All software
clumped-processing
Clumped isotope measurement processing script for Thermo Fisher MAT 253 plus isotope ratio mass spectrometer with the Kiel IV
- clumped isotope
- Data Analysis
- mass spectrometry
- + 3
- HTML
- R
clumpedr
Clumpedr aims to facilitate analysis of clumped isotope data. It builds on isoreader which is used to import raw data files from the mass spectrometer, and most of the important data processing parts are based on Huntington et al. 2009 and Daëron et al. 2016.
- Data Analysis
- mass spectrometry
- R
- Makefile
- Rez
Code Auditor
A package and command-line utility to audit code quality and compliance to the best practices.
- code quality
- conformity assessment
- software development
- Python
CoeusAI
The CoeusAI QGIS plugin is 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
Collens
Collens is a dynamic web-based tool designed for scholars to compare textual variants with annotations. Utilizing machine learning, it offers an efficient workflow for analyzing multiple versions of literary and scholarly documents.
- digital humanities
- Visualization
- Svelte
- TypeScript
- JavaScript
- + 2
Compass-school
This Python implementation tries to model school choice and resulting school segregation based on the work of Schelling (1971) and Stoica & Flache (2014).
- Agent-based modeling
- Python
- HTML
Compas Toolkit
The Compas Toolkit is a high-performance C++ library offering GPU-accelerated functions for use in quantitative MRI research.
- GPU
- High performance computing
- MRI
- Cuda
- C++
- Julia
- + 4
ConvolutionalNeuralOperators.jl
Julia package to implement Convolutional Neural Operators
- Julia Package
- Machine learning
- Scientific machine learning
- Julia
Cosimplat
Co-simulation framework made for RESCUE project
Cosmology.jl
Cosmology library for Julia
- astronomy
- Astrophysics
- cosmology
- + 1
- Julia
CoupledNODE
CoupledNODE.jl is a SciML repository that extends NODEs (Neural Ordinary Differential Equations) to C-NODEs (Coupled Neural ODEs), providing a data-driven approach to modelling solutions for multiscale systems when exact solutions are not feasible.
- Julia Language
- Julia Package
- Machine learning
- + 1
- Julia
- Shell
rcrisp
rcrisp provides tools to automate the morphological delineation of riverside urban areas.
- Data Analysis
- geospatial
- R
- + 1
- R
- TeX
Cronian
Cronian is a Python package for building copper plate optimization models in Pyomo to optimize flexibility scheduling in multi-carrier integrated energy systems, which are specified through simple YAML and CSV files.
- Python
- Shell
CrowdED
CrowdED is a two-staged statistical guideline for optimal crowdsourcing experimental design in order to a-priori estimate optimal workers and tasks' assignment to obtain maximum accuracy on all tasks.
- Citizen Science
- Crowdsourcing
- Data Simulation
- Python
- R
- Dockerfile
cudawrappers
The cudawrappers library is a C++ wrapper for the Nvidia C libraries such as the CUDA driver, NVRTC, and cuFFT.
- accelerators
- CUDA
- GPU
- C++
- CMake
- Python
- + 2
cvasl
This library allows exploration and analyses of neuroimaging datsets. The software was developed to allow implementation of multiple large data harmonization and machine learning algorithms over neuroradiology datasets. The core algorithms are implemented in Python.
- Jupyter Notebook
- Python
- R
- + 3
cwltool
The reference implementation of the Common Workflow Language standards
- CommonWL
- CWL
- SciWorkflows
- Python
- Common Workflow Language
- Shell
- + 4
CWRC-Writer
An in-browser text markup editor for collaborative editing of scholarly projects.
- LOD
- named entity linking
- named entity Recognition
- + 3
- JavaScript
- CSS
- Less
- + 2
Data Processing (What Works When for Whom)
Data processing scripts for the project What Works When for Whom
- Jupyter Notebook
- Python
- Shell
DataStream
DataStream is a powerful online platform for sharing information about freshwater health. It is open access and built with communities, policy-makers and researchers in mind.
- Water quality
- watersheds
Democracy Datasets
Sentence-wise split datasets of country reports in CSV format
- CSV
- dataset
Democracy Scraping Tool
A scraping tool to scrape various sources of country reports.
- scraping
- Python
Democracy text classification
LLM transfer learning to classify country reports into democracy dimensions.
- fine-tuning
- llm
- transfer learning
- Jupyter Notebook
- Python
Democracy Topic Modelling
Various Jupyter notebooks for topic modelling on democracy texts including BERT and dictionary, keyword-based approaches.
- BERT
- dictionary
- Topic Modelling
- Jupyter Notebook
- Python
DG_RoomAcoustics
DG_RoomAcoustics is an open-source python-based software for room acoustics using the time-domain wave-based method. It implements the nodal discontinuous Galerkin method for spatial discretization of the linear acoustic equations, integrated over time with explicit schemes.
- Acoustics
- High performance computing
- python
- 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
- Python
- Jupyter Notebook
- Shell
doc2sentences
A python library to split sentence-wise and convert various document formats to CSV format.
- CSV
- python
- + 1
- Rich Text Format
- Python
- Shell
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
- Python
- HTML
- TypeScript
- + 3
DumME
Scikit-learn compatible version of Mixed-Effects Random Forests
- Python
e2e-Dutch
Coreference resolution for Dutch: automatically links references to the same entity in Dutch written texts.
- Machine learning
- Text analysis & natural language processing
- Python
- C++
- Shell
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
- Python
- Perl
- Mako
- + 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
- Jupyter Notebook
- Python
- Dockerfile
era5cli
A command line interface to download ERA5 data from the Copernicus Climate Data Store
- Python
Atlas of climate projections
The atlas demonstrates outputs from the probabilistic projection methods developed or assessed in the European Climate Projection system EUCP Horizon2020 project.
- Visualization
- Jupyter Notebook
- Vue
- Python
- + 1
ewatercycle-hype
eWatercycle plugin for HYPE hydrological model
- Python
eWatercycle SURF Research Cloud
Codified instructions for deploying the eWaterCycle platform on the SURF Research Cloud.
- Jinja
- Python
- Shell
ewatercycle-lisflood
eWatercycle plugin for LISFLOOD hydrological model
- Python
ewatercycle-marrmot
eWatercycle plugin for MARRMoT hydrological model
- Python
ewatercycle-pcrglobwb
eWaterCycle plugin for PCRGlobWB hydrological model
- Python
ewatercycle-wflow
eWaterCycle plugin for wflow hydrological model
- Python
ewatercycle-wflowjl
Wflow.jl plugin for eWatercycle.
- Python
- Dockerfile
eWaterLeaf
If you have large amounts of Geospatial grid-based data you would like to explore quickly, eWaterLeaf could be the visualisation for you.
- Visualization
- JavaScript
- HTML
- CSS