Software | Research Software Directory

Code and secondary data of analysis on pesticide transport during rainfall runoff events

erosion
particulate phase
Pesticides
+ 3

1

37

Data and software supporting the publication "Telecom-band quantum interference of frequency-converted photons from remote detuned NV centers"

Quantum Frequency Conversion
quantum networks
Telecom wavelength
+ 1

4

37

LitStudy

Explore scientific literature using Python from the comfort of a Jupyter notebook

Inter-operability & linked data
Text analysis & natural language processing
Visualization

(HTML)
(Python)

7

37

Code underlying the publication: Integrity-based Explanations for Fostering Appropriate Trust in AI Agents

AI agent
appropriate trust
explanations
+ 1

4

36

AHN2 pointcloud viewer

A web application able to visualize the AHN2 point cloud data of the Netherlands.

Big data
Real time data analysis
Visualization

(CSS)
(Dockerfile)
(HTML)
+ 1

3

35

GSH is a MATLAB package to do Global Spherical Harmonic Analyses (GSHA) and Synthesis (GSHS) for Crust1.0.

Geophysics.
gravity
Spherical Harmonics Analysis

1

34

MATLAB model of multiscale model for CO2 electrolysis

CO2 electrolysis
Multiscale model
Techno-economic analysis

5

34

simplicial_convolutions

Code underlying: Simplicial Convolutional Filters

convolution
neural networks
simplicial complex

(large-text-file)
(Markdown)
(Matlab)
+ 1

1

34

Supplementary Materials: When is variable importance estimation in species distribution modelling affected by spatial correlation?

empirical modelling
niche models
raster
+ 8

4

34

AHN point cloud viewer web service

A web service to serve large point cloud data efficiently using octrees.

Big data
Visualization

(Java)
(Python)

2

34

HyperCanny

Finds edges in high-dimensional data using the Canny algorithm.

Data Analysis
edge detection
High performance computing

(C)
(C++)
(Makefile)
+ 3

1

33

BIAS

A toolbox for detecting structural bias in continuous optimization heuristics.

Bias
Metaheuristics
optimization
+ 1

(Dockerfile)
("Jupyter Notebook")
(Python)
+ 1

3

31

talkr

{talkr} is an R package that offers a set of convenience functions for quality control, visualisation and analysis of conversational data. Most notably it provides a range of plotting functions that play well with ggplot and the tidyverse.

conversation
talk
turn-taking
+ 1

(R)
(Rez)

4

31

Fit a double logistic function to a Sentinel-2 vegetation index (VI) time series

double logistic function
local and global functions
Time Series
+ 1

1

29

GreenspaceAccessibility (Github) code repository: spatial analysis underlying the journal paper "Measuring children's and adolescents' accessibility to greenspaces from different locations and commuting settings"

GreenspaceAccessibility (Github) code repository: spatial analysis underlying the journal paper "Measuring children's and adolescents' accessibility to greenspaces from different locations and commuting settings"

Activity setting
Betweenness
Exposure
+ 3

2

29

Retrieving multi-temporal max/min temperature of target area into a csv file

csv output
grid
minimum and maximum temperature
+ 2

1

29

swyft

swyft is the official implementation of Truncated Marginal Neural Ratio Estimation, a hyper-efficient, simulation-based inference technique for complex data and expensive simulators.

Bayesian Inference
Data Analysis

("Jupyter Notebook")
(Python)

5

28

Basic code for simulations of reduced Gilad model

dynamical systems
matlab code
pattern formation
+ 2

1

27

argopy

Argopy is a python library dedicated to Argo data access, manipulation and visualisation for standard users as well as Argo experts.

Data Analysis
Data processing
Earth and Environmental Sciences
+ 3

(CSS)
(Dockerfile)
(Python)
+ 1

2

27

Data underlying the publication/thesis chapter: FlexConv: Continuous Kernel Convolutions with Differentiable Kernel Sizes

computer vision
Convolutional Neural Network
kernel size
+ 2

("Jupyter Notebook")
(Markdown)
(Other)
+ 2

6

26

trip-planning

Code underlying the publication: Dealing with Uncertainty: Understanding the Impact of Prognostic Versus Diagnostic Tasks on Trust and Reliance in Human-AI Decision Making

Diagnostic
Empirical Studies
Human-AI Decision-Making
+ 6

(CSS)
(HTML)
(JavaScript)
+ 3

3

26

AMBER

A real-time pipeline to search for Fast Radio Bursts and other transient radio sources.

