Repositories

View the full current list of repositories on GitHub.

The repositories fall into the following six project areas shown below:

  • Neuromechanical modeling with Sibernetic
  • Geppetto Simulation Engine
  • Movement validation
  • Optimization engine
  • Data collection and representation
  • Community outreach

Neuromechanical Modeling with Sibernetic

Repository Description Language
Smoothed-Particle-Hydrodynamics Known as Sibernetic, this is a C++ implementation of the Smoothed Particle Hydrodynamics algorithm for the OpenWorm project. C++
ConfigurationGenerator Generation start scene configuration for PCI SPH solver JavaScript
CyberElegans Neuromechanical model of C. Elegans C++

Geppetto Simulation Engine

Repository Description Language
org.gepetto Geppetto Main Bundle and packaging Java
org.geppetto.solver.sph PCI SPH Solver bundle for Geppetto Java
org.geppetto.simulator.jlems jLEMS based simulator for Geppetto Java
org.geppetto.model.neuroml NeuroML Model Bundle for Geppetto Java
org.geppetto.core Geppetto core bundle Java
org.geppetto.frontend Geppetto frontend bundle - Web application Java
org.geppetto.testbackend Geppetto test backend for Geppetto Java
org.geppetto.simulator.sph SPH Simulator bundle for Geppetto Java
org.geppetto.simulation Generic simulation bundle for Geppetto Java
org.geppetto.model.sph PCI SPH Model Bundle for Geppetto Java
org.geppetto.samples Sample simulations for Geppetto Descriptive
org.geppetto.templatebundle Template bundle Java

Movement Analysis

See the movement analysis project page for the full repository list.

Optimization Engine

Repository Description Language
HeuristicWorm

C++

Data Collection and Representation

Repository Description Language
wormbrowser The Worm Browser -- a 3D browser of the cellular anatomy of the c. elegans Javascript
openwormbrowser-ios OpenWorm Browser for iOS, based on the open-3d-viewer, which was based on Google Body Browser Objective-C
data-viz Repository for scripts and other code items to create web-based visualizations of data in the project Python
CElegansNeuroML NeuroML based C elegans model, contained in a neuroConstruct project Java
Blender2NeuroML Conversion script to bring neuron models drawn in Blender into NeuroML format Python
NEURONSimData Graphing voltage data from NEURON sims of C. elegans conectome Python
muscle_model model of c.elegans muscle in NEURON / Python Python
wormbrowser The Worm Browser -- a 3D browser of the cellular anatomy of the c. elegans Javascript
openwormbrowser-ios OpenWorm Browser for iOS, based on the open-3d-viewer, which was based on Google Body Browser Objective-C
data-viz Repository for scripts and other code items to create web-based visualizations of data in the project Python

Community Outreach

Repository Description Language
org.openworm.website OpenWorm Website Python
OpenWorm Project Home repo for OpenWorm Wiki and Project-wide issues Matlab
openworm_docs Documentation for OpenWorm