Repositories list

• desktop-service-app

  Public
  Cytoscape Desktop app that installs, renders and runs Cytoscape service apps from the unified App Store.

  Java

  •

  Eclipse Public License 1.0

  •00 forks in cytoscape/desktop-service-app•00 stars in cytoscape/desktop-service-app•11 issue in cytoscape/desktop-service-app•11 pull request in cytoscape/desktop-service-app•Updated Oct 29, 2026Oct 29, 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

  •2222 forks in cytoscape/cytoscape-web•3434 stars in cytoscape/cytoscape-web•4646 issues in cytoscape/cytoscape-web•66 pull requests in cytoscape/cytoscape-web•Updated Oct 28, 2026Oct 28, 2026

• mcode-cw

  Public
  MCODE App for Cytoscape Web

  TypeScript

  •

  GNU Lesser General Public License v2.1

  •00 forks in cytoscape/mcode-cw•00 stars in cytoscape/mcode-cw•00 issues in cytoscape/mcode-cw•00 pull requests in cytoscape/mcode-cw•Updated Oct 27, 2026Oct 27, 2026

• cytoscape.js

  Public
  Graph theory (network) library for visualisation and analysis

  visualizationjavascriptanalysis+ 4

  visualizationjavascriptanalysisnetworkvisualisationgraph-theorycytoscapejs

  JavaScript

  •

  MIT License

  •1.7k1.7k forks in cytoscape/cytoscape.js•11k11k stars in cytoscape/cytoscape.js•2020 issues in cytoscape/cytoscape.js•1010 pull requests in cytoscape/cytoscape.js•Updated Oct 27, 2026Oct 27, 2026

• cytoscape-home

  Public
  JavaScript

  •

  MIT License

  •44 forks in cytoscape/cytoscape-home•11 star in cytoscape/cytoscape-home•77 issues in cytoscape/cytoscape-home•33 pull requests in cytoscape/cytoscape-home•Updated Oct 26, 2026Oct 26, 2026

• appstore

  Public
  Cytoscape App Store web application code

  Python

  •2525 forks in cytoscape/appstore•2020 stars in cytoscape/appstore•3737 issues in cytoscape/appstore•1919 pull requests in cytoscape/appstore•Updated Oct 23, 2026Oct 23, 2026

• enrichment-map-webapp

  Public
  EnrichmentMap.org

  JavaScript

  •

  MIT License

  •11 fork in cytoscape/enrichment-map-webapp•99 stars in cytoscape/enrichment-map-webapp•99 issues in cytoscape/enrichment-map-webapp•00 pull requests in cytoscape/enrichment-map-webapp•Updated Oct 23, 2026Oct 23, 2026

• web-cytoscape-manual

  Public
  Holds documentation for Cytoscape Web

  Makefile

  •

  Creative Commons Zero v1.0 Universal

  •00 forks in cytoscape/web-cytoscape-manual•11 star in cytoscape/web-cytoscape-manual•00 issues in cytoscape/web-cytoscape-manual•11 pull request in cytoscape/web-cytoscape-manual•Updated Oct 20, 2026Oct 20, 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 in cytoscape/cytoscape.js-cose-bilkent•138138 stars in cytoscape/cytoscape.js-cose-bilkent•2020 issues in cytoscape/cytoscape.js-cose-bilkent•1111 pull requests in cytoscape/cytoscape.js-cose-bilkent•Updated Oct 20, 2026Oct 20, 2026

• network-analyzer-cw

  Public
  Network Analyzer App for Cytoscape Web

  TypeScript

  •

  MIT License

  •00 forks in cytoscape/network-analyzer-cw•00 stars in cytoscape/network-analyzer-cw•00 issues in cytoscape/network-analyzer-cw•00 pull requests in cytoscape/network-analyzer-cw•Updated Oct 15, 2026Oct 15, 2026

• psicquic-cw

  Public
  PSICQUIC Client App for Cytoscape Web

  TypeScript

  •

  MIT License

  •00 forks in cytoscape/psicquic-cw•00 stars in cytoscape/psicquic-cw•00 issues in cytoscape/psicquic-cw•00 pull requests in cytoscape/psicquic-cw•Updated Oct 15, 2026Oct 15, 2026

• .github

  Public
  00 forks in cytoscape/.github•00 stars in cytoscape/.github•00 issues in cytoscape/.github•00 pull requests in cytoscape/.github•Updated Oct 15, 2026Oct 15, 2026

• cytoscape-desktop-website

  Public
  The new "Cytoscape Desktop" website

  JavaScript

  •

  MIT License

  •00 forks in cytoscape/cytoscape-desktop-website•00 stars in cytoscape/cytoscape-desktop-website•22 issues in cytoscape/cytoscape-desktop-website•00 pull requests in cytoscape/cytoscape-desktop-website•Updated Oct 14, 2026Oct 14, 2026

• cytoscape

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

  Shell

  •154154 forks in cytoscape/cytoscape•736736 stars in cytoscape/cytoscape•1313 issues in cytoscape/cytoscape•22 pull requests in cytoscape/cytoscape•Updated Oct 9, 2026Oct 9, 2026

• cytoscape-admin-scripts

  Public
  Build and maintenance scripts for Cytoscape core developers.

  Python

  •55 forks in cytoscape/cytoscape-admin-scripts•22 stars in cytoscape/cytoscape-admin-scripts•11 issue in cytoscape/cytoscape-admin-scripts•00 pull requests in cytoscape/cytoscape-admin-scripts•Updated Oct 9, 2026Oct 9, 2026

• cytoscape-impl

  Public
  Cytoscape 3 implementation bundles.

