Software | Research Software Directory

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

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

AutoEncodersDLSCA

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

Autoencoders
Hyperparameter Tuning
Portability
+ 3

(Markdown)
(Other)
(Python)

1

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

Code for the publication: Parametric excitation and friction modulation for a forced 2-dof system

effective friction
Friction-induced oscillations
Negative damping
+ 2

1

4

Code to produce the results of the publication: “Neurophysiological Validation of Simultaneous Intrinsic and Reflexive Joint Impedance Estimates”

Electromyography
Joint resistance
Parallel-Cascade model
+ 2

1

4

CoralModel: A Python-based model that resembles the biophysical interactions on a coral reef

biophysics
Coral Reef Ecology
hydrodynamics

1

4

Data and code underlying Chapter 4 of the PhD thesis "Advanced Magnetocaloric Regenerators for Heat Pump Applications"

active magnetocaloric regenerator
layered AMR
magnetocaloric heat pump
+ 5

(Other)
(Python)

4

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

doppler signature
fmcw radar
gait
+ 4

4

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

4

learningcurvefitting

Code supporting the publication: Learning Learning Curves

expected error
extrapolation
Interpolation
+ 2

(Markdown)
(Other)
(Python)

4

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

acceleration
anisotropic
preconditioning
+ 3

3

4

AstronomicAL

An interactive dashboard for visualisation, integration and classification of data using Active Learning.

Active Learning
Classification
Data Analysis
+ 11

(Python)
(TeX)

1

4

cffconvert

Command line tool to convert CITATION.cff files to various formats used by reference managers such as Zotero and JabRef.

(Dockerfile)
(HTML)
(Python)
+ 1

5

4

cffinit

A web form to initialize CITATION.cff files which you can use to include citation information into your software repository.

Software Citation

(CSS)
(HTML)
(JavaScript)
+ 3

7

4

eAstroViz

This tool can convert and visualize radio astronomy measurement sets, as well as most LOFAR intermediate data products. It also performs RFI mitigation.

LOFAR
radio astronomy
RFI

(C)
(C++)
(Cuda)
+ 3

1

4

evidence

doc2vec-based assisted close reading with support for abstract concept-based search and context-based search

Text analysis & natural language processing

(CSS)
(Dockerfile)
(Go)
+ 5

9

4

howfairis

Command line tool to analyze a git repository's compliance with the fair-software.eu recommendations.

(Dockerfile)
(HTML)
(Python)
+ 1

7

4

LUE

LUE is software for storing and manipulating large amounts of information for large numbers of objects. The software is useful, and currently mainly used, in the context of environmental modelling of biological and physical systems, represented by agents and fields.

Agent-based modeling
environmental modelling
field based modelling
+ 6

(Batchfile)
(C)
(C++)
+ 6

3

4

Noodles

Task-based parallel programming model in Python that offers the same intuitive interface when running complex workflows on your laptop or on large computer clusters.

High performance computing
Workflow technologies

(HTML)
("Jupyter Notebook")
(Lua)
+ 2

9

4

Hercules

Retrieve recent tweets from certain users and classify them with machine learning

Machine learning
Text analysis & natural language processing

("Jupyter Notebook")
(Python)
(Shell)

1

4

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

4

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

4

WEARDA

WEARDA: recording wearable sensor data for human activity monitoring.

embedded software
GPS
Human activity monitoring
+ 4

(C)
(TeX)

2

4

Xenon gRPC server

Run applications remotely via a gRPC interface.

High performance computing

(Java)

3

4

Network structures

A draft model with some useful code for creating different network structures using the Netlogo NW extension: small-world, preferential attachment, circular, star, wheel, lattice, random, nearest neighbours.

1

3

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

Correct-by-construction
Gabow
IRF
+ 13

3

BrazilClim: script to gauge-calibrate the surfaces

Bioclimatic variables
Brazil
land surface temperatures
+ 4

5

3

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

Burns
MATLAB
Morphoelasticity
+ 3

3

Code to produce the results of the publication: “Examining the Role of Intrinsic and Reflexive Contributions to Ankle Joint Hyper-Resistance Treated with Botulinum Toxin-A”

BoNT-A injections
Instrumented SPAT
Joint resistance
+ 2

1

3

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

Autoencoder
Human Activity Recognition
Inter-Subject Variability
+ 3

(JSON)
(Markdown)
(Other)
+ 1

3

Data underlying the publication/thesis chapter: Scale Learning in Scale-Equivariant Convolutional Networks

computer vision
Convolutional neural network (CNN)
equivariance
+ 3

(JSON)
("Jupyter Notebook")
(Markdown)
+ 5

6

3

Fast Rotor Loss Calculations in Fractional-Slot Permanent Magnet Machines

COMSOL multiphysics software
Eddy current losses
Permanent magnet machine

1

3

Generics library for datatype-generic programming in Agda

Agda
Dependent Types
Generic Programming
+ 2

2

3

mo-tas

Truck Appointment Systems - Multi-Objective model

Collaboration
Multi-Agent Systems
prioritized planning
+ 2

(Markdown)
(Python)

1

3

Supplementary data for the paper 'From A to B with Ease: User-Centric Interfaces for Shuttle Buses'

Micro-mobility
Shuttle bus
User Interface
+ 1

5

3

Supplementary materials for the paper: On Senders’s Models of Visual Sampling Behavior

bandwidth
Computer simulation
replication
+ 2

2

3

Beyond the book

Measure the number of contributions to Wikipedia entries from individuals from different counties as a measure of cultural bias.

Text analysis & natural language processing

(CSS)
(HTML)
(JavaScript)
+ 2

2

3

chimp-classifier

The Python package `junglesounds` is a machine learning pipeline for classifying bioacoustic data using machine learning. The pipeline is reusable for other settings and species or vocalization types as long as a certain amount of labeled data has been collected.

audio
Audio processing
bioacoustics
+ 2

("Jupyter Notebook")
(Python)
(Shell)

2

3

Emma

Emma is a project to create a platform for development of application for Spark and DockerSwarm clusters.

Big data

(Python)
(R)
(Scala)
+ 1

4

3