Hamosh, A., Scott, A.F., Amberger, J.S., Bocchini, C.A. An architecture for biological information extraction and representation. Pathway Commons, a web resource for biological pathway data. WikiPathways: pathway editing for the people. The Edinburgh human metabolic network reconstruction and its functional analysis. KEGG: Kyoto Encyclopedia of Genes and Genomes. Metscape: a Cytoscape plug-in for visualizing and interpreting metabolomic data in the context of human metabolic networks. PSICQUIC and PSISCORE: accessing and scoring molecular interactions. APID2NET: unified interactome graphic analyzer. Evidence mining and novelty assessment of protein-protein interactions with the ConsensusPathDB plugin for Cytoscape. Pentchev, K., Ono, K., Herwig, R., Ideker, T. Integrating and annotating the interactome using the MiMI plugin for cytoscape. The BioGRID Interaction Database: 2011 update. The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models. The BioPAX community standard for pathway data sharing. The HUPO PSI's molecular interaction format-a community standard for the representation of protein interaction data. Exploring biological networks with Cytoscape software. Yeung, N., Cline, M.S., Kuchinsky, A., Smoot, M.E. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Integration of biological networks and gene expression data using Cytoscape. I am trying to list all known graph drawing libraries, and inviting their authors to collaborate here.Cline, M.S. This repository is inspired by question Difference with Sigma.js. Side by side rendering of the grid graph by 12 libraries: Why? Graphistry - GPU client+server accelerated, point-and-click filtering/histograms/timebars/coloring/clustering, language-neutral REST and JavaScript/React/Python embedding APIs, data science notebook support, all major browsers from last 5+ years + mobile.If you find something missing, please let me know. vasturiano/force-graph - Force-directed graph rendered on HTML5 canvas.strathausen/dracula - JavaScript browser based layout and representation of connected graphs.samizdatco/arbor - a graph visualization library using web workers and jQuery.memgraph/orb - A d3-force powered graph visualization library.jacomyal/sigma.js - A JavaScript library dedicated to graph drawing.GraphAlchemist/Alchemy - a graph drawing application built in d3.fkling/JSNetworkX - A port of the graph library NetworkX to JavaScript.dhotson/springy - A force directed graph layout algorithm in JavaScript.cytoscape/cytoscape.js - An open-source JavaScript graph theory library for analysis and visualization (compatible with CommonJS/Node.js, AMD/Require.js, jQuery 1.4+, Bower, npm, and plain JavaScript).cosmograph-org/cosmos - GPU-accelerated force graph layout and rendering.d3/d3-force - Force-directed graph layout.dagrejs/dagre - Directed graph renderer for JavaScript.apache/echarts - A powerful, interactive charting and visualization library for browser.antvis/g6 - G6: A Graph Visualization Framework in TypeScript.anvaka/VivaGraphJS - Graph drawing library for JavaScript.almende/vis - Dynamic, browser-based visualization library.This is a list of known graph drawing libraries.
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