Bibliometric Analysis with Sci2:Choose Your Own Adventure

Laura RidenourSchool of Library and Information

Science, Indiana University

Overview

• Paper citation network using Sci2• Gathering data• Examining and understanding file format• Adjusting program parameters for speed• Using the Network Analysis Toolkit• Visualizing a network• Exporting data for use in other programs

Gathering Data

• ISI file format– Text file with special formatting– Downloadable from Web of Science

• 500 records at a time from WoS

– Other sources include the Scholarly Database (http://sdb.cns.iu.edu/search/), but data from this source works slightly differently than shown in this tutorial

• Can also use any data with nodes and edges, as long as it’s a clean data set

Required tools

• Sci2 - https://sci2.cns.iu.edu/user/welcome.php– Must create an account in order to download

• A text editor

• Helpful:– Oxygen, Gephi

Allocating Additional Memory

• In the Sci2 directory, open the .ini file for Sci2 and change the settings to the following:– -vmargs– -Xms30m– -Xmx1028m

• Save and close the file, re-open Sci2• Note: you may need to adjust the memory

parameters slightly depending on system capabilities and settings

http://www.libraries.iub.edu

Web of Knowledge

Download Settings

What an ISI File Looks Like

Using Multiple ISI Files

• Strip out all headers but the beginning and end tag – can do this manually, or with a script

Sci2

• File > Load > (select your file and click ‘Open’) > choose ‘ISI flat format’ > click ‘Select’

In the Data Manager• Right-click the loaded file, select “view” to check and/or modify the file• If you modify the file, be sure to save the file to a permanent location and

reload it into the data manager

Extracting the Network

Data Manager

Using the Network Analysis Toolkit (NAT)

• Choose “Network Analysis Toolkit”

NAT Analysis is Displayed in the Console

Examining the Output

• Checking the NAT results can save time. If the network is particularly densely connected, using a faster system may save time

Visualization

• Select the extracted network to visualize from the Data Manager

Visualization (cont’d)

• Visualization > Networks > GUESS

Visualization (GUESS)

Choosing a layout (GUESS)

• Layout > GEM (or whichever layout you would like to use)

Initial GEM Layout (GUESS)

Graph Modifier Dashboard in GUESS

Play!!

• Take some time to play with different properties in the network. Feel free to use the interpreter, it uses jython (examples on next slide, from CNS wiki)

Jython Examples

Exporting Data

• From the Data Manager, right click the appropriate graph file and select “Save”

Exporting Data (cont’d)

• Choose GraphML for importing a graph into Gephi– After saving, change the file extension from .XML

to .graphml to make the file usable by Gephi• Choose .net for Pajek

Additional Resources

• http://wiki.cns.iu.edu/• http://gephi.org/