Repositories list

• software-artifact-analyzer

  Public
  SAA: A tool to visually analyze varying software artifacts including source code files, pull requests, issues, and commits, as well as their links and their relationships with developers in a software project to improve the software development process

  TypeScript

  •0•0•14•2•Updated Mar 28, 2025Mar 28, 2025

• newt

  Public
  A web application to visualize and edit pathway models

  editorbioinformaticsbiology+ 13layoutsystems-biologypathwaysnetwork-visualizationpathway-analysisweb-based-visualizationsbml+ 6

  JavaScript

  •

  GNU Lesser General Public License v3.0

  •26•54•47•0•Updated Mar 25, 2025Mar 25, 2025

• cytoscape.js-graphml

  Public
  A Cytoscape.js extension to import from and export to GraphML format

  network-visualizationgraph-drawingcytoscapejs+ 2cytoscapejs-extensiongraphml

  JavaScript

  •

  MIT License

  •8•32•11•1•Updated Mar 19, 2025Mar 19, 2025

• cool

  Public
  Java

  •

  MIT License

  •0•0•0•0•Updated Mar 5, 2025Mar 5, 2025

• sbgnviz.js

  Public
  A web based visualization tool for process description maps in SBGN

  bioinformaticssystems-biologypathways+ 2network-visualizationsbgn

  JavaScript

  •

  GNU Lesser General Public License v3.0

  •13•35•3•0•Updated Feb 7, 2025Feb 7, 2025

• visuall-advanced-query

  Public
  Java

  •0•0•0•0•Updated Feb 2, 2025Feb 2, 2025

• chise.js

  Public
  A web application to visualize and edit the pathway models represented by SBGN Process Description Notation

  editorbioinformaticsbiology+ 5systems-biologypathwaysnetwork-visualizationpathway-analysissbgn

  JavaScript

  •

  GNU Lesser General Public License v3.0

  •6•15•7•0•Updated Jan 30, 2025Jan 30, 2025

• cytoscape.js-hyse

  Public
  Hybrid Spring Embedder

  TypeScript

  •

  MIT License

  •0•1•4•0•Updated Dec 16, 2024Dec 16, 2024

• cytoscape.js-fcose

  Public
  fCoSE: a fast Compound Spring Embedder

  graphvizgraph-algorithmsgraph-drawing

  JavaScript

  •

  MIT License

  •28•154•11•0•Updated Dec 3, 2024Dec 3, 2024

• cytoscape.js-expand-collapse

  Public
  A Cytoscape.js extension to expand/collapse nodes for better management of complexity of compound graphs

  network-visualizationnetwork-analysisgraph-drawing+ 3cytoscapejscytoscapejs-extensioncomplexity-management

  JavaScript

  •

  MIT License

  •39•131•30•1•Updated Nov 27, 2024Nov 27, 2024

• syblars

  Public
  SyBLaRS: Systems Biology Layout & Rendering Service

  graphvizbioinformaticsgraph-algorithms+ 5systems-biologypathwaysnetwork-visualizationpathway-analysisgraph-drawing

  JavaScript

  •

  MIT License

  •1•12•2•0•Updated Nov 18, 2024Nov 18, 2024

• sybvals

  Public
  SyBValS: Systems Biology Validation Service

  bioinformaticssystems-biologypathways

  JavaScript

  •

  MIT License

  •0•2•2•0•Updated Nov 14, 2024Nov 14, 2024

• cytoscape.js-complexity-management

  Public
  A Cytoscape.js extension to provide a unified complexity management framework for compound graphs

  JavaScript

  •

  MIT License

  •1•9•4•0•Updated Sep 3, 2024Sep 3, 2024

• cytoscape.js

  Public
  Graph theory (a.k.a. network) library for analysis and visualisation (compatible with CommonJS/Node.js/Browserify/Webpack, AMD/Require.js, npm, Bower, jspm, Meteor/Atmosphere, jQuery, and plain JS/JavaScript)

  JavaScript

  •

  MIT License

  •1.6k•2•0•0•Updated Aug 31, 2024Aug 31, 2024

• cytoscape.js-graph-algos

  Public
  HTML

  •

  MIT License

  •1•4•1•0•Updated Aug 30, 2024Aug 30, 2024

• cytoscape.js-node-editing

  Public
  A Cytoscape.js extension to provide grapples to resize nodes

  editornetwork-visualizationgraph-drawing+ 3cytoscapejscytoscapejs-extensiondiagramming

