website code for the national resource for network biology
GSoC 2012 project for Cytoscape. The app works for Cytoscape 3.0 onward.
Collection of resources for network biology training
Find pathways at WikiPathways that contain one or more miRNAs
Main documentation site for NRNB GSoC project ideas and resources
Find interactions between nodes and extract subgraphs from an XGMML network
code from GSoC 2016 by Supun Arunoda (Scooter Morris) and NRNB Academy Summer Session 2015 by Vijay Dhameliya (Scooter Morris)
JSBML is a community-driven project to create a free, open-source, pure Java™ library for reading, writing, and manipulating SBML files (the Systems Biology Markup Language) and data streams. It is an alternative to the mixed Java/native code-based interface provided in libSBML.
Parse CellDesigner annotations from SBML.
Design Explorer and Viewer for Iterative SBML Enhancement of Representations
EscherConverter is a standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard formats.
Cytoscape.js tutorials project for GSOC 2016
gsoc project to enhance vignettes in R package RCy3 for use with Cytoscape
An interactive graphical editing / curation tool for cancer pathways
The CoSE layout for Cytoscape.js by Bilkent with enhanced compound node placement.
Core App: Command Dialog
Google Summer of Code 2016 Project for NRNB
A Cytoscape.js extension for the k-means, k-medoids, & fuzzy c-means family of algorithms
code from NRNB Academy Summer Session 2015 by Sakahi Pratap (Giovanni Scardoni)
code from NRNB Academy Summer Session 2015 by Matthias Koenig (Andreas Dräger)
code from NRNB Academy Summer Session 2015 by Metin Can Siper (Ugur Dogrusoz)