All software

DataLad

DataLad is a tool for the joint management of code, data, and their relationship, built on top of the version control systems Git & git-annex. It adapts principles of open-source software development & distribution to address challenges of data management, data sharing, & digital provenance capture.

PeTrack

PeTrack (Pedestrian Tracking) automatically extracts accurate pedestrian trajectories from video recordings (calibration, recognition, tracking). Individual codes enable personalized trajectories with static information of each participant. With a stereo camera also markerless tracking is possible.

PDAF

PDAF - the Parallel Data Assimilation Framework is a software framework for interdisciplinary data assimilation. PDAF provides support for ensemble modeling and fully implemented data assimilation methods to merge models and observational data which let models learn from observations.

CrystFEL

CrystFEL is a suite of programs to process data from "serial crystallography" experiments.

CPlantBox

CPlantBox is a functional-structural plant-soil modelling framework. It simulated the 3D architecture of a plant, coupled carbon and water flow within the plant, water flow and solute transport in a 3D dynamic soil, as well as water and nutrient uptake, and rhizodeposition.

Earth System Model Evaluation Tool (ESMValTool)

4C Multiphysics

4C is a parallel multiphysics research code for simulating solid/fluid mechanics, scalar transport, and chemical reactions. It supports both single-field and coupled systems, offering ready-to-use solutions for a wide range of physical problems.

openCARP

openCARP is a multiscale cardiac electrophysiology simulator for in silico experiments ranging from single heart cells and cardiac tissue to organ models up to the body surface ECG.

FastSurfer

FastSurfer is a fast and accurate deep-learning pipeline for the analysis of human brain MRI. FastSurfer provides a fully compatible FreeSurfer alternative for volumetric and surface-based thickness analysis, also supporting sub-mm resolutions, and sub-segmentation of neuroanatomical structures.

AROSICS

AROSICS is an automated and robust open-source image co-registration software for multi-sensor satellite data.

MIRP

MIRP is a python package for quantitative analysis of medical images. It focuses on processing images for integration with radiomics workflows. These workflows either use quantitative features computed using MIRP, or directly use MIRP to process images as input for deep learning models.

SeisBench: A toolbox for machine learning in seismology

SeisBench is an open-source Python toolbox for machine learning in seismology. It brings together the whole machine learning model lifecycle: datasets and benchmarks, models and training pipelines, and efficient implementations for deploying the models in production.