All software
Platalea
Platalea contains deep neural network architectures for modeling spoken language from multiple sources at once: audio, and simultaneously images, text or video. This can be used to learn about what different context sources add to the language acquisition process.
- Python
prfmodel
A modern Python implementation for population receptive field modelling.
- GPU
- Neuroscience
- optimization
- + 2
- Python
protein-detective
Python package to detect proteins in EM density maps.
- Python
protein-quest
Python package to search/retrieve/filter proteins and protein structures
- Python
PSRDADA python
If you want to do astrophysics in python, this could come in handy. Connect to a radiotelescope and process data in real-time.
- Cython
- Python
- Makefile
pybacting
Python wrapper around Bacting.
- Biology
- Chemistry
- python
- Python
Pycoeus
Pycoeus is a command-line tool and python package designed for exploration of multiband geospatial datasets. It lets the user iteratively train and retrain segmentation models in seconds. A combination of Deep learning and traditional machine learning is used, leveraging the best of both methods.
- deep learning
- gis
- Machine learning
- + 2
- Python
PyELSEPA
Python wrapper for ELSEPA, a numeric code for computing elastic scattering cross-sections for electrons and positrons off neutral atoms.
- Python
- Dockerfile
Pyspextools
Pyspextools is a collection of python tools for the SPEX X-ray spectral fitting package.
- Astrophysics
- Software
- Spectroscopy
- Python
PyStemmusScope
A python package for running the STEMMUS-SCOPE model
- Jupyter Notebook
- Python
- Shell
- + 1
pyTAMS
A physics-agnostic implementation of the Trajectory-Adataptive Multilevel Splitting (TAMS) algorithm for predicting transition probability in bi-stable dynamic problems.
- Rare event simulations
- Python
- Shell
python-pcl
Use the industry-standard Point Cloud Library from within Python.
- Big data
- High performance computing
- Python
- C++
- Makefile
- + 2
PyXenon
Python wrapper for the Xenon programming interface to various compute and storage resources.
- Python
- Shell
- Batchfile
pyZacros
A Python library to handle Kinetic Monte Carlo codes.
- Python
- Shell
qalcore
Core Library of the Quantum Application Lab
- python
- Quantum Computing
- Jupyter Notebook
- Python
- Shell
QANS
QANS (Questionnaire And Nomination Software) is a collection of software components to enable longitudinal research using sociometric (peer nomination, peer ranking) surveys.
- Peer Nomination
- questionnaire
- sociology
- + 2
qc2
Quantum Computing for Quantum Chemistry
- quantum chemistry
- Quantum Computing
- Jupyter Notebook
- Python
- Shell
q-cardIA
Quantitative cardiac image analysis
- cardiac image analysis
- deep learning
- Medical Imaging
QMCBlip
QMCBlip allows to couple Quantum Monte Carlo Simulations with Machine Learning Force Fields to accelerate Molecular Dynamics simulations
- Python
QMCTorch
Use and design neural network ansatz wave function for real-space quantum Monte Carlo simulations of molecular systems.
- Computational Chemistry
- GPU
- High performance computing
- + 2
- Python
- TeX
quafing
Questionnaire analysis using Fisher Information Non-Parametric Embedding. Explore high-dimensional continuous and discrete questionnaire data sets.
- Data Analysis
- python
- Statistics
- Python
- Jupyter Notebook
- Shell
Quantum Newton Raphson
The Quantum Newton Raphson package allows to leverage quantum computing routines to accelerate the Newton-Raphson algorithm.
- Numerical analysis
- Quantum Computing
- Python
- Shell
qubols
qubols allows to solve linear system using a QUBO approach that can be deployed on quantum annealers
- Numerical analysis
- Quantum Computing
- Jupyter Notebook
- Python
- Shell
qubops
qubops allows to solve polynomial system of equations using a QUBO approach that can be deployed on quantum annealers
- Numerical analysis
- Quantum Computing
- Jupyter Notebook
- Python
- Shell
QUICKLB
QUICKLB is a very efficient library that sacrifices optimality for speed. It shines in distributed applications that have unpredictable unbalanced computational peaks in their domains.
- Computational Fluid Dynamics (CFD)
- Fortran
- High performance computing
- + 2
- Fortran
- Python
- CMake
Radiam
Radiam helps researchers keep track of their data, regardless of where it is stored. There are multiple components working together, and most of them run within Docker containers.
- metadata
- RDM
- Python
- JavaScript
- HTML
- + 3
rcoins
Identify continuous lines in a spatial network.
- geospatial
- Networks
- R
- R
- Python
rcrisp Shiny app
Shiny web app for the rcrisp software package.
