All software

PyStemmusScope

A python package for running the STEMMUS-SCOPE model

pyTAMS

A physics-agnostic implementation of the Trajectory-Adataptive Multilevel Splitting (TAMS) algorithm for predicting transition probability in bi-stable dynamic problems.

python-mock-precommit-hook

precommit hook to prevent monkeypatching in Python

python-pcl

Use the industry-standard Point Cloud Library from within Python.

PyTorch Performance Analysis

Lessons on PyTorch Performance Analysis: from Profiling to Optimization

PyXenon

Python wrapper for the Xenon programming interface to various compute and storage resources.

pyZacros

A Python library to handle Kinetic Monte Carlo codes.

qalcore

Core Library of the Quantum Application Lab

QALMA

A Matlab based toolkit with GUI for quantitative analysis of Quality Assurance tests for Medical Linear Accelerators in Radiation Therapy.

QANS

QANS (Questionnaire And Nomination Software) is a collection of software components to enable longitudinal research using sociometric (peer nomination, peer ranking) surveys.

QATrack+

QATrack+ is a fully configurable, free, and open source (MIT License) web application for managing QA data for radiation therapy and medical imaging equipment

qc2

Quantum Computing for Quantum Chemistry

q-cardIA

Quantitative cardiac image analysis

QMCBlip

QMCBlip allows to couple Quantum Monte Carlo Simulations with Machine Learning Force Fields to accelerate Molecular Dynamics simulations

QMCTorch

Use and design neural network ansatz wave function for real-space quantum Monte Carlo simulations of molecular systems.

quafing

Questionnaire analysis using Fisher Information Non-Parametric Embedding. Explore high-dimensional continuous and discrete questionnaire data sets.

Quala

Quala is qualitative analysis software for macOS, developed by ReliCheck. It transcribes audio and video interviews on the device, supports codebook-based coding with definitions, memos, themes, and a quote bank, records an audit trail of analytic decisions, and exports formatted Word documents.

Quanta

Quanta is a native macOS statistical software by ReliCheck. It covers descriptives, comparatives, correlations, regressions, factor analysis, SEM, exploratory factor analysis, scale reliability w/ item-total diagnostics, missing-data imputation, and reports frequentist results and Bayes factors.

Quantum Newton Raphson

The Quantum Newton Raphson package allows to leverage quantum computing routines to accelerate the Newton-Raphson algorithm.

qubols

qubols allows to solve linear system using a QUBO approach that can be deployed on quantum annealers

qubops

qubops allows to solve polynomial system of equations using a QUBO approach that can be deployed on quantum annealers

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.

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.

rcoins

Identify continuous lines in a spatial network.

rcrisp Shiny app

Shiny web app for the rcrisp software package.

rdfsolve

Extract RDF schemas from SPARQL endpoints and convert to multiple formats (VoID, LinkML, JSON-LD).

ReaxPro framework ontology

This application ontology is dedicated to the ReaxPro framework for the multi-scale modeling of catalytic materials.

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.

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.

Reflective Continuum

Standard-library Python reference for versioned graph storage, SQLite persistence, FTS5 lexical retrieval, bounded graph analysis, entropy metrics, transactional ingestion, and evidence-aware reflection

Reliable

Reliable is a browser-based planning tool for academic research, thesis work, teaching, administration, and other forms of complex, long-horizon individual work. It helps users map the full scope of their work, estimate realistic task durations, and align plans with actual time constraints.

ReliCheck Findings Studio

MM Field Studio is a free iPad application developed by ReliCheck for mixed methods field data collection. When a participant gives a rating and then explains it, the app captures the number and the explanation together, at the moment of collection, so the two stay attached for analysis.

Remote BMI

Remote BMI allows you to communicate with Basic Model Interface enabled numerical models using a RESTful API

repl-session

A script that runs a session on any Read-Eval-Print-Loop (REPL), following a description in a JSON file. The output JSON contains the commands entered including the results from the REPL session. This can be useful to drive documentation tests or literate programming tasks.

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 made readable tool

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.

research-software-identity-audit

A research software and study infrastructure for preregistered longitudinal auditing of research software identity propagation across open scholarly infrastructures, with explicit contracts, provenance, evidence, schemas, and reproducible observations

RESTful APE

RESTful API for the APE (Automated Pipeline Explorer) library.

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.

ReSurfEMG-dashboard

A dashboard for visualizing and analyzing respiratory EMG signal, making use of the ReSurfEMG library

RickView

Easy to deploy low-resource stand-alone RDF knowledge graph browser written in Rust. No SPARQL endpoint needed!

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.

ROE

Designed for patient-specific prescription determination using personalized dose-response curves. Visualizes TCP and NTCP.

ROOT

An open-source data analysis framework used by high energy physics and others.

Rosemary

Rosemary is a plugin for YASGUI (Yet Another SPARQL GUI), facilitating creation of SPARQL queries without requiring knowledge of SPARQL.

rspacer

rspacer is an R package that wraps the RSpace Electronic Lab Notebook (https://www.researchspace.com/) API. It provides convenience functions to browse, search, create, and edit your RSpace documents. In addition, it enables filling RSpace templates using R Markdown/Quarto reports or tabular data.

RTEMIS

Advanced Machine Learning and Visualization