Software | Research Software Directory

Dataset of human gait in a domestic setup collected with an LFMCW MIMO radar

doppler signature
fmcw radar
gait
+ 4

4

6

Learning_on_SCs

Code underlying: Hodge-Aware Convolutional Learning on Simplicial Complexes

Hodge theorem
neural networks
simplicial complexes

Markdown
Other
Python
+ 1

1

6

MATLAB scripts created during the work on "Design of experiments: a statistical tool for PIV uncertainty quantification"

Design of Experiement (DOE)
Particle Image Velocimetry
systematic uncertainty
+ 1

2

6

np_heating

Code for the modeling of heating around plasmonic core–shell nanoparticles

Heat transfer
Photothermal effect
Plasmonic nanoparticles
+ 1

Markdown
Other
Python

2

6

RoIPoly

Source code for “RoIPoly: Vectorized Building Outline Extraction Using Vertex and Logit Embeddings”

aerial imagery
building footprint extraction
instance segmentation
+ 4

C
C++
Markdown
+ 4

4

6

Script for: AID-PRIGSHARE: Automation of Indicator Development for Green Space Health Research in QGIS

buffer
gis
greenness
+ 2

Markdown
Other
Python

1

6

Script underlying the paper "On Robustly Convergent and Efficient Iterative Methods for Anisotropic Radiative Transfer"

acceleration
anisotropic
preconditioning
+ 3

3

6

SNAPWF

Code underlying the publication: Automated Python workflow for generating Sentinel-1 PSI and SBAS interferometric stacks using SNAP on Geospatial Computing Platform

InSAR
Interferometric Stacks
Open-Source Tools
+ 2

Jupyter Notebook
Markdown
Python
+ 1

7

6

stable-dmpc-pwa

Software underlying publication: Distributed model predictive control for piecewise affine systems based on switching ADMM

Alternating direction method of multipliers (ADMM)
distributed model predictive control (MPC)
networked systems
+ 1

Markdown
Matlab
Other
+ 1

1

6

swinging-kite

Swinging Motion of a Kite with Suspended Control Unit Flying Turning Manoeuvres (Code)

Airborne Wind Energy (AWE)
Flight data analysis
Kite power
+ 2

Markdown
Other
Python
+ 1

1

6

eEcology Annotation Tool

Visualize and annotate GPS measurements of bird movements.

Inter-operability & linked data
Visualization

API Blueprint
CSS
Dockerfile
+ 5

1

6

PerfectFit

This is a virtual coach system that coaches users into being more physically active and stop smoking.

Big data
health

Gherkin
JavaScript
Shell

5

6

PSSMGen

Generates consistent PSSM and PDB files for protein-protein complexes

Big data
High performance computing
Optimized data handling

Makefile
Python

2

6

rWikiPathways

Use this package to interface with the WikiPathways API. It provides programmatic access to WikiPathways content in multiple data and image formats, including official monthly release files and convenient GMT read/write functions.

bioinformatics
WikiPathways

HTML
R
TeX

2

6

sv-channels

Genome-wide detection of structural variants using deep learning

Machine learning

Jupyter Notebook
Python
R
+ 1

4

6

TulipaEnergyModel

This package provides an optimization model for the electricity market and its coupling with other energy sectors. The objective is to determine the optimal investment and operation decisions for different types of assets.

Energy system analysis
Energy system modelling
Integrated energy systems
+ 4

Julia
Python
Ruby
+ 2

9

6

Reference evapotranspiration (FAO-56)

Calculate a daily value of reference evapotranspiration, useful for vegetation (incl. crop) models. The module code is based on FAO-56 Penman-Monteith method.

1

5

3D Slicer

3D Slicer is a free, open source software for visualization, processing, segmentation, registration, and analysis of medical, biomedical, and other 3D images and meshes; and planning and navigating image-guided procedures.

3D
3DSlicer
Extension
+ 7

C
C++
CMake
+ 6

4

5

Automated xy calibration for 3D printers using a scanner

3D printer
calibration
FDM
+ 11

3

5

Code supporting the paper: Sensitivity of a two-dimensional biomorphoelastic model for post-burn contraction

burn
cell proliferation
MATLAB
+ 4

4

5

Code supporting the paper: Stability of a one-dimensional morphoelastic model for post-burn contraction

Burns
MATLAB
Morphoelasticity
+ 3

3

5

Code supporting the publication: BAN: detecting backdoors activated by adversarial neuron noise.

