All software
diffWOFOST
The python package diffWOFOST is a differentiable implementation of WOFOST models using torch, allowing gradients to flow through the simulations for optimization and data assimilation.
- Data Analysis
- deep learning
- High performance computing
- + 2
- Python
Discuit
Python package with the goal to split datasets (e.g. words defined by several variables) into subsets that are as comparable as possible.
- Data
- linguistics
- python
- + 1
- Python
- Shell
Distance explainer
Explainable AI tool for explaining models that create embeddings.
- Embedded spaces
- XAI
- Jupyter Notebook
- Python
- Shell
DLTK
Aims to enable fast prototyping with low entry threshold and ensure reproducibility in image analysis applications. Provides a Model Zoo.
- Artificial Intelligence
- Python
doc2sentences
A python library to split sentence-wise and convert various document formats to CSV format.
- CSV
- python
- + 1
- Python
- Rich Text Format
- Shell
document-segementation
Tool for identifying document boundaries and categories from VoC inventories.
- AI
- deep learning
- Machine learning
- + 2
- Jupyter Notebook
- Python
Drug named entity recognition
A lightweight Python library for finding drug names in a string, otherwise known as named entity recognition (NER) and named entity linking. This library finds only high confidence drugs and doesn't support misspellings at present.
- Data Science
- Medical text
- Natural Language Processing
- + 1
- Jupyter Notebook
- Python
DTBase
DTBase is a starter kit for making your own digital twin. Forking it will get you started with a database, a backend API, infrastructure for data ingress and running models, a basic web frontend, etc. You can then start building the more bespoke features of your digital twin on this foundation.
- Digital Twins
- CSS
- HTML
- JavaScript
- + 3
duckdb-mmcif
Read/write protein structure mmCIF files using SQL with DuckDB
- Data
- Data Analysis
- Optimized data handling
- C++
- CMake
- Makefile
- + 2
DumME
Scikit-learn compatible version of Mixed-Effects Random Forests
- Python
DVH-analytics
Public archive, no longer supported as of Feb 2, 2022. Designed for building local database of radiation oncology treatment planning data.
- Software Engineering and Data Infrastructure
- Python
DVTk
DVTk is an open-source project for testing, validating and diagnosing communication protocols and scenarios in medical environments. It supports DICOM, HL7 and IHE integration profiles.
- Software Engineering and Data Infrastructure
- Batchfile
- C
- C#
- + 11
e2e-Dutch
Coreference resolution for Dutch: automatically links references to the same entity in Dutch written texts.
- Machine learning
- Text analysis & natural language processing
- C++
- Python
- Shell
EasyPACS
EasyPACS is the simpliest PACS server for your dicom files. It uses DCM4CHEE listener and converts dicom files into jpegs.
- Software Engineering and Data Infrastructure
- CSS
- HTML
- Java
- + 1
eEcology-SMS-reciever
If you have birds flying around carrying UvA-BiTS trackers, then this software can save the SMS messages containing the bird's last known positions which are sent by the tracker to the UvA Bird tracking system's central database.
- Real time data analysis
- Dockerfile
- Mako
- Perl
- + 1
EEG_age_prediction
Deep learning for age prediction using EEG data
- deep learning
- EEG Signal
- Time Series
- Jupyter Notebook
- Python
- Shell
EEG epilepsy diagnosis
R package developed to extract features from multivariate time series from EEG data and feed them into a random forest classifier.
- Machine learning
- R
- Rebol
Effort Sharing
Analysis and plotting scripts for effort sharing, associated with the Carbon Budget Explorer
- Jupyter Notebook
- Python
Eigencuda
Offload Eigen matrix-matrix multiplications to an Nvidia GPU
- GPU
- High performance computing
- C++
- CMake
eitprocessing
eitprocessing is an open source collaborative python library for the processing and analysis of electrical impedance tomography for clinical use.
