Software | Research Software Directory

Scripts and data accompanying publication: "Manure matters: Prospects for regional banana-livestock integration for sustainable intensification in South-West Uganda"

cattle
crop-livestock integration
East African Highland Banana
+ 5

1

9

Bacting

Bacting is an open-source platform for chemo- and bioinformatics based on Bioclipse that defines a number of common domain objects and wraps common functionality, providing a toolkit independent, scriptable solution to handle data from the life sciences.

bioinformatics
Cheminformatics

Java
TeX

1

9

gammalearn

Deep Learning for Imaging Cherenkov Telescopes Data Analysis

cta
deep learning
Gamma-ray telescopes
+ 1

Python
Dockerfile

4

9

orbitN

Symplectic integrator for near-Keplerian planetary systems

astronomical solution
astronomy
N-body
+ 2

1

9

pdb2sql

Fast and versatile Python package that leverages SQL queries to parse, manipulate and process biomolecular structure files. The structure files should be in the PDB format and are available on www.rcsb.org.

Big data
Optimized data handling

Python
TeX
Makefile

2

9

Turing Data Safe Haven

Data Safe Haven is an open-source framework for creating Trusted Research Environments (TREs) to analyse sensitive data. It provides a set of scripts that will allow you to deploy, administer and use your own TRE on Microsoft Azure cloud.

Cloud
cloud storage
Infrastructure as code
+ 3

Python
Shell
Jinja
+ 3

29

9

WRFpy

WRFpy is a python application that provides an easy way to set up, run, and monitor Weather Research and Forecasting simulations

Data Simulation
python

Python

4

9

Xenon command line interface

A command line interface for the Xenon library that allows you to use remote machines to do your computations.

High performance computing

Java
Common Workflow Language
Dockerfile
+ 2

2

9

Code supporting the paper: A Bayesian finite-element trained machine learning approach for predicting post-burn contraction

Feed-forward neural network
Machine learning
MATLAB
+ 5

3

8

Code underlying the publication: "RESTAD: Reconstruction and Similarity Transformer for time series Anomaly Detection"

Anomaly detection
Radial Basis Function (RBF) kernel
Time Series
+ 1

Python
YAML
Markdown
+ 1

3

8

Framework for the publication: MirrorLabs – creating similar learning environments for students all over Europe for human-robot coproduction

Augmented Reality
Interactive Visualization
robotics
+ 2

2

8

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

8

MATLAB scripts created during the work on "Multi-Δt approach for peak-locking error correction and uncertainty quantification in PIV"

PIV (Particle Image Velocimetry)
Uncertainty Quantification

3

8

Shoreline Evolution Model and Appendix A - Supplementary data to the manuscript Challenges and new strategies in assessing multidecadal shore platform sandy beach evolution from aerial imagery

beach change
beach toe
beach volume
+ 4

4

8

Clustering Geo-data Cubes

Tool to perform cluster analysis of multi-dimensional geospatial data, running on local or distributed systems.

Big data
geospatial
Machine learning
+ 1

Python
Jupyter Notebook
TeX

7

8

nlppln

A flexible solution to build text mining workflows that allows you to quickly combine Natural Language Processing tools from different sources.

Text analysis & natural language processing

Python
Common Workflow Language
Dockerfile

2

8

COVID-19 Piedmont

COVID-19 Surveillance Data Modelling and Management Pipeline in Piedmont.

Computational Epidemiology
COVID-19
COVID-19 Data
+ 14

Julia

2

8

PuReGoMe

Analyzes social media messages for polarity and stance towards governmental COVID-19 measures

Machine learning
Social media

Jupyter Notebook
Python
Shell

3

8

pypfilt

A Sequential Monte Carlo (SMC, or "particle filter") Python package for online model estimation and probabilistic forecasting.

