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js_circles

This repository contains javascript for drawing a circle map network graph. A circle map network graph is a network graph in which the nodes are visualized as circle maps. This is a pure-javascript rewrite of the circle map network graph code that originally appeared in the UCSC Interaction Browser, which was a GWT project (citation below).

Included are two versions of this code.

  1. circleMapGraph_package.js version requires data provided from javascript. It works by passing in some data to circleMapGraph.build().
  2. circleMapGraph_webtool.js version has UI controls for user-provided data. Use this line of javascript: circleMapGraphControls.buildControls(controlsDivElement, circleMapGraphDivElem);.

Python Command Line Scripts

Circle Maps can also be generated with the python command line scripts at https://github.com/chkw/stuartlab-circleplotter-py.

Meteor Package

There is a Meteor Package that uses this code. It is at https://atmospherejs.com/limax/circlemap-graph.

3rd Party Dependencies

  • d3
  • jQuery-contextMenu
  • jquery
  • jstat
  • pablo
  • underscore
  • webcola

Citation for The UCSC Interaction Browser

Wong CK, Vaske CJ, Ng S, Sanborn J, Benz S. Haussler D, Stuart J. The UCSC Interaction Browser: Multi-dimensional data views in pathway context. Nucleic Acids Research. 2013 Jul 1;41(Web Server issue):W218-24. doi: 10.1093/nar/gkt473. PMID:23748957.