Index

A

• airlines dataset
  • about / Exploring the infrastructure domain – the airlines dataset, How to do it…, How it works…
• allow-file-access-from-files option
  • URL / There's more…
• antialising
  • URL / See also
• attributes
  • clustering / Clustering links and attributes, How to do it…
• attributes, of existing edge
  • modifying, in graph / Changing the attributes of an existing edge in a graph, How to do it…
• attributes, of existing node
  • modifying, in graph / Changing the attributes of an existing node in a graph, How to do it…
• average degree
  • of graph, finding / Finding the average degree and average weighted degree of a graph, How to do it…, How it works…
  • URL / See also
• average weighted degree
  • of graph, finding / Finding the average degree and average weighted degree of a graph, How to do it…, How it works…
  • URL / See also

B

• background color
  • of graph, changing / Changing the background color of the graph, How to do it…
• Barnes-Hut simulation
  • URL / See also
• Betweenness Centrality
  • URL / See also
• Biological Networks
  • Betweenness Centrality, URL / See also
• biological networks
  • C. Elegans neural network dataset / Exploring biological networks – the C. Elegans neural network dataset, How to do it…, How it works…
  • yeast dataset / Exploring biological networks – the yeast dataset, How to do it…, How it works…
• Black Background mode
  • graph, previewing in / Previewing and fine-tuning a graph in the Black Background mode, How to do it…, How it works…
  • graph, fine-tuning in / Getting ready, How it works…

C

• C. Elegans neural network dataset
  • about / Exploring biological networks – the C. Elegans neural network dataset, How to do it…, How it works…
  • URL / Getting ready
• Clockwise Rotate layout algorithm
  • using / Using the Clockwise Rotate layout algorithm, How to do it…, There's more…
  • URL / See also
• columns
  • adding / Adding/deleting columns, How to do it…
  • deleting / Adding/deleting columns, How to do it…, There's more…
  • merging / Merging columns, How to do it…, How it works…
  • data, copying between / Copying data between columns, How to do it…
  • creating, with dynamic regular expression filtering / Creating columns with dynamic regular expression filtering, How to do it…
• comma-separated values (csv) file format / Exporting a table
• communities
  • URL / See also
• complex network structures
  • describing, GEXF used / Describing complex network structures using GEXF, How to do it…, How it works…
• connected components
  • in graph, finding / Finding connected components in a graph, How to do it…, How it works…, There's more…
• Contraction layout algorithm
  • using / Using the Contraction layout algorithm, How it works…, There's more…
• convex hulls
  • displaying, for graph / Showing convex hulls for a graph where a hierarchy exists, There's more…
  • URL / See also
• Counter-Clockwise Rotate layout algorithm
  • URL / Using the Counter-Clockwise Rotate layout algorithm, How it works…, There's more…, See also

D

• data
  • copying, between columns / Copying data between columns, How to do it…
  • filtering, based on attributes / Filtering, searching, and modifying data based on particular attributes, How to do it…
  • searching, based on attributes / Filtering, searching, and modifying data based on particular attributes, How to do it…
  • modifying, based on attributes / Filtering, searching, and modifying data based on particular attributes, How to do it…
  • importing, from MySQL databases / Importing data from MySQL databases, How to do it…, How it works…
  • importing, from Neo4j databases / Importing data from Neo4j databases, How to do it…, How it works…
  • importing, via NodeXL / Importing data via NodeXL, See also
• Data Laboratory mode
  • working / The basics of working in the Data Laboratory mode, How to do it…, See also
• Default Curved mode
  • graph, fine-tuning in / Previewing and fine-tuning a graph in the Default Curved mode, How to do it…, How it works…
  • graph, previewing in / Previewing and fine-tuning a graph in the Default Curved mode, How to do it…, How it works…
• Default mode
  • graph, previewing in / Previewing and fine-tuning a graph in the Default mode, How to do it…, There's more…
  • graph, fine-tuning in / Previewing and fine-tuning a graph in the Default mode, How to do it…, There's more…
• Default Straight mode
  • graph, fine-tuning in / Previewing and fine-tuning a graph in the Default Straight mode, How to do it…, How it works…
  • graph, previewing in / Previewing and fine-tuning a graph in the Default Straight mode, How to do it…, How it works…
• Djikstra's algorithm
  • URL / See also
• dynamic graphs
  • building / Building dynamic/temporal graphs in Gephi, How to do it…, There's more…
  • URL / See also
  • working with / Working with dynamic/temporal graphs, How to do it…, How it works…, There's more…
• dynamic graphs filtering
  • time intervals based / Filtering dynamic graphs based on time intervals, How to do it…, See also
• dynamic regular expression filtering
  • columns, creating with / Creating columns with dynamic regular expression filtering, How to do it…