  JavaScript

  •

  MIT License

  •14•26•4•2•Updated Aug 28, 2024Aug 28, 2024

• cytoscape.js-context-menus

  Public
  A Cytoscape.js extension to provide context menu around elements and core instance

  editornetwork-visualizationgraph-drawing+ 3cytoscapejscytoscapejs-extensiondiagramming

  JavaScript

  •

  MIT License

  •42•87•15•3•Updated Aug 28, 2024Aug 28, 2024

• cytoscape.js-edge-editing

  Public
  A Cytoscape.js extension enabling interactive editing of edge anchor (bend or control) points

  editornetwork-visualizationgraph-drawing+ 3cytoscapejscytoscapejs-extensiondiagramming

  JavaScript

  •

  MIT License

  •23•43•6•0•Updated Aug 28, 2024Aug 28, 2024

• cytoscape.js-clipboard

  Public
  A Cytoscape.js extension to provide copy-paste utilities

  editornetwork-visualizationgraph-drawing+ 3cytoscapejscytoscapejs-extensiondiagramming

  JavaScript

  •

  MIT License

  •4•8•1•0•Updated Aug 27, 2024Aug 27, 2024

• cytosnap

  Public
  A Node.js package that renders images of Cytoscape.js graphs on the server using Puppeteer

  JavaScript

  •

  MIT License

  •16•0•0•0•Updated Jun 11, 2024Jun 11, 2024

• cytoscape.js-cise

  Public
  An implementation of the circular layout algorithm by Dogrusoz et al. as a Cytoscape.js extension

  graphvizgraph-algorithmsgraph-drawing

  JavaScript

  •

  MIT License

  •13•31•8•0•Updated Jun 6, 2024Jun 6, 2024

• pathway-mapper

  Public
  PathwayMapper: An interactive and collaborative graphical curation tool for cancer pathways

  graphvizbioinformaticssystems-biology+ 6tcgacancer-genomicspathwaysnetwork-visualizationpathway-analysiscancer-pathways

  TypeScript

  •

  GNU Affero General Public License v3.0

  •27•57•6•1•Updated Mar 18, 2024Mar 18, 2024

• cytoscape.js-visual-cues

  Public
  TypeScript

  •

  MIT License

  •0•3•2•0•Updated Jan 23, 2024Jan 23, 2024

• cmgm

  Public
  CMGM is a unified complexity management framework for compound graphs

  JavaScript

  •

  MIT License

  •0•3•1•0•Updated Oct 27, 2023Oct 27, 2023

• cytoscape.js-autopan-on-drag

  Public
  A Cytsocape.js extension to automatically pan when nodes are out of canvas bounds

  editornetwork-visualizationgraph-drawing+ 3cytoscapejscytoscapejs-extensiondiagramming

  JavaScript

  •

  MIT License

  •4•12•2•0•Updated Sep 29, 2023Sep 29, 2023

• cytoscape.js-layvo

  Public
  JavaScript

  •

  MIT License

  •0•2•2•0•Updated Jul 12, 2023Jul 12, 2023

• cytoscape.js-grid-guide

  Public
  A Cytsocape.js extension to provide a framework for grid interactions such as grid lines and snapping to grid, and guidelines and snap support for alignment of nodes.

  graphviznetwork-visualizationgraph-drawing+ 5cytoscapejscytoscapejs-extensiondiagrammingalignment-guidelinesgrid

  JavaScript

  •

  MIT License

  •11•60•10•2•Updated Mar 22, 2023Mar 22, 2023

• cose-base

  Public
  Core module for compound spring embedder based layout styles

  JavaScript

  •

  MIT License

  •2•10•1•0•Updated Jan 17, 2023Jan 17, 2023

• cytoscape.js-avsdf

  Public
  An implementation of the circular layout algorithm by He & Sykora

  JavaScript

  •

  MIT License

  •8•13•0•1•Updated Jun 21, 2022Jun 21, 2022

• cytoscape-sbgn-stylesheet

  Public
  View biological networks via Cytoscape.js and sbgn-ml

  JavaScript

  •

  MIT License

  •31•0•0•0•Updated Jun 14, 2022Jun 14, 2022