All software
INA tool
A tool for visualising and analysing Institutional Statements
- Multilayer Networks
- Visualization
- (CSS)
- (HTML)
- (JavaScript)
- + 1
infra-stemmus-scope
Set-up and run STEMMUS-SCOPE on SURF research cloud (SRC)
- Workflow technologies
Internet Archive scraper
The Internet Archive scraper is a workflow for collecting webpages archived in Internet Archive's Wayback Machine. It is designed to run serverless on Amazon's AWS infrastructure.
- AWS
- Internet Archive
- python
- + 2
- (HCL)
- (Python)
- (Shell)
Introduction to deep learning lesson
This lesson gives an introduction to deep learning.
- deep learning
- lesson
- python
- ("Jupyter Notebook")
- (Makefile)
- (Python)
- + 1
IPOPT
Ipopt (Interior Point OPTimizer, pronounced eye-pea-Opt) is a software package for large-scale nonlinear optimization.
- Software Engineering and Data Infrastructure
- (AMPL)
- ("BibTeX Style")
- (C)
- + 12
Islandora
Islandora is an open-source software framework designed to help institutions and organizations and their audiences collaboratively manage, and discover digital assets using a best-practices framework.
- Drupal
- Fedora
- open source
- + 1
- (CSS)
- (JavaScript)
- (PHP)
- + 1
i-VRESSE jupyterlab haddock3 configurator
Jupter Lab extension to create/edit haddock3 configuration file.
- Inter-operability & linked data
- (CSS)
- (JavaScript)
- (Python)
- + 1
jaspKinematics
A trajectory analyzer for JASP
- Biology
- kinematics
- Physics
- (QML)
- (R)
JASP modules app
A web application that allows you to search/filter all the available JASP modules and install them.
- (CSS)
- (HTML)
- (TypeScript)
jaspModuleTemplate
Template to create a JASP module.
- Data Analysis
- Statistics
- (QML)
- (R)
jQUDT
Java Library to deal with QUDT units and conversions between them. QUDT is an ontology for "Quantities, Units, Dimensions and Data Types in OWL and XML"
- Inter-operability & linked data
- Java
JUBE
JUBE is a generic, lightweight, configurable environment to run, monitor and analyse application execution in a systematic way. This software is commonly used to execute benchmarks and complex workflows on High Performance Computers, but is not limited to these systems.
- Benchmarking
- High performance computing
- HPC
- + 4
- (C)
- (Python)
- (Shell)
JulianA
Accelerates proton radiotherapy research. Flexible, modular toolkit.
- Treatment Planning and dosimetry
- (Julia)
- ("Jupyter Notebook")
- (Shell)
JupyterDaskOnSLURM
A Dask cluster and a Jupyter server on a SLURM system
- Big data
- High performance computing
- jupyter notebooks
- + 1
- (Python)
- (Shell)
JupyterLab dataset browser for THREDDS
A browser that allows you to include NetCDF data stored in THREDDS catalog into a Jupyter Notebook.
- Big data
- Optimized data handling
- (CSS)
- (JavaScript)
- ("Jupyter Notebook")
- + 2
JURI
JURI (Jülich Reporting Interface) provides a template-driven fully client-based web framework to visualise data lists and associated data graphs.
- (CSS)
- (Handlebars)
- (HTML)
- + 5
Kernel Float
C++ Header-only library for CUDA that simplifies working with vector types and reduced precision floating-point arithmetic in GPU code.
- AI
- Big data
- GPU
- + 1
- (C)
- (C++)
- (CMake)
- + 3
Containers for the KM3NeT Rucio deployment
This repository contains configuration files and scripts to build KM3NeT-specific container images used to deploy Rucio for KM3NeT.
- Big data
- High performance computing
KMM
KMM is a lightweight C++ middleware for accelerated computing.
- GPU
- High performance computing
- (C++)
- (CMake)
- (Cuda)
- + 1
kunefe
A Python package that helps users run containerized applications on HPC systems
- Agent-based modeling
- Apptainer
- containers
- + 5
- (Dockerfile)
- (Python)
- (Shell)
LARA Lab Automation
Open source toolset for lab automation
- laboratory automatization
- (Dockerfile)
- (HTML)
- (Makefile)
- + 3
Laserfarm
Laserfarm: Laserchicken Framework for Applications in Research in Macroecology. Leverage Laserchicken in distributed fashion to use continental scale point cloud datasets for research.
- (Dockerfile)
- ("Jupyter Notebook")
- (Python)
Ldot
Workflow and participant registration support
- GDPR
- participant information
- storage
- + 2
leakybucket
A Python BMI leaky bucket model 🪣
- (Dockerfile)
- ("Jupyter Notebook")
- (Python)
LHAPDF
LHAPDF (The Les Houches Accord PDFs) is a standardised library for accessing parton distribution functions (PDFs) in high-energy physics. It provides a common interface to a wide range of PDF sets, enabling consistent and reproducible predictions in collider simulations and analyses.
- Collider physics
- Deep Inelastic Scattering
- Interpolation
- + 1
- (C++)
- (Cython)
- (M4)
- + 2
libGPML
libGPML is an open-source Java library for working with Graphical Pathway Markup Language (GPML).