- Electrical impedance tomography
- Image processing
- python
- Dockerfile
- Jupyter Notebook
- Python
Enriching Digital Heritage (pre-workshop)
Software related to the startup phase of the project Enriching Digital Heritage
- cultural heritage
- large language models
- named entity linking
- + 1
- Python
Epistemic Pipeline
Evidence-aware state-machine framework for research workflows with explicit claims, evidence, conflicts, runtime policy, checkpoints, provenance, claim verification, bounded transfer, and portable evidence handoff
- agentic systems
- evidence lineage
- Provenance
- + 3
- Makefile
- Python
era5cli
A command line interface to download ERA5 data from the Copernicus Climate Data Store
- Python
ESAPIX
Provides extra methods and bootstrapping frameworks for Varian Eclipse Scripting API. Implements multithreading, asynchronous calls, debugging plugins.
- Software Engineering and Data Infrastructure
- C#
- CSS
- HTML
- + 1
2025-stereograph
This repository contains pre-trained models, computed results, and analysis code for evaluating machine learning approaches (Random Forests, FCNs, and GNNs) on gamma-ray event reconstruction tasks.
- Astroparticle physics
- cta
- deep learning
- + 2
- Jupyter Notebook
- Shell
agataselector
This selector is meant to analyze the data of AGATA+$Ancillary, producing various histograms and performing kinematic calculations and other operations useful for Doppler correction and other analysis tasks. The starting point of the selector are the ROOT files produced by femul. The code is a wo...
- Agata
- gamma-ray spectroscopy
- Nuclear Physics
- + 1
- C
- C++
- CMake
- + 2
agnpy
agnpy is a python package focusing on the computation of the radiative processes of relativistic particles accelerated in the jets of Active Galactic Nuclei (AGN). It includes classes describing the galaxy components responsible for line and thermal emission and calculates the absorption due to g...
- active galactic nuclei
- Astroparticle physics
- blazars
- + 5
- C
- Jupyter Notebook
- Python
Aladin Lite
An astronomical HiPS visualizer in the browser.
- astronomy
- IVOA
- CSS
- GLSL
- JavaScript
- + 4
ATLAS Open Data 13 TeV analysis C++ framework
A repository with 12 high energy physics analysis examples using the ATLAS Open Data 13 TeV dataset released in 2020. It is written in C++ and some bash scripts. * Documentation of the code: http://opendata.atlas.cern/release/2020/documentation/frameworks/cpp.html * Documentation of the analysis:...
cds-escape-tutorials
Jupyter Notebook tutorials using astronomical databases and Virtual Observatory tools
- virtual-observatory databases python
- Jupyter Notebook
- Just
CTLearn: Deep learning for imaging atmospheric Cherenkov telescopes event reconstruction
CTLearn is a high-level Python package providing a backend for training deep learning models for the reconstruction of imaging atmospheric Cherenkov telescope events using TensorFlow.
- deep learning
- Event reconstruction
- High energy physics
- + 1
- Dockerfile
- Jupyter Notebook
- Python
Dark matter constraints from dwarf galaxies: a data-driven LAT analysis
Python code to derive data-driven upper limits on the thermally averaged, velocity-weighted pair-annihilation cross-section (velocity-independent) of a user-defined particle dark matter model using the expected differential gamma-ray spectrum of pair-annihilation events (provided by the user) as ...
- ESCAPE
- jupyter-notebook
- Jupyter Notebook
- Python
Dockerfile to extract Gravitational Wave data from the ESCAPE datalake
This is a container to extract Gravitational Wave (GW) data from the datalake using Rucio and feed 1 second GW frames to the GW pipelines.
- EGO-Virgo
- Dockerfile
- Python
- Shell
eossr
The ESCAPE OSSR library The eOSSR is the Python library to programmatically manage the ESCAPE OSSR.In particular, it includes: - an API to access the Zenodo and the OSSR, retrieve records and publish content - functions to map and convert metadata from CodeMeta to Zenodo metadata shema - functi...
