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Keiichiro Ono edited this page Jun 18, 2015 · 84 revisions

cyREST: RESTful API for Cytoscape

Build and share your own Cytoscape workflows with R, Python, and all other popular tools

Updates

6/14/2015: 0.9.17 released. Layout attributes and local table columns are supported.
6/9/2015: 0.9.16 released. Now Layout parameters are accessible through API.
6/5/2015: Python wrapper (py2cytoscape) released.

Quick Introduction

With cyREST, you can:

Access Cytoscape data objects from IPython/Jupyter Notebook
Directly visualize network data stored as igraph object in R session
Script your workflow in your favorite programming languages

R+Cytoscape High-res version

High-res version

Network visualization using statistics calculated from network structure. The entire workflow is available as an R script.

High-res version

Table of Contents

Introduction: What is cyREST?

Installation

Quick Start Guide

User Guide for Popular Programming Languages

Python
R
JavaScript (Node.js)
(More coming soon...)

Complete REST API Documentation V1

Roadmap

Please Cite cyREST for project sustainability

(TBD)

Questions?

Please send us your questions and comments to our mailing list.

License

Source Code: The MIT license
Documentation: CC BY-SA 4.0

© 2014-2015 The Cytoscape Consortium

Developed and Maintained by Keiichiro Ono (UC, San Diego Trey Ideker Lab)