Software | Research Software Directory

Importing a Roman Transport network

Use open Roman datasets via and import them into a NetLogo model, using the ORBIS dataset (http://orbis.stanford.edu/) to create a set of Roman settlements and major routes between them.

1

2

Out of Africa - Conditional isotropic diffusion

A reimplementation of the classical study by Young and Bettinger (1992) investigating the possible drivers behind the Out of Africa dispersal of modern humans.

4

2

Landscape and Land Cover Generation

This algorithm generates landscapes and landcovers in contiguous zones. Users can define different landscape types, landcovers and rules for settlement placement in the setup procedure. It is designed to allow flexible configuration of environmental and social parameters.

1

2

SyGMa

SyGMa provides fast and lightweight predictions of human metabolites to support discovery scientists design better and safer drugs

Workflow technologies

Python

2

Artifact for the Paper "Fast Verified SCCs for Probabilistic Model Checking"

Correct-by-construction
Gabow
IRF
+ 13

3

2

Code underlying the publication: Maintenance Optimization for Multi-Component Systems with a Single Sensor

Condition-based maintenance
Inspection planning
Maintenance
+ 2

Python
Other

4

2

Code underlying the publication: "Self-Supervised PPG Representation Learning Shows High Inter-Subject Variability"

Autoencoder
Human Activity Recognition
Inter-Subject Variability
+ 3

Python
Other
Markdown
+ 1

3

2

Data underlying the publication: Fabrication and Characterization of Pneumatic Unit Cell Actuators

characterization
fabrication
haptic display
+ 4

Markdown

3

2

etv_scheduling

Code underlying the publication: An environmentally-aware dynamic planning of electric vehicles for aircraft towing considering stochastic aircraft arrival and departure times

Dynamic scheduling
Electric towing vehicles
Stochastic scheduling
+ 2

Python
Markdown
Other
+ 1

1

2

Hydrodynamic Analysis of Marine Structures-Marine Renewable Energies Lab (HAMS-MREL)

BIEM
HAMS
HAMS-MREL
+ 4

5

2

IUI2025_ConvXAI

User Interaction Dataset associated with IUI 2025 paper "Is Conversational XAI All You Need? Human-AI Decision Making With a Conversational XAI Assistant"

Appropriate Reliance
Conversational XAI Interface
Human-AI Decision Making

Jupyter Notebook
Python
Other
+ 1

3

2

mpcrl-for-ramp-metering

Source code for the publication: Reinforcement Learning with Model Predictive Control for Highway Ramp Metering

Model predictive control
Ramp Metering
Reinforcement learning

Python
Other
Markdown
+ 1

1

2

petcluster

Petrochemical cluster analysis tool

complex networks
Industrial cluster
industrial ecology
+ 2

Python
Other
Markdown

4

2

Software and data underlying the publication: Faithful Model Explanations through Energy-Constrained Conformal Counterfactuals

Classification and Regression
Deep Generative Models & Autoencoders
Humanities & Computational Social Science
+ 1

TeX
Other
Julia
+ 6

3

2

Visible vapor plumes in a tropical wet forest: R script

forest evaporation
lifting condensation layer
R script
+ 2

4

2

adhtools

Use adhtools for analyzing Arabic corpora.

Text analysis & natural language processing
Visualization
Workflow technologies

Jupyter Notebook
Python
Common Workflow Language
+ 1

2

dhdt

A photohypsometric Python library to estimate glacier elevation change via optical remote sensing imagery

geospatial
Glacier
image
+ 2

Python
TeX

2

duqtools

Duqtools is a tool for Dynamic Uncertainty Quantification for Tokamak reactor simulations modelling.

fusion-reactor
modelling
python
+ 2

Jupyter Notebook
Python
Shell

2

eEcology Tracker calendar

Calendar overview with daily statistics of GPS-trackers used to track bird movements.

Visualization

Python
Makefile
JavaScript
+ 5

1

2

Entangled

Entangled makes literate programming easier. It keeps markdown and program source in sync. This makes it more convenient to extend and debug your literate code.

Literate Programming
open science
python
+ 2

Python
C++
Makefile
+ 2

5

2

eOSSR

The eOSSR is the Python library to programmatically manage the ESCAPE OSSR.

jupyter-notebook
repository
research software
+ 2

Python
Dockerfile

4

2

ewatercycle

The eWaterCycle package makes it easier to use hydrological models without having intimate knowledge about how to install and run the models.

Inter-operability & linked data
Multi-scale & multi model simulations
Optimized data handling
+ 1

Python
Dockerfile

10

2

fairtally

Create comprehensive reports on compliance with the fair-software.nl recommendations.