E

• edge attributes
  • based graph, partitioning / Partitioning the graph based on edge attributes, How to do it…, There's more…
• edge colors
  • configuring, by ranking edges / Configuring edge colors in a graph by ranking edges, How it works…
• edge labels colors
  • configuring, by ranking edges / Configuring the colors of edge labels in a graph by ranking edges, How to do it…, How it works…
• edge labels size
  • configuring, by ranking edges / Configuring the size of edge labels in a graph by ranking edges
• edge overview
  • of graph, getting / Getting an edge overview of a graph, How to do it…
• edge properties
  • setting / Setting the edge and label properties, How to do it…
• edges
  • adding, to graph / How to do it…, How it works…
  • basic properties, setting / Setting basic properties for graphs, nodes, edges, and labels, How to do it…
  • adding, in graph / Adding and deleting edges in a graph, How to do it…
  • removing, from graph / Adding and deleting edges in a graph, How to do it…
• Edges Custom Color mode
  • graph, fine-tuning in / Previewing and fine-tuning a graph in the Edges Custom Color mode, How it works…, There's more…
  • graph, previewing in / Previewing and fine-tuning a graph in the Edges Custom Color mode, How it works…, There's more…
• EuroSiS Web mapping study
  • about / Exploring the Web and Internet domain – EuroSiS Web mapping study, How to do it…, How it works…
  • URL / Getting ready, See also
• Expansion layout algorithm
  • using / Using the Expansion layout algorithm, How it works…, There's more…

F

• force-directed algorithms / Using the Force Atlas layout algorithm
• force-directed layout algorithms
  • URL / See also
• Force Atlas 2 layout algorithm
  • using / Using the Force Atlas 2 layout algorithm, How to do it…, There's more…
  • Threads number / There's more…
  • Dissuade Hubs / There's more…
  • LinLog mode / There's more…
  • Prevent Overlap / There's more…
  • Edge weight influence / There's more…
  • Scaling / There's more…
  • Stronger Gravity / There's more…
  • Gravity / There's more…
  • Tolerance / There's more…
  • Approximate Repulsion / There's more…
  • Approximation / There's more…
  • URL / See also
• Force Atlas layout algorithm
  • using / Using the Force Atlas layout algorithm, How it works…, There's more…, There's more…
• Fruchterman Reingold layout algorithm
  • using / Using the Fruchterman Reingold layout algorithm, How to do it…, How it works…, There's more…
  • URL / See also