Bayesian Inference
Forecasting
Sequential Monte Carlo

1

8

recipy

Effortless provenance tracking in Python

Inter-operability & linked data
Optimized data handling

Python
HTML
Jupyter Notebook
+ 2

2

8

Virtual Human Platform

The Virtual Human Platform (VHP) was developed through the VHP4Safety project to support chemical and pharmaceutical safety testing. VHP provides you with human-relevant tools and models for precision safety evaluation, helping you reduce reliance on laboratory animals.

toxicology

JavaScript
HTML
Python
+ 4

0

8

Blade Element Momentum Theory Code for Positive and Negative Thrust Propellers

BEM
BEMT
Blade Element Momentum Theory
+ 2

1

7

Code and data underlying the publication: Symmetrization of 2D Polygonal Shapes Using Mixed-Integer Programming

Design
Digitalization
Shape optimization
+ 1

C
C++
Other
+ 3

3

7

Code underlying the publication: "PATE: Proximity-Aware Time series anomaly Evaluation"

Anomaly detection
Evaluation Metrics
Precision
+ 2

Python
YAML
Markdown
+ 1

3

7

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

BIEM
HAMS
HAMS-MREL
+ 4

5

7

Source code of the SWAN model: Free Infragravity Waves in the North Sea

coastal waters
Infragravity waves
inland waters
+ 3

3

7

ece2cmor3

Process EC-Earth output to publish for CMIP6

Big data
High performance computing
Optimized data handling

Python
Shell

2

7

jaspProcess

A JASP implementation of the PROCESS macro for SPSS

Data Analysis
Statistics
Visualization

R
QML

2

7

MultilayerGraphs.jl

A Julia package for the creation, manipulation and analysis of the structure, dynamics and functions of multilayer graphs.

Graphs
Graph Theory
Hierarchical Graphs
+ 10

Julia

2

7

SPOT

SPOT is an interactive visualization tool for multi-dimensional data. It allows quick analysis of complex datasets and easy identification of correlations between variables.

Big data
Visualization

JavaScript
Pug
Stylus
+ 2

7

xtas

the eXtensible Text Analysis Suite

Text analysis & natural language processing

Python
Shell
Java

2

7

[Artifact] Deductive Verification of Parameterized Embedded Systems modeled in SystemC

Deductive verification
embedded systems
parameterized systems
+ 2

6

CHI2025_Plan-then-Execute_LLMAgent

User Interaction Dataset for CHI 2025 paper "Plan-Then-Execute: An Empirical Study of User Trust and Team Performance When Using LLM Agents As A Daily Assistant."

Daily Assistant
Human-AI Collaboration
large language models
+ 2

JSON
Other
Python
+ 7

3

6

Code complementing the paper "Feasibility Analysis of a Self-Reinforcing Electroadhesive Rotational Clutch"

Clutch
Electroadhesion
self-reinforcement
+ 2

3

6

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

Burns
Feasibility
MATLAB
+ 4

3

6

DALES v4.2 modified for ammonia plume dispersion and blending-distance estimations

Ammonia
Atmospheric ammonia
blending distance
+ 7

4

6

Data/software underlying the publication: Robust quantum-network memory based on spin qubits in isotopically engineered diamond

distributed quantum computation
entanglement distillation

12

6

Hanson's Model in Frequency Domain - Tonal Noise of Rotors in Uniform Inflow

Hanson's model
Propeller Aeroacoustics
Propeller Noise
+ 1

1

6

Learning_on_SCs

Code underlying: Hodge-Aware Convolutional Learning on Simplicial Complexes

Hodge theorem
neural networks
simplicial complexes

Other
Python
Markdown
+ 1

1

6

MATLAB script and COMSOL models of the article "An efficient multiscale method for subwavelength transient analysis of acoustic metamaterials"

Equivalent fluid model
Homogenisation
Locally resonant acoustic metamaterials
+ 1

Other
Matlab
Markdown

4

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

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

6

Software supporting the publication: Background Electromagnetic Noise Received via Ionospheric Propagation in a Remote Rural Location in Spain (set 1)

ambient noise
electromagnetic noise
ionosphere
+ 3

4

6

Uncertainty Specification and Analysis for Thermosphere Observations

Accelerometer
GNSS tracking
Mass density
+ 2

Other
C
Matlab
+ 3

1

6

eEcology Annotation Tool

Visualize and annotate GPS measurements of bird movements.

Inter-operability & linked data
Visualization

HTML
Python
Mako
+ 5

1

6

Lightning

Lightning: Fast data processing using GPUs on distributed platforms

Big data
GPU
High performance computing

Rust
C++
Python

2

6

PanVA

Variant Analysis within Pangenomes.

API
Data Analysis
pangenomics

Vue
TypeScript
Python
+ 6

2

6

PSSMGen

Generates consistent PSSM and PDB files for protein-protein complexes

Big data
High performance computing
Optimized data handling

Python
Makefile

2

6

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