Software | Research Software Directory

CorticalSim

Fast simulation of plant cortical microtubules.

C
C++
Makefile
+ 3

7

44

InstaNovo

InstaNovo is a transformer neural network with the ability to translate fragment ion peaks into the sequence of amino acids that make up the studied peptide(s). InstaNovo+ is a multinomial diffusion model that further improves performance by iterative refinement of predicted sequences.

deep learning
Machine learning
mass spectrometry
+ 1

Makefile
Python

5

44

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

44

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
Markdown
Other
+ 1

3

43

3D-e-Chem Virtual Machine

A freely available Virtual Machine encompassing tools, databases, and workflows for cheminformaticians, including new resources developed for ligand binding site comparisons and GPCR research.

Inter-operability & linked data
Workflow technologies

Shell
Smarty

2

42

KLIFS KNIME nodes

If you are working in the KNIME worflow platform and need data about your favorite kinase receptor ligand interaction, then these nodes are for you.

Workflow technologies

Java
Scala
Shell

2

42

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

41

Supplementary materials for the article: Towards future pedestrian-vehicle interactions: Introducing theoretically-supported AR prototypes.

Augmented Reality
Automated vehicles
autonomous vehicles
+ 3

5

41

Research Software Directory

A content management system for research software, which promotes the visibility, reuse, and impact of research software.

FAIR
Research Software Impact
Software Citation

CSS
Dockerfile
Go
+ 9

26

41

sv-callers

Highly portable parallel workflow to detect structural variants in cancer genomes.

Big data
High performance computing
Workflow technologies

Python
Shell

4

41

KNIME Silicos-it nodes

A node for the KNIME workflow systems that allows you to use the Silicos-it software to filter or align molecules.

Workflow technologies

Java

2

40

simplicial_convolutions

Code underlying: Simplicial Convolutional Filters

convolution
neural networks
simplicial complex

large-text-file
Markdown
Matlab
+ 1

1

40