  Java

  •

  GNU Lesser General Public License v2.1

  •4141 forks in cytoscape/cytoscape-impl•4343 stars in cytoscape/cytoscape-impl•00 issues in cytoscape/cytoscape-impl•22 pull requests in cytoscape/cytoscape-impl•Updated Oct 8, 2026Oct 8, 2026

• cytoscape-tutorials

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

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •115115 forks in cytoscape/cytoscape-tutorials•337337 stars in cytoscape/cytoscape-tutorials•2626 issues in cytoscape/cytoscape-tutorials•1313 pull requests in cytoscape/cytoscape-tutorials•Updated Oct 7, 2026Oct 7, 2026

• cytoscape-web-app-examples

  Public
  Example Apps for Cytoscape Web.

  TypeScript

  •

  MIT License

  •00 forks in cytoscape/cytoscape-web-app-examples•66 stars in cytoscape/cytoscape-web-app-examples•33 issues in cytoscape/cytoscape-web-app-examples•00 pull requests in cytoscape/cytoscape-web-app-examples•Updated Oct 7, 2026Oct 7, 2026

• ipycytoscape

  Public
  A Cytoscape Jupyter widget

  binderjupyter-notebookcytoscape

  binderjupyter-notebookcytoscape

  Python

  •

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

  •6161 forks in cytoscape/ipycytoscape•291291 stars in cytoscape/ipycytoscape•6060 issues in cytoscape/ipycytoscape•1414 pull requests in cytoscape/ipycytoscape•Updated Oct 5, 2026Oct 5, 2026

• cytoscape-manual

  Public
  Markdown version of Cytoscape manual

  Python

  •

  Creative Commons Zero v1.0 Universal

  •2121 forks in cytoscape/cytoscape-manual•1212 stars in cytoscape/cytoscape-manual•00 issues in cytoscape/cytoscape-manual•00 pull requests in cytoscape/cytoscape-manual•Updated Sep 30, 2026Sep 30, 2026

• cytoscape.github.com

  Public
  Cytoscape org web site.

  HTML

  •1414 forks in cytoscape/cytoscape.github.com•2222 stars in cytoscape/cytoscape.github.com•00 issues in cytoscape/cytoscape.github.com•00 pull requests in cytoscape/cytoscape.github.com•Updated Sep 29, 2026Sep 29, 2026

• cytoscape.js-pdf-export

  Public
  PDF export extension for Cytoscape.js

  JavaScript

  •

  MIT License

  •11 fork in cytoscape/cytoscape.js-pdf-export•22 stars in cytoscape/cytoscape.js-pdf-export•33 issues in cytoscape/cytoscape.js-pdf-export•00 pull requests in cytoscape/cytoscape.js-pdf-export•Updated Sep 25, 2026Sep 25, 2026

• cytoscape-app-template

  Public
  Cytoscape 3 project files for App developers.

  33 forks in cytoscape/cytoscape-app-template•11 star in cytoscape/cytoscape-app-template•00 issues in cytoscape/cytoscape-app-template•11 pull request in cytoscape/cytoscape-app-template•Updated Sep 21, 2026Sep 21, 2026

• cytoscape-gui-distribution

  Public
  Cytoscape 3 desktop version.

  Java

  •1818 forks in cytoscape/cytoscape-gui-distribution•1717 stars in cytoscape/cytoscape-gui-distribution•22 issues in cytoscape/cytoscape-gui-distribution•55 pull requests in cytoscape/cytoscape-gui-distribution•Updated Sep 21, 2026Sep 21, 2026

• cytoscape-support

  Public
  Cytoscape 3 support bundles.

  Java

  •33 forks in cytoscape/cytoscape-support•00 stars in cytoscape/cytoscape-support•00 issues in cytoscape/cytoscape-support•11 pull request in cytoscape/cytoscape-support•Updated Sep 21, 2026Sep 21, 2026

• cytoscape-api

  Public
  Cytoscape 3 API bundles.

  Java

  •

  GNU Lesser General Public License v2.1

  •3434 forks in cytoscape/cytoscape-api•2727 stars in cytoscape/cytoscape-api•00 issues in cytoscape/cytoscape-api•33 pull requests in cytoscape/cytoscape-api•Updated Sep 21, 2026Sep 21, 2026

• cytoscape-parent

  Public
  Cytoscape 3.x parent pom file.

  55 forks in cytoscape/cytoscape-parent•00 stars in cytoscape/cytoscape-parent•00 issues in cytoscape/cytoscape-parent•00 pull requests in cytoscape/cytoscape-parent•Updated Sep 21, 2026Sep 21, 2026

• cytocontainer-rest-server

  Public
  Java

  •00 forks in cytoscape/cytocontainer-rest-server•00 stars in cytoscape/cytocontainer-rest-server•00 issues in cytoscape/cytocontainer-rest-server•00 pull requests in cytoscape/cytocontainer-rest-server•Updated Sep 10, 2026Sep 10, 2026

• cy-ndex-2

  Public
  A Cytoscape client app for the NDEx database

  Java

  •

  MIT License

  •22 forks in cytoscape/cy-ndex-2•00 stars in cytoscape/cy-ndex-2•2020 issues in cytoscape/cy-ndex-2•33 pull requests in cytoscape/cy-ndex-2•Updated Sep 9, 2026Sep 9, 2026

• network-merge

  Public
  Core App: Network Merge

  Java

  •

  GNU Lesser General Public License v2.1

  •11 fork in cytoscape/network-merge•11 star in cytoscape/network-merge•00 issues in cytoscape/network-merge•00 pull requests in cytoscape/network-merge•Updated Sep 2, 2026Sep 2, 2026