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13-24 of 233

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.

DataLad
data managment
data sharing
+ 8

Python
Shell
Makefile
+ 4

283

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.

Data analysis
Deep Learning
Image processing
+ 3

Jupyter Notebook
Python
Shell
+ 1

259

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.

Medical Image Processing
python
radiomics

Python
Jupyter Notebook
R
+ 2

209

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.

computational cardiology
digital twin
electrophysiology
+ 3

C++
Python
C
+ 2

190

AROSICS

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

Earth & Environment
Fourier Shift Theorem
Geometric Pre-processing
+ 8

Python
Makefile
Shell

189

CoMOLA

CoMOLA is a python tool for optimal spatial allocation of land uses. The tool creates optimal land-use maps for up to four objectives. It takes into account constraints and can be coupled with external models to evaluate different objectives (e.g. ecosystem services/biodiversity models)

land-use allocation
multi-objective optimization
NSGA-II

Python
R

183

pycomlink

A python toolbox for deriving rainfall information from commercial microwave link (CML) data.

precipitation estimation
python
rainfall
+ 2

Jupyter Notebook
Python

139

GOLEM

GOLEM is a modelling platform for thermal-hydraulic-mechanical and non-reactive chemical processes in fractured and faulted porous media, based on the MOOSE framework

Earth & Environment
Multiphysics of porous fractured rocks
reservoir behaviour and induced seismicity
+ 1

C++
SWIG
Assembly
+ 5

137

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.

Earth & Environment
GPU
Helmholtz AI
+ 4

Jupyter Notebook
Python

133

AMIRIS

AMIRIS is the open Agent-based Market model for the Investigation of Renewable and Integrated energy Systems. It aims at enabling scientists to dissect the complex questions arising with respect to future energy markets, their market design, and energy-related policy instruments.

Agent-based Model
electricity
Energy
+ 4

Java
Python
BibTeX

116

BrainPrint

Our BrainPrint tools provide shape descriptors of neuroanatomical structures and require a FreeSurfer or FastSurfer segmentation as a pre-processing step. BrainPrint is based on “ShapeDNA” a spectral shape descriptor.

Data analysis
MRI
open source
+ 1

Python

113

GSTools

GSTools is a Python-based software suite for solving a wide range of geostatistical problems. GSTools provides methods for generating different classes of correlated random fields; it can perform kriging, variogram estimation and much more.

covariance-model
geospatial
geostatistics
+ 7

Python
Cython

109