G

• Gephi
  • installing / Installing Gephi, There's more…
  • installing, on Windows / How to do it…
  • URL / How to do it…
  • installing, on Linux machine / How to do it…
  • installing, for Mac OS X / How to do it…
  • installation on other platforms, URL / See also
  • installation, troubleshooting / Troubleshooting the Gephi installation, How it works…
  • graphical user interface, exploring / Exploring Gephi's graphical user interface, How to do it…, How it works…
  • about / Introduction
  • temporal graphs, building / Building dynamic/temporal graphs in Gephi, How to do it…, How it works…
  • dynamic graphs, building / How to do it…, There's more…
• GEXF
  • used, for describing complex network structures / Describing complex network structures using GEXF, How to do it…, How it works…
  • URL / See also
• graph
  • random graph, creating / Generating a random graph, There's more…
  • nodes, selecting / How to do it…, How it works…
  • nodes, highlighting / How to do it…, How it works…
  • nodes, coloring / Coloring and sizing nodes in the graph, How to do it…, There's more…
  • nodes, sizing / Coloring and sizing nodes in the graph, How to do it…, There's more…
  • nodes, adding / Adding nodes and edges to the graph, How to do it…, How it works…
  • edges, adding / How to do it…, There's more…
  • node attributes, editing / How to do it…, There's more…
  • shortest path, finding / Finding out the shortest path in the graph, How it works…, See also
  • basic properties, setting / Setting basic properties for graphs, nodes, edges, and labels, How to do it…
  • background color, changing / Changing the background color of the graph
  • heat map, creating / Generating a heat map for the graph, How to do it…, There's more…
  • convex hulls, displaying / Showing convex hulls for a graph where a hierarchy exists, How to do it…, See also
  • parts, hiding / Showing/hiding various parts of the graph
  • parts, showing / Showing/hiding various parts of the graph
  • changing, reverting to original presets / Reverting changes in the graph to the original presets, How to do it…, See also
  • PNG file, creating from graph window / Creating a PNG file directly from the graph window in user-specified sizes, How to do it…, How it works…
  • layout algorithms / Introduction
  • node attributes based, partitioning / How to do it…, How it works…, There's more…, See also
  • edge attributes based, partitioning / Partitioning the graph based on edge attributes, How to do it…, There's more…
  • node colors, configuring by ranking nodes / Configuring node colors in a graph by ranking nodes, How to do it…, How it works…, Configuring node sizes in a graph by ranking nodes, How to do it…, How it works…
  • ranking, URL / See also
  • node label colors, configuring by ranking nodes / Configuring node label colors in a graph by ranking nodes, How to do it…, How it works…
  • edge colors, configuring by ranking edges / How to do it…, How it works…
  • edge labels colors, configuring by ranking edges / Configuring the colors of edge labels in a graph by ranking edges, How to do it…, How it works…
  • edge labels size, configuring by ranking edges / Configuring the size of edge labels in a graph by ranking edges
  • metrics list, selecting / Selecting a list of metrics for a graph, How to do it…
  • average degree, finding / Finding the average degree and average weighted degree of a graph, How to do it…, How it works…
  • average weighted degree, finding / Finding the average degree and average weighted degree of a graph, How to do it…, How it works…
  • distance, URL / See also
  • HITS value, finding / Finding the HITS value for a graph, How to do it…, How it works…, There's more…
  • modularity, finding / Finding a graph's modularity, How to do it…, How it works…
  • PageRank, finding / Finding a graph's PageRank, How to do it…, How it works…
  • connected components, finding / Finding connected components in a graph, How to do it…, How it works…, There's more…
  • node overview, getting / Getting a node overview of a graph, How to do it…, How it works…, See also
  • edge overview, getting / Getting an edge overview of a graph, How to do it…
  • dynamic statistics, getting / Getting dynamic statistics for a graph, How to do it…
  • individual filters, applying / Applying individual filters on a graph, How to do it…, How it works…
  • filters combination, applying / Applying a combination of filters on a graph, How to do it…, There's more…
  • dynamic graphs filtering, time intervals based / Filtering dynamic graphs based on time intervals, How to do it…, See also
  • nodes, adding in / How to do it…
  • nodes, deleting from / How to do it…
  • attributes of existing node, modifying in / Changing the attributes of an existing node in a graph, How to do it…
  • edges, adding in / Adding and deleting edges in a graph, How to do it…
  • edges, removing from / Adding and deleting edges in a graph, How to do it…
  • attributes of existing edge, modifying in / Changing the attributes of an existing edge in a graph, How to do it…
  • previewing, in Default mode / Previewing and fine-tuning a graph in the Default mode, How to do it…, How it works…
  • fine-tuning, in Default mode / Previewing and fine-tuning a graph in the Default mode, How to do it…, There's more…
  • previewing, in Default Curved mode / Previewing and fine-tuning a graph in the Default Curved mode, How to do it…, How it works…
  • fine-tuning, in Default Curved mode / Previewing and fine-tuning a graph in the Default Curved mode, How to do it…, How it works…
  • fine-tuning, in Default Straight mode / Previewing and fine-tuning a graph in the Default Straight mode, How to do it…, How it works…
  • previewing, in Default Straight mode / Previewing and fine-tuning a graph in the Default Straight mode, How to do it…, How it works…
  • previewing, in Text Outline mode / Previewing and fine-tuning a graph in the Text outline mode, How to do it…, How it works…
  • fine-tuning, in Text Outline mode / Previewing and fine-tuning a graph in the Text outline mode, How to do it…, How it works…
  • previewing, in Black Background mode / Previewing and fine-tuning a graph in the Black Background mode, How to do it…, How it works…
  • fine-tuning, in Black Background mode / Getting ready
  • previewing, in Edges Custom Color mode / Previewing and fine-tuning a graph in the Edges Custom Color mode, How it works…, There's more…
  • previewing, in Tag Cloud mode / Previewing and fine-tuning a graph in the Tag Cloud mode, How to do it…, How it works…
  • exporting, in SVG format / Exporting a graph in the SVG, PNG, or PDF format, How to do it…, How it works…, There's more…
  • exporting, in PNG format / Exporting a graph in the SVG, PNG, or PDF format, How to do it…, How it works…, There's more…
  • exporting, in PDF format / Exporting a graph in the SVG, PNG, or PDF format, How to do it…, How it works…, There's more…
• graph density
  • finding / Finding graph density, How to do it…, There's more…
• graphical user interface (GUI)
  • about / Introduction
• graphical user interface, Gephi
  • exploring / Exploring Gephi's graphical user interface, How to do it…, How it works…
• Graph Manipulation mode
  • working / The basics of working in the Overview mode, How to do it…
  • Overview mode / How to do it…
  • Partition module / How to do it…
  • Ranking module / How to do it…
  • Layout module / How to do it…
  • Graph module / How to do it…
  • Context module / How to do it…
  • Statistics panel / How to do it…
  • Filter panel / How to do it…
  • URL / See also
• graph scaling
  • URL / See also, See also

