Differences between revisions 1 and 2

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.
Plugins-->

-  ← Revision 1 as of 2010-07-01 05:18:56 →
  Size: 163
  Editor: KeiichiroOno
  Comment:
+  ← Revision 2 as of 2010-07-01 05:32:03 →
  Size: 841
  Editor: KeiichiroOno
  Comment:
-Deletions are marked like this.
+Additions are marked like this.
 Line 4:
+[[https://wiki.nbic.nl/index.php/CytoscapeRPC|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.
-Line 5:
+Line 6:
- * CytoscapeRPC

 * XML-RPC package (customized by Paul Shannon.   BSD License)
+== Setup ==

You need to install the following plugins/packages.



=== Cytoscape Plugin ===

 * [[https://wiki.nbic.nl/index.php/CytoscapeRPC|CytoscapeRPC Plugin 0.95 or later]]. Just copy the jar file to Cytoscape plugin directory.



=== R Packages ===

 * XML-RPC package [[attachment:XMLRPC_0.2-mod.zip]] (Bug fix version by Paul Shannon.   BSD License)

 * [[http://igraph.sourceforge.net/|igraph]] graph utility package
-Line 9:
+Line 17:
+. Start Cytoscape.

 1. '''''Plugins-->'''''

Diff for "CytoscapeAndR"