R console (tutorial): Difference between revisions

From visone manual
Jump to navigation Jump to search
Line 36: Line 36:
When executing this you see just the list of vertex indicees, i.e., the numbers from 1 to 45.
When executing this you see just the list of vertex indicees, i.e., the numbers from 1 to 45.

Revision as of 15:30, 12 February 2011

This trail illustrates how to send network data from visone to R and back. The R project for statistical computing offers a rich set of methods for data analysis and modeling which become accessible from visone through the R-console. We assume that you have installed the R connection as it is explained in the installation trail.

To follow the steps illustrated in this trail you should download the network file Egonet.graphml which is linked from and explained in the page Egoredes_(data). Further you should remove all ties that are not rated as very likely in the same manner as it is explained in the last section of the visualization and analysis trail.

Sending networks from visone to R

To send the network from visone to R open the R console tab, choose a name in the textfield r name (you might just accept visone's suggestion for this name, which should be egonet), and click on the send button.

After clicking on send visone starts the Rserve connection and opens the R-console. If this does not work you should check the settings of R connection options accessible from the file menu. If it works you should get a message like

 ready to serve
 visone: sendActiveNet egonet
 visone: lsIGraph

in the message field of the R console.

R console ls.png

You can list all variables that are in the R workspace by typing


in the input field at the bottom of the R console and pressing the Enter-Key (currently there is one object called egonet). As we'll see soon, egonet is an object of class igraph which is an R package obtainable from a CRAN Website (this site also gives you access to R tutorials and documentation). The igraph package is documented in more detail on http://igraph.sourceforge.net/.

Getting basic statistics about an igraph object

The class of the object egonet in the R workshop is printed when executing the command


As we can see the class of egonet is igraph. The igraph documentation linked above gives a complete list of all methods available for this class. In the following we describe how to inspect what is encoded in the given object and how to get simple summary statistics. Executing the command


outputs basic information such as the number of vertices and edges, the names of vertex and edge attributes, as well as a list of all edges.

R console summary.png

To see the values of the vertex or edge attributes one needs to understand the concept of vertex iterators and edge iterators in igraph. The vertex iterator of graph egonet is returned by typing the command


When executing this you see just the list of vertex indicees, i.e., the numbers from 1 to 45.

R console afrm.png