All software
self-hosted runners
Collection of resources to set up GitHub runners on self-hosted infrastructure
- High performance computing
- (Dockerfile)
- (Shell)
SimVascular
The only fully open source software package providing a complete pipeline from medical image data segmentation to patient specific blood flow simulation and analysis.
- Cardiovascular
- Fluid mechanics
- Medical image computing
- + 1
- (Batchfile)
- (C)
- (C++)
- + 9
sirup
Sirup is an open-source Python package that makes it easy to connect to, and rotate across, VPN servers provided by services such as ProtonVPN and Surfshark.
- ip-rotation
- openvpn
- python
- + 1
- (Python)
- (Shell)
SlicerIGT
Software toolkit for rapid development of image-guided therapy systems - for minimally invasive medical procedures, where operators rely on computer-generated images rather than direct sight of the target organs.
- 3D Slicer
- deep learning
- Medical image computing
- + 2
- (C++)
- (CMake)
- (Python)
snakemake-wrf
A snakemake workflow to run WRF, including pre- and postprocessing. See our blog post for a detailed description.
- geospatial
- High performance computing
- python
- + 1
- ("Jupyter Notebook")
- (Python)
- (Shell)
TaxoTagger
DNA barcode identification, powered by semantic searching.
- Fungi
- Machine learning
- semantic search
- + 3
- (Makefile)
- (Mustache)
- (Python)
Umple
Umple allows generation of code in Java, PHP and other languages from a textual representation of UML state machines, associations and other modeling constructs, thus saving coding effort
- Code Generation
- Software Modeling
- State Machines
- + 1
- (Batchfile)
- (C++)
- (CSS)
- + 19
ValidSense
The ValidSense toolbox aims to assess the agreement between two quantitative methods using the Limits of Agreement analysis, aka the Bland-Altman analysis. Four existing variants are available. Moreover, a Longitudinal analysis is developed to assess agreement over time.
- Agreement Analysis
- Bland-Altman
- Limits of Agreement
- + 1
- (Python)
WAM2layers
WAM2layers is an atmospheric moisture-tracking model that can be used to determine where precipitation originally evaporated (backtracking), or where evaporated moisture eventually ends up (forward tracking).
- atmospheric rivers
- ERA5
- hydrological cycle
- + 4
- ("Jupyter Notebook")
- (Python)
- (Shell)
Workflomics
Web platform for workflow exploration and benchmarking in bioinformatics
- Inter-operability & linked data
- Workflow technologies
- (CSS)
- (HTML)
- (JavaScript)
- + 1
WRF-runner
Simple shell script to run a complete WPS/WRF experiment in one go
- climate
- Forecasting
- workflow
- + 1
- (Shell)
Angle-and-step random walk
An Python implementation of random walk in 2D space based on agent angle orientation and step distance. It defines an agent class `Walker` capable of random walk movement based on random angle and movement step distance in a continuous 2D space.