https://github.com/ivis-at-bilkent/cytoscape.js

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)

https://github.com/ivis-at-bilkent/cytoscape.js

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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)

https://github.com/iVis-at-Bilkent/cytoscape.js/blob/unstable/

# Cytoscape.js

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Graph theory (a.k.a. network) library for analysis and visualisation : [http://js.cytoscape.org](http://js.cytoscape.org)



## Description

Cytoscape.js is a fully featured [graph theory](https://en.wikipedia.org/wiki/Graph_theory) library.  Do you need to model and/or visualise relational data, like biological data or social networks?  If so, Cytoscape.js is just what you need.

Cytoscape.js contains a graph theory model and an optional renderer to display interactive graphs.  This library was designed to make it as easy as possible for programmers and scientists to use graph theory in their apps, whether it's for server-side analysis in a Node.js app or for a rich user interface.

You can get started with Cytoscape.js with one line:

```js
var cy = cytoscape({ elements: myElements, container: myDiv });
```

Learn more about the features of Cytoscape.js by reading [its documentation](http://js.cytoscape.org).

## Contributing to Cytoscape.js

Please refer to [CONTRIBUTING.md](CONTRIBUTING.md).



## Documentation

You can find the documentation and downloads on the [project website](http://js.cytoscape.org).



## Roadmap

Future versions of Cytoscape.js are planned in the [milestones of the Github issue tracker](https://github.com/cytoscape/cytoscape.js/milestones).  You can use the milestones to see what's currently planned for future releases.




## Contributing to Cytoscape.js

Please refer to [CONTRIBUTING.md](CONTRIBUTING.md).



## Citation

To cite Cytoscape.js in a paper, please cite the Oxford Bioinformatics issue:

*Cytoscape.js: a graph theory library for visualisation and analysis*

Franz M, Lopes CT, Huck G, Dong Y, Sumer O, Bader GD

[Bioinformatics (2016) 32 (2): 309-311 first published online September 28, 2015 doi:10.1093/bioinformatics/btv557 (PDF)](http://bioinformatics.oxfordjournals.org/content/32/2/309)

[PubMed Abstract](http://www.ncbi.nlm.nih.gov/pubmed/26415722)

 * `test` : run the Mocha unit tests
 * `lint` : lint the JS sources via eslint
 * `benchmark` : run benchmark regression tests
 * `benchmark-single` : run benchmarks only for the suite specified in `benchmark/single`
 * `sniper` : runs a BioJS sniper server that hosts demos

**Documentation:**


## Build dependencies

Install `node`, `npm` and `gulp` (optional).  Of course, `npm install` before using `gulp` or `npm run`.




## Build instructions

Run `npm run ` or `gulp ` in the console.  The main targets are:

**Building:**

 * `build` (default) : build the library
 * `clean` : clean the `build` directory
 * `watch` : automatically build lib and tests for debugging (no babel, very quick)
 * `watch-babel` : automatically build lib and tests for debugging (with babel; good for testing out of date browsers)
 * `zip` : build the release ZIP
 * `dist` : update the distribution JS for npm, bower, etc.

**Testing:**

If the `TRAVIS` or `TEST_BUILD` environment variables are defined, then `mocha` or `gulp test` will test `build/cytoscape.cjs.js`.  Otherwise, the unbundled, unbabelified, raw source is tested.  This keeps local tests very quick to run on modern versions of Node while ensuring we can test old versions of Node as well.  The library can be built on `node>=4`, but it can be tested on `node>=0.10`.

 * `test` : run the Mocha unit tests
 * `lint` : lint the JS sources via eslint
 * `benchmark` : run benchmark regression tests
 * `benchmark-single` : run benchmarks only for the suite specified in `benchmark/single`
 * `sniper` : runs a BioJS sniper server that hosts demos



## Release instructions

 1. Do each backport patch release before the corresponding current release.  This ensures that npm lists the current version as the latest one.
 1. Make sure the docs are updated with the list of releases in `documentation/md/intro.md`
 1. Update the `VERSION` environment variable, e.g. `export VERSION=1.2.3`
 1. Confirm JS files pass linting: `gulp lint`
 1. Confirm all tests passing: `gulp test`
 1. Test the docs and demos with the latest code: `gulp docs-pub`
 1. Build and publish the release: `gulp publish`
 1. [Create a release](https://github.com/cytoscape/cytoscape.js/releases/new) for Zenodo from the latest tag



## Tests

Mocha tests are found in the [test directory](https://github.com/cytoscape/cytoscape.js/tree/master/test).  The tests can be run in the browser or they can be run via Node.js (`gulp test` or `mocha`).

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