H

• heat map
  • creating, for graph / Generating a heat map for the graph, How to do it…
• Hero Social Network Data
  • URL, for downloading / Getting ready, Getting ready
• Hero Social Network Data, Gelphi
  • loading / How to do it…
• Hyperlink-Induced Topic Search (HITS) value
  • finding / Finding the HITS value for a graph, How to do it…, How it works…, See also
  • URL / See also

I

• individual filters
  • applying, on graph / Applying individual filters on a graph, How to do it…, How it works…
• infrastructure domain
  • airlines dataset / Exploring the infrastructure domain – the airlines dataset, How to do it…, How it works…
• Internet dataset
  • about / Exploring the Web and Internet domain – the Internet dataset, How to do it…, There's more…

J

• Java Virtual Machine (JVM)
  • about / How it works…

K

• k-core topology
  • URL / See also

L

• Label Adjust layout algorithm
  • using / Using the Label Adjust layout algorithm, How to do it…, How it works…, There's more…
  • URL / See also
• label properties
  • setting / Setting the edge and label properties, How to do it…
• labels
  • basic properties, setting / Setting basic properties for graphs, nodes, edges, and labels, How to do it…
• Learn Regex The Hard Way
  • URL / See also
• links
  • clustering / Clustering links and attributes, How to do it…

