WorMe: A user-oriented software for <em>Caenorhabditis elegans</em> length determination - Published in JOSS (2025)

molify: Molecular Structure Interface • Science 87%

molify: Molecular Structure Interface - Published in JOSS (2025)

dispersiveshallowwater.jl • Science 67%

A Julia library of structure-preserving numerical methods for dispersive wave equations

tiapn-template • Science 44%

Template para a disciplina de TI: APLICAÇÕES PARA PROCESSOS DE NEGÓCIOS

qick • Science 44%

eucanscreenwp5_demo_aspire • Science 54%

Demo version for the 2025_02_06 meeting. The tools are shown with an example model and a simple R script.

highlighting-errors-and-correcting-hec- • Science 44%

This code walks the user through the process of correcting training data labels and cutting out erroneous data

grepq — Peer-reviewed • Science 98%

grepq: A Rust application that quickly filters FASTQ files by matching sequences to a set of regular expressions - Published in JOSS (2025)

gibbonNetR — Peer-reviewed • Science 93%

gibbonNetR: an R Package for the Use of Convolutional Neural Networks for Automated Detection of Acoustic Data - Published in JOSS (2025)

pothole • Science 54%

gtexr — Peer-reviewed • Science 98%

gtexr: A convenient R interface to the Genotype-Tissue Expression (GTEx) Portal API - Published in JOSS (2025)

pratical-session-nlp-for-one-health-murdoch-mood • Science 67%

Pratical session NLP For One Health - Murdoch Mood

kg2 • Science 67%

shorttime • Science 44%

project • Science 44%

The monorepo containing all code for the QED project

myseg-mmseg • Science 44%

os-test • Science 44%

Test

pfas-survey • Science 85%

air-pollution-mobility-research-project • Science 44%

genetic-algorithms • Science 44%

Simple examples of genetic algorithms

graph-coloring • Science 44%

Wigderson's Approximate Graph Coloring Algorithm

tesis2 • Science 44%

how-to-doc-guidelines • Science 57%

How-to use the Australian BioCommons documentation guidelines

faster-r-cnn-neutron-images • Science 44%

icse-seip2025-anomaly-detector-public • Science 67%

This repository contains the code implementation for the ICSE SEIP 2025 paper titled "Anomaly Detection in Large-Scale Cloud Systems: An Industry Case and Dataset."

ultraplot • Science 67%

A succint wrapper for matplotlib

ml-resources • Science 52%

Resources for ML pipelines

tsdetect • Science 44%

TSDetect is an open-source test smell detection tool. TSDetect is available as an IntelliJ plugin and command-line tool.

vsat • Science 67%

Velocity Structure Analysis Tool

3d_endoscopy • Science 44%

arvizz • Science 67%

test-csv-template • Science 44%

fsquadra • Science 44%

Fast detection of repackaged Android applications based on the comparison of resource files included into the package.

paper_summarize • Science 54%

earnings • Science 44%

Equity earnings Python package (confirmed calendar, news articles, earnings transcripts, ...)

hicup-plus • Science 49%

Hi-C data processing pipeline (with Dragen, HiSAT2, or STAR aligner)

ldacs-dijkstra • Science 67%

ldacs-greedy-k-hop-simulator • Science 49%

faceblurring • Science 44%

mydef • Science 44%

Programming in the next paradigm -- your way

flight-visualiser • Science 44%

sheffieldptycho • Science 44%

MATLAB ptychography engines from Sheffield University

drugdeliverybuongiornopimplefoam • Science 54%

An OpenFOAM's solver for drug delivery and unsteady forced convection heat transfer of nanofluid using the Buongiorno model to consider nanoparticle distribution.

workshop-git • Science 44%

for the workshop on Git

pipelines_inmegen • Science 44%

Flujos de trabajos desarrollados y automatizados en el Intituto Nacional de Medicina Genómica para el procesamiento de datos genómicos y transcriptómicos.

hpc-intro-sanger • Science 44%

Introduction to HPC for Sanger DTP

obitools_workflow • Science 67%

A snakemake workflow based on the obitools suite of programs, that analyzes DNA metabarcoding data.

eoscf-autocompletion • Science 44%

sme-llm • Science 54%

pteridocat • Science 67%

A taxonomic database of pteridophytes

gtk-fortran — Peer-reviewed • Science 54%

gtk-fortran: a GTK+ binding to build Graphical User Interfaces in Fortran - Published in JOSS (2019)