Gephi Cookbook

Book Image

Gephi Cookbook

Book Image

Gephi Cookbook

Overview of this book

Gephi Cookbook

Credits

About the Author

About the Author

Acknowledgments

Acknowledgments

About the Reviewers

About the Reviewers

www.PacktPub.com

www.PacktPub.com

Preface

Free Chapter

Getting Started with Gephi

Getting Started with Gephi

Installing Gephi

Troubleshooting the Gephi installation

Exploring Gephi's graphical user interface

The basics of working in the Overview mode

The basics of working in the Data Laboratory mode

The basics of working in the Preview mode

Basic Graph Manipulations

Basic Graph Manipulations

Generating a random graph

Selecting and highlighting nodes in the graph

Coloring and sizing nodes in the graph

Adding nodes and edges to the graph

Editing node attributes in the graph

Finding out the shortest path in the graph

Setting the edge and label properties

Setting basic properties for graphs, nodes, edges, and labels

Changing the background color of the graph

Generating a heat map for the graph

Showing convex hulls for a graph where a hierarchy exists

Showing/hiding various parts of the graph

Reverting changes in the graph to the original presets

Creating a PNG file directly from the graph window in user-specified sizes

Using Graph Layout Algorithms

Using Graph Layout Algorithms

Using the Clockwise Rotate layout algorithm

Using the Counter-Clockwise Rotate layout algorithm

Using the Contraction layout algorithm

Using the Expansion layout algorithm

Using the Force Atlas layout algorithm

Using the Force Atlas 2 layout algorithm

Using the Fruchterman Reingold layout algorithm

Using the Label Adjust layout algorithm

Using the Random Layout algorithm

Using the Yifan Hu layout algorithm

Using the Yifan Hu Proportional layout algorithm

Using the Yifan Hu Multilevel layout algorithm

Working with Partition and Ranking Algorithms

Working with Partition and Ranking Algorithms

Partitioning the graph based on node attributes

Partitioning the graph based on edge attributes

Configuring node colors in a graph by ranking nodes

Configuring node sizes in a graph by ranking nodes

Configuring node label colors in a graph by ranking nodes

Configuring node label sizes in a graph by ranking nodes

Configuring edge colors in a graph by ranking edges

Configuring the colors of edge labels in a graph by ranking edges

Configuring the size of edge labels in a graph by ranking edges

Running Metrics, Filters, and Timelines

Running Metrics, Filters, and Timelines

Selecting a list of metrics for a graph

Finding the average degree and average weighted degree of a graph

Finding the network diameter

Finding graph density

Finding the HITS value for a graph

Finding a graph's modularity

Finding a graph's PageRank

Finding connected components in a graph

Getting a node overview of a graph

Getting an edge overview of a graph

Getting dynamic statistics for a graph

Applying individual filters on a graph

Applying a combination of filters on a graph

Filtering dynamic graphs based on time intervals

Working in the Data Laboratory Mode

Working in the Data Laboratory Mode

Importing a spreadsheet

Adding and deleting nodes in a graph

Changing the attributes of an existing node in a graph

Adding and deleting edges in a graph

Changing the attributes of an existing edge in a graph

Adding/deleting columns

Merging columns

Copying data between columns

Filtering, searching, and modifying data based on particular attributes

Creating columns with dynamic regular expression filtering

Exporting a table

Getting Graphs and Networks Ready for Preview

Getting Graphs and Networks Ready for Preview

Previewing and fine-tuning a graph in the Default mode

Previewing and fine-tuning a graph in the Default Curved mode

Previewing and fine-tuning a graph in the Default Straight mode

Previewing and fine-tuning a graph in the Text outline mode

Previewing and fine-tuning a graph in the Black Background mode

Previewing and fine-tuning a graph in the Edges Custom Color mode

Previewing and fine-tuning a graph in the Tag Cloud mode

Exporting a graph in the SVG, PNG, or PDF format

Exploring Dynamic and Multilevel Graphs

Exploring Dynamic and Multilevel Graphs

Building dynamic/temporal graphs in Gephi

Working with dynamic/temporal graphs

Working with multilevel graphs

Expanding and contracting subgraphs in metanodes

Clustering links and attributes

Getting Real-world Graph Datasets

Getting Real-world Graph Datasets

Exploring the Web and Internet domain – EuroSiS Web mapping study

Exploring the Web and Internet domain – the Internet dataset

Exploring social networks – Zachary's karate club dataset

Exploring social networks – Twitter's mentions and retweets dataset

Exploring biological networks – the C. Elegans neural network dataset

Exploring biological networks – the yeast dataset

Exploring the infrastructure domain – the airlines dataset

Importing data from MySQL databases

Importing data from Neo4j databases

Importing data via NodeXL

Exploring Some Useful Gephi Plugins

Exploring Some Useful Gephi Plugins

Exporting networks on the Web using Seadragon

Exporting rich interactive visualizations using Sigma.js

Describing complex network structures using GEXF

Generating world maps

Performing social network analysis

Index

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Previewing and fine-tuning a graph in the Default Curved mode

A very similar rendering mechanism to the Default preview is the Default Curved preview. The only difference is that by default, the edges in the Default Curved preview are curved and the node and edge labels are present for a more aesthetically pleasing and detailed graph. In this recipe, we will learn more about this preview.

Getting ready

To get started with this recipe, load the Les Misérables network from the Welcome screen.

How to do it…

The following steps describe how to work with the Default Curved rendering in Gephi:

Click on the Preview tab by default, located at the top of the Gephi application window just below the menu bar.
From the Presets drop-down list, select the Default Curved option.
Click on the Refresh button to refresh the preview for the graph in the Preview window. The following screenshot shows how the Les Misérables graph would appear in the Default Curved preview:
If the node labels are unclear and are overlapping...