Python
Shell
Dockerfile

4

2

fairworkflows

A python library for constructing, annotating and publishing scientific workflows described using semantic technologies.

Python
HTML
Common Workflow Language
+ 1

5

2

frbcatdb

A database to store a catalog of Fast Radio Bursts and expose them as Virtual Observation Events.

Optimized data handling

Python
Shell

2

frbcat-web

Provides an easy to-use web frontend to browse and filter the Fast Radio Burst Catalogue.

Optimized data handling
Visualization

JavaScript
CSS
HTML

1

2

MOTrainer

Measurement Operator Trainer for data assimilation purposes.

Data assimilation
High performance computing
Machine learning
+ 2

Jupyter Notebook
Python
TeX
+ 1

7

2

NEWSGAC platform

Software for running the online platform of the NEWSGAC project for running explainable machine learning models on textual data

Explainable AI
Machine learning
Text analysis & natural language processing

Jupyter Notebook
Python
HTML
+ 4

3

2

ochre

A tool to clean up text generated by OCR using individual words as well as their context.

Machine learning
Text analysis & natural language processing

Common Workflow Language
Jupyter Notebook
Python
+ 2

1

2

PathVisio

PathVisio is a free open-source software to curate biological pathway models.

bioinformatics
PathVisio
Systems Biology
+ 2

Java
HTML
JavaScript
+ 4

9

2

PIDIMEHS library

Showcases a diachronic analysis of the Dutch Royal Library's newspaper archive.

Big data
Real time data analysis
Text analysis & natural language processing
+ 1

2

pyglotaran

A Python library for Global and Target Analysis of time-resolved spectroscopy data

biophysics
global analysis
glotaran
+ 3

Python
Nix

4

2

Ricgraph - Research in context graph

With Ricgraph (Research in context graph), you can create a graph from research information that is stored in various source systems. You can explore this graph and discover relations you were not aware of.

graph
graph database
research in context graph
+ 2

Python
Makefile
Shell
+ 5

1

2

sfb-annotator

Annotate field books of natural history collections

Inter-operability & linked data

JavaScript
Java
CSS
+ 4

3

2

ShiCo

A visualization that shows how the meaning we attach to a given concept shifts over time.

Text analysis & natural language processing
Visualization

Python
JavaScript
HTML
+ 3

1

2

tortellini

GitHub action to check whether any licensing issues exist for given software.

TypeScript
JavaScript

4

2

Pedestrian random walk in NetLogo (ch2.1)

A collection of methods for random walk in NetLogo, including various movement restrictions, biases, and algorithm alternatives.

4

1

Place them on the map

Multiple agent placement in specific geographical location. Set up an input number of agents (turtles) at an input location (cell or patch) in an grid holding the input spatial data (map).

5

1

Epidemic Network

Experimental environment for testing of large array of theoretical conditions for development epidemic event within various quantitative, spatial and connectedness (network structure) aspects.

2

1

Preferential Attachment Network

This NetLogo algorithm simulates network formation using preferential attachment. New nodes are more likely to connect to existing nodes with higher degrees, reflecting a "lottery" system where popular nodes attract more links.

1

agda-core

Code underlying the publication: Building a Correct-By-Construction Type Checker for a Dependently Typed Core Language

core language
Dependent Types
type-checking
+ 2

Other
Haskell
YAML
+ 1

2

1

AutoEncodersDLSCA

Code underlying the publication: Autoencoder-enabled model portability for reducing hyperparameter tuning efforts in side-channel analysis

Autoencoders
Hyperparameter Tuning
Portability
+ 3

Python
Other
Markdown

1

Automated xy calibration for 3D printers using a scanner

3D printer
calibration
FDM
+ 11

3

1

Code supporting the paper: High-speed predictions of post-burn contraction using a neural network trained on 2D-finite element simulations

Feedforward neural network
Machine learning
Monte Carlo simulations
+ 2

3

1

Code to produce the results of the publication: “Reducing the Soleus Stretch Reflex with Conditioning: Exploring Game- and Impedance-based Biofeedback”

Electromyography (EMG)
Gamification
operant conditioning
+ 2

1

Code underlying the publication: Exploiting Learned Symmetries in Group Equivariant Convolutions

equivariance
equivariant convolutions
separable convolutions

Python
Other
Markdown

2

1

Code underlying the publication: "Humans disagree with the IoU for measuring object detector localization error."

Human preference
Intersection over Union (IoU)
Object detection

Jupyter Notebook
Other
Markdown

3

1

Code underlying the publication: "Video BagNet: short temporal receptive fields increase robustness in long-term action recognition"

3D-CNN
Action recognition
BagNet
+ 2

Python
Markdown
XML
+ 1

4

1

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