Revision 2 as of 2010-07-01 05:32:03

Control Cytoscape from R Console

Introduction

CytoscapeRPC is a plugin for Cytoscape to use Cytoscape as a RPC server. You can call Cytoscape functions from variety of languages including Perl, Python, Ruby, and R. In this tutorial, you learn how to use Cytoscape from R console.

Setup

You need to install the following plugins/packages.

Cytoscape Plugin

CytoscapeRPC Plugin 0.95 or later. Just copy the jar file to Cytoscape plugin directory.

R Packages

XML-RPC package XMLRPC_0.2-mod.zip (Bug fix version by Paul Shannon. BSD License)
igraph graph utility package

Tutorial

Start Cytoscape.
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