Repositories list

• js4cytoscape

  Public
  JavaScript library for calling Cytoscape Automation via CyREST

  JavaScript

  •

  MIT License

  •4•4•1•0•Updated Apr 19, 2025Apr 19, 2025

• py4cytoscape

  Public
  Python library for calling Cytoscape Automation via CyREST

  workflowworkflow-automationpython+ 3cytoscapepy2cytoscapecytoscape-interfaces

  Python

  •

  Other

  •15•79•26•1•Updated Apr 18, 2025Apr 18, 2025

• cytoscape-web

  Public
  TypeScript

  •

  MIT License

  •8•12•1•4•Updated Apr 18, 2025Apr 18, 2025

• cytoscape.js-popper

  Public
  A wrapper for Popper.js that lets you position divs relative to Cytoscape elements

  JavaScript

  •

  MIT License

  •23•102•0•0•Updated Apr 17, 2025Apr 17, 2025

• RCy3

  Public
  New version of RCy3, redesigned and collaboratively maintained by Cytoscape developer community

  R

  •

  MIT License

  •20•52•7•0•Updated Apr 16, 2025Apr 16, 2025

• cytoscape.github.com

  Public
  Cytoscape org web site.

  HTML

  •16•22•1•0•Updated Apr 15, 2025Apr 15, 2025

• cytoscape.js-klay

  Public
  The Klay layout algorithm for Cytoscape.js

  JavaScript

  •

  MIT License

  •42•91•0•0•Updated Apr 15, 2025Apr 15, 2025

• cytoscape.js-automove

  Public
  An extension for Cytoscape.js that automatically updates node positions based on specified rules

  cytoscapejscytoscapejs-extension

  JavaScript

  •

  MIT License

  •11•35•0•0•Updated Apr 15, 2025Apr 15, 2025

• enrichment-map-webapp

  Public
  JavaScript

  •

  MIT License

  •0•6•40•1•Updated Apr 10, 2025Apr 10, 2025

• ipycytoscape

  Public
  A Cytoscape Jupyter widget

  binderjupyter-notebookcytoscape

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •62•271•60•14•Updated Apr 7, 2025Apr 7, 2025

• iregulon-webapp

  Public
  JavaScript

  •

  MIT License

  •0•1•17•0•Updated Apr 4, 2025Apr 4, 2025

• cytoscape-tutorials

  Public
  Collection of modular Cytoscape tutorials for online presentation using reveal.js

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •117•315•26•13•Updated Apr 4, 2025Apr 4, 2025

• web-cytoscape-manual

  Public
  Holds documentation for Cytoscape Web

  Makefile

  •

  Creative Commons Zero v1.0 Universal

  •0•0•0•0•Updated Apr 3, 2025Apr 3, 2025

• old-cytoscapeweb-redirected

  Public
  This hosts a landing page that directs old cytoscapeweb users to cytoscape.js and the new cytoscape web projects

  CSS

  •0•0•0•0•Updated Apr 3, 2025Apr 3, 2025

• cytoscape.js

  Public
  Graph theory (network) library for visualisation and analysis

  visualizationjavascriptanalysis+ 4networkvisualisationgraph-theorycytoscapejs

  JavaScript

  •

  MIT License

  •1.6k•10k•9•1•Updated Apr 1, 2025Apr 1, 2025

• cytoscape.js-compound-drag-and-drop

  Public
  Compound node drag-and-drop UI for adding and removing children

  JavaScript

  •

  MIT License

  •16•33•0•2•Updated Mar 28, 2025Mar 28, 2025

• cytoscape

  Public
  Cytoscape: an open source platform for network analysis and visualization

  Shell

  •143•617•0•1•Updated Mar 27, 2025Mar 27, 2025

• network-ptm-integration

  Public
  This repo tracks the work of data-driven addition of phosphorylation sites to proteins in networks (and pathways).

  R

  •

  MIT License

  •0•0•6•0•Updated Mar 27, 2025Mar 27, 2025

• cytoscape.js-cola

  Public
  The Cola.js physics simulation layout for Cytoscape.js

  cytoscapejscytoscapejs-extension

  JavaScript

  •

  MIT License

  •67•158•0•0•Updated Mar 7, 2025Mar 7, 2025

• cytoscape.js-edgehandles

  Public
  Edge creation UI extension for Cytoscape.js

  cytoscapejscytoscapejs-extension

  HTML

  •

  MIT License

  •85•171•0•0•Updated Mar 7, 2025Mar 7, 2025

• cytoscape.js-cxtmenu

  Public
  Context menu for Cytoscape.js

  cytoscapejscytoscapejs-extension

  JavaScript

  •

  MIT License

  •83•169•0•0•Updated Mar 7, 2025Mar 7, 2025

• cytoscape.js-dagre

  Public
  The Dagre layout for DAGs and trees for Cytoscape.js

  cytoscapejscytoscapejs-extension

  JavaScript

  •

  MIT License

  •82•258•0•0•Updated Mar 7, 2025Mar 7, 2025

• cyREST

  Public
  Core App: REST API module for Cytoscape

  JavaScript

  •

  MIT License

  •13•30•50•1•Updated Mar 6, 2025Mar 6, 2025

• enrichmentmap-service

  Public
  EnrichmentMap microservice

  Java

  •0•1•1•0•Updated Mar 6, 2025Mar 6, 2025

• cytoscape-impl

  Public
  Cytoscape 3 implementation bundles.

  Java

  •

  GNU Lesser General Public License v2.1

  •40•37•0•0•Updated Feb 28, 2025Feb 28, 2025

• cytoscape-admin-scripts

  Public
  Build and maintenance scripts for Cytoscape core developers.

  Jupyter Notebook

  •5•2•1•0•Updated Feb 26, 2025Feb 26, 2025

• cytoscape-automation

  Public
  Collection of scripts that include programmatic io and control of Cytoscape

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •59•87•13•10•Updated Feb 19, 2025Feb 19, 2025

• cx

  Public
  CX serialization and de-serialization in Cytoscape

  Java

  •1•3•8•1•Updated Feb 10, 2025Feb 10, 2025

• cy-ndex-2

  Public
  A Cytoscape client app for the NDEx database

  Java

  •

  MIT License

  •2•0•19•3•Updated Feb 8, 2025Feb 8, 2025

• cytoscape-web-app-examples

  Public
  (Experimental) Example apps for Cytoscape Web

  TypeScript

  •

  MIT License

  •0•0•0•0•Updated Feb 4, 2025Feb 4, 2025