Repositories list

• iregulon-webapp

  Public
  JavaScript

  •

  MIT License

  •00 forks•11 star•1515 issues•00 pull requests•Updated Apr 15, 2026Apr 15, 2026

• cytoscape.js

  Public
  Graph theory (network) library for visualisation and analysis

  visualizationjavascriptanalysis+ 4

  visualizationjavascriptanalysisnetworkvisualisationgraph-theorycytoscapejs

  JavaScript

  •

  MIT License

  •1.7k1.7k forks•11k11k stars•1919 issues•1010 pull requests•Updated Apr 15, 2026Apr 15, 2026

• cytoscape.github.com

  Public
  Cytoscape org web site.

  HTML

  •1414 forks•2222 stars•11 issue•00 pull requests•Updated Apr 14, 2026Apr 14, 2026

• cytoscape-desktop-website

  Public
  The new "Cytoscape Desktop" website

  JavaScript

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 14, 2026Apr 14, 2026

• cytoscape-impl

  Public
  Cytoscape 3 implementation bundles.

  Java

  •

  GNU Lesser General Public License v2.1

  •4040 forks•4141 stars•00 issues•00 pull requests•Updated Apr 14, 2026Apr 14, 2026

• cytocontainer-rest-server

  Public
  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 12, 2026Apr 12, 2026

• cytoscape-web

  Public
  A browser-based implementation of Cytoscape for network visualization and analysis. Runs entirely in your browser with data-driven styling, collaborative workfl…

  systems-biologydata-visualizationcytoscape+ 2

  systems-biologydata-visualizationcytoscapenetwork-analysisnetwork-biology

  TypeScript

  •

  MIT License

  •1616 forks•2929 stars•11 issue•22 pull requests•Updated Apr 10, 2026Apr 10, 2026

• cytoscape.js-klay

  Public
  The Klay layout algorithm for Cytoscape.js

  JavaScript

  •

  MIT License

  •4141 forks•9999 stars•00 issues•55 pull requests•Updated Apr 10, 2026Apr 10, 2026

• cytoscape.js-dagre

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

  cytoscapejscytoscapejs-extension

  cytoscapejscytoscapejs-extension

  JavaScript

  •

  MIT License

  •7979 forks•277277 stars•33 issues•77 pull requests•Updated Apr 10, 2026Apr 10, 2026

• cytoscape.js-cola

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

  cytoscapejscytoscapejs-extension

  cytoscapejscytoscapejs-extension

  JavaScript

  •

  MIT License

  •6767 forks•170170 stars•00 issues•44 pull requests•Updated Apr 10, 2026Apr 10, 2026

• cytoscape.js-elk

  Public
  The ELK layout algorithm adapter for Cytoscape.js

  JavaScript

  •

  MIT License

  •2828 forks•5656 stars•00 issues•00 pull requests•Updated Apr 10, 2026Apr 10, 2026

• cytoscape.js-popper

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

  JavaScript

  •

  MIT License

  •2222 forks•104104 stars•00 issues•44 pull requests•Updated Apr 10, 2026Apr 10, 2026

• cytoscape.js-automove

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

  cytoscapejscytoscapejs-extension

  cytoscapejscytoscapejs-extension

  JavaScript

  •

  MIT License

  •88 forks•3737 stars•00 issues•55 pull requests•Updated Apr 10, 2026Apr 10, 2026

• cytoscape.js-compound-drag-and-drop

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

  JavaScript

  •

  MIT License

  •1515 forks•3333 stars•00 issues•66 pull requests•Updated Apr 10, 2026Apr 10, 2026

• cytoscape.js-cxtmenu

  Public
  Context menu for Cytoscape.js

  cytoscapejscytoscapejs-extension

  cytoscapejscytoscapejs-extension

  JavaScript

  •

  MIT License

  •7878 forks•179179 stars•00 issues•44 pull requests•Updated Apr 10, 2026Apr 10, 2026

• cytoscape-home

  Public
  JavaScript

  •

  MIT License

  •44 forks•11 star•1010 issues•33 pull requests•Updated Apr 8, 2026Apr 8, 2026

• cytoscape-tutorials

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

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •117117 forks•329329 stars•2626 issues•1313 pull requests•Updated Apr 8, 2026Apr 8, 2026

• ipycytoscape

  Public
  A Cytoscape Jupyter widget

  binderjupyter-notebookcytoscape

  binderjupyter-notebookcytoscape

  Python

  •

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

  •6161 forks•289289 stars•6060 issues•1414 pull requests•Updated Apr 6, 2026Apr 6, 2026

• cytoscape-web-app-examples

  Public
  (Experimental) Example apps for Cytoscape Web

  TypeScript

  •

  MIT License

  •00 forks•44 stars•00 issues•00 pull requests•Updated Apr 4, 2026Apr 4, 2026

• js4cytoscape

  Public
  JavaScript library for calling Cytoscape Automation via CyREST

  JavaScript

  •

  MIT License

  •33 forks•44 stars•11 issue•00 pull requests•Updated Mar 25, 2026Mar 25, 2026

• cytoscape-desktop-mcp

  Public
  App which provides an MCP server for integration of desktop with agents

  Java

  •

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

  •11 fork•55 stars•00 issues•00 pull requests•Updated Mar 25, 2026Mar 25, 2026

• 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

  •00 forks•00 stars•77 issues•00 pull requests•Updated Mar 16, 2026Mar 16, 2026

• cytoscape.js-panzoom

  Public
  Panzoom extension for Cytoscape.js

  cytoscapejscytoscapejs-extension

  cytoscapejscytoscapejs-extension

  CSS

  •

  MIT License

  •3131 forks•6868 stars•00 issues•55 pull requests•Updated Mar 14, 2026Mar 14, 2026

• cytoscape-parent

  Public
  Cytoscape 3.x parent pom file.

  55 forks•00 stars•00 issues•00 pull requests•Updated Mar 6, 2026Mar 6, 2026

• whiteboardREST

  Public
  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 4, 2026Mar 4, 2026

• cytoscape.js-cose-bilkent

  Public
  The CoSE layout for Cytoscape.js by Bilkent with enhanced compound node placement.

  cytoscapejscytoscapejs-extension

  cytoscapejscytoscapejs-extension

  HTML

  •

  MIT License

  •4545 forks•136136 stars•2020 issues•1111 pull requests•Updated Mar 4, 2026Mar 4, 2026

• cytoscape.js-edgehandles

  Public
  Edge creation UI extension for Cytoscape.js

  cytoscapejscytoscapejs-extension

  cytoscapejscytoscapejs-extension

  HTML

  •

  MIT License

  •8282 forks•180180 stars•00 issues•66 pull requests•Updated Mar 2, 2026Mar 2, 2026

• jupyter-bridge

  Public
  Bridge enables Jupyter code on remote server to execute HTTP calls on local PC

  Python

  •

  MIT License

  •33 forks•44 stars•00 issues•00 pull requests•Updated Feb 12, 2026Feb 12, 2026

• cytoscape-admin-scripts

  Public
  Build and maintenance scripts for Cytoscape core developers.

  Jupyter Notebook

  •44 forks•22 stars•11 issue•00 pull requests•Updated Feb 11, 2026Feb 11, 2026

• py4cytoscape

  Public
  Python library for calling Cytoscape Automation via CyREST

  pythonworkflowcytoscape+ 3

  pythonworkflowcytoscapeworkflow-automationpy2cytoscapecytoscape-interfaces

  Python

  •

  Other

  •1515 forks•8686 stars•2727 issues•11 pull request•Updated Feb 3, 2026Feb 3, 2026