- Graphical Pathway Markup Language
- Java
- (HTML)
- (Java)
- (TeX)
LibreQDA
An open-source web-based tool for qualitative data analysis.
- CAQDAS
- collaborative analysis
- digital humanities
- + 8
LifelinesCSV2CDF
This tool converts Lifelines cohort study data from CSV to CDF/JSON, a format used in the MyDigiTwin project. Lifelines tracks health data over time, but variables are often scattered across files, making analysis difficult. CDF organizes data per participant, enabling FHIR/MedMij-compliant analysis
- Data Harmonization
- Lifelines
- MyDigiTwin
- (Python)
- (Shell)
LimeSurvey
LimeSurvey is a free and open-source online survey platform in 80+ countries worldwide. It offers features like conditional logic, question branching, customizable templates, multilingual support, and GDPR compliance.
- questionnaire
- survey
- (Batchfile)
- (CSS)
- (Hack)
- + 10
LinacQA
LinaQA (pronounced Linakwa) is a GUI frontend for pylinac and pydicom.
- Quality Assurance
- (Batchfile)
- (CSS)
- (JavaScript)
- + 2
LLview
LLview is a set of software components to monitor clusters that are controlled by a resource manager and a scheduler system.
- High performance computing
- HPC
- Monitoring
- + 2
- (Perl)
- (Python)
- (Shell)
lofar-ld
Publish LOFAR catalog as Linked Data.
- Inter-operability & linked data
- (Makefile)
Lofar Predictive Maintenance
Software tool to cluster outputs of different baselines within a specific observation. There are often over 1500 baselines in a single observation which takes a lot of time to inspect. This tool makes inspecting output of baselines more productive.
Lokum
Deploy GlusterFS, Docker, Spark and JupyterHub services on bare-metal cluster.
- Big data
- High performance computing
- Optimized data handling
- (Dockerfile)
- (HCL)
- (Python)
- + 2
LombScargle.jl
Compute Lomb-Scargle periodogram, suitable for unevenly sampled data. It supports multi-threading
- astronomy
- Astrophysics
- Julia Package
- (Julia)
LXCat
An open-access website for collecting, displaying, and downloading electron and ion scattering cross sections for modeling low temperature plasmas.
- Optimized data handling
- (CSS)
- (Dockerfile)
- (JavaScript)
- + 2
LXCat schema
Type, JSON schema and validator for cross section set used in low-temperature plasma community.
m4ma
An R package containing C++ implementations to speed up the simulation and parameter estimation of the Predictive Pedestrian model.
- geospatial
- High performance computing
- Real time data analysis
- (C)
- (C++)
- (R)
MAAS-PlanScoreCard
A Varian Eclipse scripting plugin to generate a 'scorecard' for treatment plan quality. Assesses plan quality based on pre-defined metrics.
- Treatment Planning and dosimetry
- (C#)
Magic Castle
Magic Castle aims to recreate the HPC user experience in public clouds.
- CERN
- HPC
- research software
- + 1
- (HCL)
- (Python)
- (Shell)
marzipan
Deploying clusters of VMs on bare metal using OpenNebula, provisioning, and running services made easy by fully configurable scalable automation
- High performance computing
- (Dockerfile)
- (Python)
- (Shell)
- + 1
Mass Spec Studio for Clinical Proteomics
A fusion of the popular OpenMS suite of functionality with the powerful Mass Spec Studio. Users have access to OpenDIA and OpenPRM to support large scale processing of clinical proteomics data sets.
- mass spectrometry
- proteins
- proteomics
MatRad
Matrad is an open source software for radiation treatment planning of intensity-modulated photon, proton, and carbon ion therapy.
- Treatment Planning and dosimetry
- (C++)
- (MATLAB)
- (TeX)
μ-awk
This is a tiny Python implementation of a line processor with Awk-like semantics. You write a set of regex-based rules. The program loops through the lines of some input file, running the matching functions on lines that match.
- python
- Text analysis & natural language processing
- (Python)
MCsquare
Fast Monte Carlo dose calculation algorithm for the simulation of PBS proton therapy.
- Treatment Planning and dosimetry
- (Batchfile)
- (C)
- (Makefile)
- + 1
Medical Image Processing in Python
This lesson introduces some specifics of medical image processing with popular Python libraries such as SimpleITK, Pydicom and NiBabel. Reconstruction algorithms, image and DICOM anonymization, registration, segmentation, data augmentation and generative AI are covered.
- Image processing
- medical
- radiology
med-imagetools
Aims to provide transparent and reproducible medical image processing pipelines in Python. Focuses on subject-based machine learning and processing DICOMs into deep learning-ready format.
- Imaging and Image Processing
- (Dockerfile)
- ("Jupyter Notebook")
- (Python)
Metasyn
Metasyn is a Python tool for synthetic data generation. It is geared towards use-cases where privacy is of the utmost importance. Metasyn emphasizes transparency and auditability of the outputs.
- disclosure
- generative models
- metadata
- + 3
- (Dockerfile)
- (Python)