Book Description
Over 90 hands-on recipes to master the art of network analysis and visualization with Gephi
In Detail
Gephi is an open source, user-friendly network visualization and analysis tool that provides numerous powerful features, making it easy for novices to get to grips with graph analysis quickly.
This book is your one-stop guide to learning Gephi's interactive networking and visualization, alongside the graph theory concepts that drive them. Each recipe walks you through a task and explains why and how it works. Starting with installing Gephi, you will learn how to begin analyzing a graph using Gephi's various features. You will discover how to make informed decisions using layout algorithms and filters, and perform statistical analysis with real-world datasets. This guide is an invaluable resource if you would like to plunge into the network analysis domain without having to learn how to code.
What You Will Learn
- Install and configure Gephi on your system and understand its various features
- Perform basic manipulation and exploration tasks on graphs
- Understand various layout algorithms present by default in Gephi and the principles behind them
- Explore the properties of graphical networks using numerous filters and statistical metrics available in Gephi
- Import graph data from different sources and manipulate it directly in tabular formats
- Use real-world datasets to better understand network analysis
Downloading the example code for this book. You can download the example code files for all Packt books you have purchased from your account at http://www.PacktPub.com. If you purchased this book elsewhere, you can visit http://www.PacktPub.com/support and register to have the files e-mailed directly to you.
Table of Contents
-
Gephi Cookbook
- Table of Contents
- Gephi Cookbook
- Credits
- About the Author
- Acknowledgments
- About the Reviewers
- www.PacktPub.com
- Preface
- 1. Getting Started with Gephi
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2. Basic Graph Manipulations
- Introduction
- 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
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3. Using Graph Layout Algorithms
- Introduction
- 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
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4. Working with Partition and Ranking Algorithms
- Introduction
- 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
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5. Running Metrics, Filters, and Timelines
- Introduction
- 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
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6. Working in the Data Laboratory Mode
- Introduction
- 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
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7. Getting Graphs and Networks Ready for Preview
- Introduction
- 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
- 8. Exploring Dynamic and Multilevel Graphs
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9. Getting Real-world Graph Datasets
- Introduction
- 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
- 10. Exploring Some Useful Gephi Plugins
- Index