- geospatial
- R
- shiny
- + 1
- R
ReaxPro framework ontology
This application ontology is dedicated to the ReaxPro framework for the multi-scale modeling of catalytic materials.
- Multi-scale & multi model simulations
- ontology
- Workflow technologies
ReaxPro wrappers
This repository is a collection of wrappers used in the ReaxPro project. It holds wrappers for the Amsterdam Modeling Suite (AMS) and Zacros.
- Chemistry
- Multiscale modeling
- Multi-scale & multi model simulations
- Python
- Dockerfile
- Shell
REE-HDSC
Software developed in the project REE-HDSC (Recognizing Extracted Entities for the Historical Database Suriname Curacao, 2023-2024) of the Radboud University Nijmegen and the Netherlands eScience Center.
- hand-written text recognition
- named entity Recognition
- Jupyter Notebook
- Python
- HTML
Remote BMI
Remote BMI allows you to communicate with Basic Model Interface enabled numerical models using a RESTful API
- Basic Model Interface
- BMI
- julia
- + 4
- Julia
- Python
- R
- + 3
Research Lifecycle Approach using Islandora
Islandora 8 is an open-source software framework designed to help organizations collaboratively manage and discover digital assets using a best-practices, standards-based preservation framework.
Research Portal for Secure Data Discovery, Access, and Collaboration
A Research Portal that can address these different usage models, while serving as website and gateway for authorized researchers to capture, query, and visualize patient data; communicate, collaborate and share datasets; and access support and training resources. platforms.
- Collaboration
- Data Access Request
- Data Sharing
- + 3
RESTful APE
RESTful API for the APE (Automated Pipeline Explorer) library.
- Java
- Program synthesis
- REST API
- + 1
- Java
- Dockerfile
ReSurfEMG
ReSurfEMG is an open source collaborative python library for analysis of respiratory electromyography (EMG). The library includes functions for pre-processing, analysis and machine learning.
- electrophysiology
- EMG
- Machine learning
- + 1
- Jupyter Notebook
- Python
- TeX
- + 3
ReSurfEMG-dashboard
A dashboard for visualizing and analyzing respiratory EMG signal, making use of the ReSurfEMG library
- EMG
- Time Series Analysis
- Visualization
- Python
Review Argumentation at Scale
This package contains a scalable pipeline to perform argument reasoning on a dataset of product reviews, to identify the highest quality ones. By tuning both lossy and lossless parameters, it is possible to tune the pipeline to foster the accuracy of the computation or its speed.
- Python
- Prolog
- Shell
- + 1
RickView
Easy to deploy low-resource stand-alone RDF knowledge graph browser written in Rust. No SPARQL endpoint needed!
- Linked Data
- Linked Data Browser
- RDF
- + 2
- Rust
- HTML
- CSS
- + 1
Rivet
Rivet is a toolkit for validation and analysis of Monte Carlo event generators in particle physics. It provides a library of reusable analysis components and a large collection of published analyses, enabling precise, reproducible comparisons between theory and experimental data.
- Big data
- Collider physics
- Data Analysis
- + 2
- C++
- Gnuplot
- C
- + 2
ROOT
An open-source data analysis framework used by high energy physics and others.
- C++
- C
- JavaScript
- + 27
Rosemary
Rosemary is a plugin for YASGUI (Yet Another SPARQL GUI), facilitating creation of SPARQL queries without requiring knowledge of SPARQL.
- Data
- database
- Data management
- + 10
- JavaScript
- CSS
- HTML
- + 1
Rucio policy package for KM3NeT
Package with custom policies for the Rucio instance of KM3NeT.
- Big data
- Data management
Satsense
A Python library for land use classification based in satellite images.
- Image processing
- Machine learning
- Jupyter Notebook
- Python
Scholy – Core
This project is part of Scholy, a linked open data platform for realizing directories of scholar.
- Grails
- RDF
- scholar directory
- + 3
Scifeon Lims, ELN and Workflow Automation
Scifeon is a modular lab informatics platform combining LIMS and ELN to streamline workflows, ensure compliance, and increase productivity—designed for biotech and regulated labs.
- auditory processing
- Big data
- bioinformatics
- + 14
scikit-talk
Scikit-talk is an open-source toolkit for processing collections of real-world conversational speech in Python. The toolkit aims to facilitate the exploration of large collections of transcriptions and annotations of conversational interaction.
- conversation
- language corpora
- turn-taking
- Python
- Shell
seahtrue
Seahtrue processes XF analyzer data on oxygen consumption and acidification from Agilent Wave .xlsx exports into tidy, nested tibbles, enabling reproducible analysis, preprocessing checks, advanced visualisation, and statistics for open metabolic research.
- bioconductor
- metabolism
- R
- + 2
- R