- jupyter-notebook
- zenodo
- Dockerfile
- Python
ESCAPE template project
An example of software project template for the ESCAPE 2020 European project
- ESCAPE
- jupyter-notebook
- Dockerfile
- Jupyter Notebook
- Python
- + 1
ESFRI Science Analysis Platform
ESAP is a science platform toolkit: an integrated set of software components which ESFRIs, ESCAPE project partners, and other groups can use to rapidly assemble and deploy platforms that are customized to the needs of their particular user communities and which integrate their existing service po...
- Astroparticle physics
- cta
- EGO-Virgo
- + 10
- Shell
FairMQ
C++ Message Queuing Library and Framework
- C
- C++
- CMake
- + 2
GammaLearn
GammaLearn is a collaborative project to apply deep learning to the analysis of low-level Imaging Atmospheric Cherenkov Telescopes such as CTA. It provides a framework to easily train and apply models from a configuration file. Learn more at https://purl.org/gammalearn
- cta
- deep learning
- Gamma-ray telescopes
- + 1
- Dockerfile
- Python
Gammapy: Python toolbox for gamma-ray astronomy
Gammapy analyzes gamma-ray data and creates sky images, spectra and lightcurves, from event lists and instrument response information; it can also determine the position, morphology and spectra of gamma-ray sources. It is used to analyze data from H.E.S.S., Fermi-LAT, HAWC, and the Cherenkov Tele...
- astronomy
- Data Analysis
- Gamma-rays
- Cython
- Dockerfile
- Makefile
- + 1
gLike
gLike is a general-purpose ROOT-based code framework for the numerical maximization of joint likelihood functions. The joint likelihood function has one free parameter (named g) and as many nuisance parameters as wanted, which will be profiled in the maximization process.
- cta
- dark matter
- gamma-ray astronomy
- + 3
- C
- C++
- CMake
- + 1
G-Tomo
The G-Tomo scientific data application (SDA) created by the EXPLORE project allows users to extract 1d profiles and 2d maps from the latest 3d dust extinction maps based on Gaia eDR3 and 2MASS data (Lallement et al. 2022).
- Extinction
- Gaia; Content: Astronomy
- Galactic
- + 2
- CSS
- Dockerfile
- Python
- + 1
HiPeRTA
HiPeRTA is a C++ library providing High Performance computing algorithms which provide full C++ programs from HiPeCTA C++ sources for the Cherenkov Telescope Array (CTA) low-level data analysis real time reconstruction. It takes advantage of the latest SIMD (Single input multiple data) operations...
- Astroparticle physics
- BLOSC
- cta
- + 7
- C
- C++
- CMake
- + 2
IndexedConv
The indexed operations allow the user to perform convolution and pooling on non-Euclidian grids of data given that the neighbors pixels of each pixel is known and provided. It gives an alternative to masking or resampling the data in order to apply standard Euclidian convolution. This solution h...
- cta
- Python
Jupyter-CASA
A Jupyter kernel for CASA, a popular data processing suite for radio astronomy. The software is packaged together with CASA as a Docker container.
- astronomy
- JIVE
- jupyter-notebook
- Dockerfile
- Jupyter Notebook
- Python
- + 2
LOFAR software stack (ESCAPE 2020 edition)
LOFAR software stack for usage in the ESCAPE project. This is a Singularity image of a specific version of the LOFAR software stack.
- projects: LOFAR
- C
- C++
- Java
- + 2
MOC Lib Rust, MOCCLi, MOCWasm and MOCSet
Rust implementation of the IVOA MOC standard (MOC Lib Rust); associated command line tool (MOCCli) and Javascript/WebAssembly wrapper to manipulate MOCs in Web Browsers (MOCWasm).
- astronomy
- HEALPix
- IVOA
- + 1
- HTML
- Rust
- Shell
- + 1
MOCpy
Python library to easily create and manipulate MOCs (Multi-Order Coverage maps)
- astronomy
- MOC
- VirtualObservatory
- + 1
- Python
- Rust
ossr-curation
Open curation for the ESCAPE OSSR using gitlab merge requests.
- ESCAPE
- zenodo
- Python