Big data
GPU
High performance computing
+ 1

(C++)
(CMake)

3

26

laserchicken

Toolkit for preprocessing and feature calculation of point clouds created using airborne laser scanning

Big data
Machine learning

("Jupyter Notebook")
(Python)

12

26

MUSCLE3

MUSCLE3 is a coupling library for building multiscale simulations out of single-scale models.

High performance computing
Multi-scale & multi model simulations

(C)
(C++)
(Dockerfile)
+ 4

4

26

OMUSE

A Python environment to interface and couple oceanographic and other earth system model codes.

High performance computing
Multi-scale & multi model simulations

(Batchfile)
(C)
(C++)
+ 10

8

26

Code accompanying the paper "Modeling the effect of prior austenite grain size on bainite formation kinetics."

Bainite
Grain size
Nucleation
+ 2

3

25

Imitation learning model and datasets: "A Study of Learning Search Approximation in Mixed Integer Branch and Bound: Node Selection in SCIP"

branch-and-bound
imitation learning
MIP
+ 3

2

25

APE

A CLI, Java API and RESTful API for the automated generation of computational pipelines (scientific workflows) from large collections of computational tools.

Java
Program synthesis
Workflow technologies

(ANTLR)
("Common Workflow Language")
(Java)

5

25

Inseq

Interpretability for sequence generation models 🐛 🔍

deep learning
Explainable AI
generative models
+ 2

(Dockerfile)
(Makefile)
(Python)

0

25

Numerical and analytical model for Taylor flow in tubular CO2 electrolyser

COMSOL
gas-liquid Taylor flow
MATLAB
+ 1

4

24

LinkAhead

Open Source Research Data Management Software

Data
Electronic Lab Notebook
ETL
+ 9

(ANTLR)
(C++)
(CSS)
+ 9

6

24

DeepRank2

DeepRank2 is an open-source deep learning framework for data mining of protein-protein interfaces or single-residue missense variants. This package is an improved and unified version of three previously developed packages: DeepRank, DeepRank-GNN and DeepRank-Mut.

Cancer vaccine
Convolutional Neural Network
Deep Learning Framework
+ 5

(Dockerfile)
("Jupyter Notebook")
(Python)
+ 1

12

23

finite-strain-inverse-designed-spinodoids

Data and Code underlying publication: Experiment-informed finite-strain inverse design of spinodal metamaterials

In situ characterization
Inverse design
Machine learning
+ 2

(Matlab)
(Other)
(Python)

5

22

PyBanshee, Python-based open source of the MATLAB toolbox BANSHEE.

Bayesian network models
Gaussian copula
Python package

6

22

Arena-Crowds

Arena-Crowds is Python scripts for the data analysis to estimate crowd density based on WiFi positioning.

Computer networks
Networks
Network Science

("Jupyter Notebook")
(Python)

3

22

DIANNA

Deep Insight And Neural Network Analysis, DIANNA is the only Explainable AI, XAI library for scientists supporting Open Neural Network Exchange, ONNX - the de facto standard models format.

Explainable AI
Image processing
Machine learning
+ 2

("Jupyter Notebook")
(Python)
(TeX)

12

22

Measurements.jl

Error propagation calculator and library for physical measurements. It supports real and complex numbers with uncertainty, arbitrary precision calculations, operations with arrays, and numerical integration.

error propagation
Julia Package
Physics
+ 1

(Julia)

1

22

Cross-Domain Classification of Moral Values - code

Cross-domain
Ethics
Morality
+ 3

(Markdown)
(Other)
(Python)

5

21

Case Law App

Web application for exploring the citation network of Dutch court decisions.

Text analysis & natural language processing
Visualization

(CSS)
(HTML)
(JavaScript)

4

21

Citation File Format

The Citation File Format lets you provide citation metadata for software or datasets in plaintext files that are easy to read by both humans and machines.