Adversarial Noise
Backdoor Defense
Backdoor Trigger Inversion
+ 3

JSON
Jupyter Notebook
Markdown
+ 3

3

5

Code to produce the results of the publication: “Disentangling acceleration-, velocity- and duration-dependency of the short- and medium-latency stretch reflexes in the ankle plantarflexors”

Group Ia afferents
M1-M2 stretch reflex
Motoneuron pool
+ 1

1

5

ColorIce: Automated in-plane ice thin section analysis tool

birefringence
crossed-polarization
grain boundary
+ 5

2

5

Data and code underlying the publication: Deep learning reveals key predictor of thermal conductivity of covalent organic frameworks

Covalent organic frameworks
deep learning
Thermal conductivity
+ 1

5

endogenous-macrodynamics-in-algorithmic-recourse

Software and data underlying the publication: Endogenous Macrodynamics in Algorithmic Recourse

Algorithmic Recourse
Counterfactual Explanations
Dynamic Systems
+ 1

CSS
HTML
JavaScript
+ 8

3

5

Inductive 3D printer XY calibration GUI

3D printer
calibration
FDM
+ 8

3

5

learningcurvefitting

Code supporting the publication: Learning Learning Curves

expected error
extrapolation
Interpolation
+ 2

Markdown
Other
Python

4

5

mason_constitutive_model

MASON (Masonry Advanced Softening cONtact) source code

cyclicity
distinct element method
explicit integration scheme
+ 3

C
C++
Markdown
+ 1

1

5

Matlab scripts and MuseScore scripts accompanying the book "The Perceptual Structure of Sound"

sound design

1

5

NetLogo model: "Agent-Based Simulation of Short-Term Peer-to-Peer Rentals: Evidence from the Amsterdam Housing Market"

agent-based modelling
Airbnb
Amsterdam
+ 4

2

5

polymorphic-gompertzian

Code underlying the publication: Validation of polymorphic Gompertzian model of cancer through in vitro and in vivo data

cancer modeling
lung cancer
Mathematical model
+ 2

Jupyter Notebook
Markdown
Other

5

Source code for INCS (Iterative Nonlinear Contrast Source)

INCS
medical ultrasound
microbubbles
+ 1

Automake
C
Fortran
+ 5

2

5

Summation of currents electromagnetic solver

Coil
FEM
Inductive
+ 6

3

5

SWMM_GNN_Component_Evaluation_and_Transferability_Analysis

Code for paper "Evaluation of Graph Neural Networks for Urban Drainage Metamodeling: Key Components and Transferability Analysis"

Graph Neural Network
Hyperparameter Tuning
Stormwater management model (SWMM)
+ 3

Jupyter Notebook
Markdown
Other
+ 2

4

5

Task-aware-connectivity-learning-for-incoming-nodes-over-growing-graphs

Code underlying the publication: Task-aware-connectivity-learning-for-incoming-nodes-over-growing-graphs

expanding graph
graph signal processing
incoming nodes
+ 2

Matlab

1

5

eEecology Classification

Automatic classification of accelerometer data using a supervised learning approach.

Machine learning

Batchfile
CSS
HTML
+ 3

1

5

MagnumPI - Potential Integrator

A package for the calculation of scattering angles and cross sections.

Inter-operability & linked data
Visualization

C++
CMake
M4Sugar
+ 2

6

5

mexca

Capture emotion expressions from video, audio, and text with a single pipeline.

Audio processing
Image processing
Machine learning
+ 1

Dockerfile
Python
Shell

5

nanomesh

Python workflow tool for generating meshes from 2D and 3D microscopy image data

Image processing
Visualization
Workflow technologies

Jupyter Notebook
PowerShell
Python
+ 1

3

5

PIQMIe

A web tool for mass spectrometry-based proteomics data analyses

Data Analysis
mass spectrometry
Optimized data handling
+ 2

Dockerfile
HTML
JavaScript
+ 3

1

5

PowerSensor3

PowerSensor is a low-cost, custom-built device that measures the instantaneous power consumption of GPUs and other devices at a high time resolution.

GPU
High performance computing

C
C++
CMake
+ 3

6

5

SedTRAILS

SedTRAILS is a Lagrangian particle-tracking model for simulating and visualizing coastal sediment pathways and connectivity. Initial public release forthcoming ~February 2026.

Coastal Engineering
coastal processes
connectivity
+ 5

Python

2

5

TIMP

TIMP is an R package for fitting superposition models that implements the partitioned variable projection algorithm. The package has been extensively applied to modeling spectroscopy and Fluorescence Lifetime Imaging Microscopy (FLIM) datasets. It serves as the backend for the Glotaran software.

global analysis
target analysis
time-resolved spectroscopy

C
R

2

5

Get fertility rates (females, 5-year cohort)

This NetLogo code snippet provides fertility estimates of females for use in demographic simulations. The figures used are based on two different sources, and will be assigned per 5-year age cohort.

1

4

Livestock demography

This submodel simulates livestock herd demography and slaughter effects. Initially part of the ROMFARMS model for animal husbandry on the Dutch Roman frontier, it focused on cattle, sheep, and horses. However, the code is adaptable for various animals, regions, and historical periods.

2

4

Artefact of: JavaBIP meets VerCors: Towards the Safety of Concurrent Software Systems in Java

concurrent systems
Deductive verification
formal methods
+ 3

5

4

Code and test data set underlying the publication: Characterizing single-molecule dynamics of viral RNA-dependent RNA polymerases with a multiplexed magnetic tweezers

Dwell Time Analysis
magnetic tweezers
RdRP activity
+ 1

3

4