FAIR
Inter-operability & linked data

(Python)

2

21

CIRRUS-HL-campaign-codes---Code-accompanying-dissertation

CIRRUS-HL campaign codes - Codes accompanying dissertation

Airborne measurements
Background aerosol
Backward trajectories
+ 7

("Jupyter Notebook")
(Markdown)
(Python)
+ 1

4

20

Code underlying the publication: Forecasting estuarine salt intrusion in the Rhine-Meuse delta using an LSTM model

chloride
Delta
estuary
+ 7

4

20

eAC_charging_infra_optimization

Code underlying the publication: Optimizing the battery charging and swapping infrastructure for electric short-haul aircraft—The case of electric flight in Norway

Battery swapping systems
Commuter air transport
Electric aviation
+ 3

(Markdown)
(Other)
(Python)

1

20

Matlab code for Full Range Adaptive Cruise Control with Integrated Collision Avoidance Strategy

Adaptive Cruise Control
collision avoidance algorithm
Full speed range ACC
+ 2

2

20

Model for the dynamic behaviour in magnetic nanoparticles: scripts and experimental data

Anisotropy
Brownian relaxation
Fokker-Planck equation
+ 5

1

20

DoE2Vec

DoE2Vec is a self-supervised approach to learn exploratory landscape analysis features from design of experiments. The model can be used for downstream meta-learning tasks such as learninig which optimizer works best on a given optimization landscape.

Machine learning
optimization
python

(Makefile)
(Python)
(R)

1

20

QTLTableMiner++

Extract gene-trait associations from scientific literature

Inter-operability & linked data
Text analysis & natural language processing

(Java)
(Shell)

3

20

etv_routing_assignment

Code underlying the publication: Dispatching a fleet of electric towing vehicles for aircraft taxiing with conflict avoidance and efficient battery charging

Electric aircraft taxiing
Electric towing vehicles
Partial battery recharging
+ 2

(Markdown)
(Python)

1

19

All software

Code and secondary data of analysis on pesticide transport during rainfall runoff events

Data and software supporting the publication "Telecom-band quantum interference of frequency-converted photons from remote detuned NV centers"

LitStudy

Code underlying the publication: Integrity-based Explanations for Fostering Appropriate Trust in AI Agents

AHN2 pointcloud viewer

GSH is a MATLAB package to do Global Spherical Harmonic Analyses (GSHA) and Synthesis (GSHS) for Crust1.0.

MATLAB model of multiscale model for CO2 electrolysis

simplicial_convolutions

Supplementary Materials: When is variable importance estimation in species distribution modelling affected by spatial correlation?

AHN point cloud viewer web service

HyperCanny

BIAS

talkr

Fit a double logistic function to a Sentinel-2 vegetation index (VI) time series

GreenspaceAccessibility (Github) code repository: spatial analysis underlying the journal paper "Measuring children's and adolescents' accessibility to greenspaces from different locations and commuting settings"

Retrieving multi-temporal max/min temperature of target area into a csv file

swyft

Basic code for simulations of reduced Gilad model

argopy

Data underlying the publication/thesis chapter: FlexConv: Continuous Kernel Convolutions with Differentiable Kernel Sizes

trip-planning

AMBER

laserchicken

MUSCLE3

OMUSE

Code accompanying the paper "Modeling the effect of prior austenite grain size on bainite formation kinetics."

Imitation learning model and datasets: "A Study of Learning Search Approximation in Mixed Integer Branch and Bound: Node Selection in SCIP"

APE

Inseq

Numerical and analytical model for Taylor flow in tubular CO2 electrolyser

LinkAhead

DeepRank2

finite-strain-inverse-designed-spinodoids

PyBanshee, Python-based open source of the MATLAB toolbox BANSHEE.

Arena-Crowds

DIANNA

Measurements.jl

Cross-Domain Classification of Moral Values - code

Case Law App

Citation File Format

CIRRUS-HL-campaign-codes---Code-accompanying-dissertation

Code underlying the publication: Forecasting estuarine salt intrusion in the Rhine-Meuse delta using an LSTM model

eAC_charging_infra_optimization

Matlab code for Full Range Adaptive Cruise Control with Integrated Collision Avoidance Strategy

Model for the dynamic behaviour in magnetic nanoparticles: scripts and experimental data

DoE2Vec

QTLTableMiner++

etv_routing_assignment