M

• Map of Countries plugin
  • about / Generating world maps
  • URL / See also
• map projections
  • URL / See also
• Marvel Universe Social Graph
  • URL / Getting ready
• memory management
  • in Java, URL / See also
• metanodes
  • subgraphs, expanding / Expanding and contracting subgraphs in metanodes, How to do it…, How it works…
  • subgraphs, contracting / Expanding and contracting subgraphs in metanodes, How it works…
• metrics
  • list, selecting / Selecting a list of metrics for a graph, How to do it…
• modularity
  • URL / See also, See also
  • finding / How to do it…, How it works…
• multilevel graphs
  • working with / Working with multilevel graphs, How to do it…, How it works…
  • URL / See also
• MySQL
  • URL / See also
• MySQL databases
  • data, importing from / Importing data from MySQL databases, How to do it…

N

• Neighborhood Overlap and Embeddedness / How it works…
• Neo4j databases
  • data, importing from / Importing data from Neo4j databases, How to do it…, How it works…
  • URL / Getting ready, See also
• network diameter
  • finding / Finding the network diameter, How to do it…, How it works…, See also
• networks
  • exporting, on Web / Exporting networks on the Web using Seadragon, Getting ready, How to do it…, How it works…
• node attributes
  • in graph, editing / Editing node attributes in the graph, There's more…
  • graph, partitioning / Partitioning the graph based on node attributes, How to do it…, How it works…, There's more…, See also
  • based graph, partitioning / There's more…, See also
• node colors
  • configuring in graph, by ranking nodes / Configuring node colors in a graph by ranking nodes, How to do it…, How it works…
• node label colors
  • configuring in graph, by ranking nodes / Configuring node label colors in a graph by ranking nodes, How to do it…, How it works…
• node label sizes
  • node label colors, configuring by ranking nodes / Configuring node label sizes in a graph by ranking nodes, How to do it…, How it works…
  • configuring in graph, by ranking nodes / Configuring node label sizes in a graph by ranking nodes, How to do it…, How it works…
• node overview
  • of graph, getting / Getting a node overview of a graph, How to do it…, How it works…, See also
• nodes
  • in graph, highlighting / Selecting and highlighting nodes in the graph, How to do it…, How it works…
  • in graph, selecting / Selecting and highlighting nodes in the graph, How to do it…, How it works…
  • in graph, coloring / Coloring and sizing nodes in the graph, How to do it…, There's more…
  • in graph, sizing / Coloring and sizing nodes in the graph, How to do it…, There's more…
  • adding, to graph / Adding nodes and edges to the graph
  • basic properties, setting / Setting basic properties for graphs, nodes, edges, and labels, How to do it…
  • adding, in graph / How to do it…
  • deleting, from graph / How to do it…
• node sizes
  • configuring in graph, by ranking nodes / Configuring node sizes in a graph by ranking nodes, How to do it…, How it works…
• NodeXL
  • data, importing via / Importing data via NodeXL, Getting ready, How it works…
  • URL / Getting ready, See also
• number project
  • URL / See also

P

• PageRank
  • finding / Finding a graph's PageRank, How to do it…, How it works…
  • URL / See also
• partitioning parameters / How to do it…
• PDF files / There's more…
• PDF format
  • graph, exporting in / Exporting a graph in the SVG, PNG, or PDF format, How to do it…, How it works…, There's more…
• PNG file
  • creating, from graph window in user-specified sizes / Creating a PNG file directly from the graph window in user-specified sizes, How to do it…, How it works…
• PNG files / There's more…
• PNG format
  • graph, exporting in / Exporting a graph in the SVG, PNG, or PDF format, How to do it…, How it works…, There's more…
• Preview mode
  • working / The basics of working in the Preview mode, How to do it…

Q

• quadtrees
  • URL / See also

R

• random graph
  • generating / Generating a random graph, There's more…
• random graphs
  • URL / There's more…
• Random Layout algorithm
  • using / Using the Random Layout algorithm
• retweet dataset
  • URL / Getting ready
• retweets dataset
  • about / Exploring social networks – Twitter's mentions and retweets dataset, How to do it…, How it works…
• rich interactive visualizations
  • exporting, Sigma.js used / Exporting rich interactive visualizations using Sigma.js, How to do it…, How it works…

S

• Seadragon
  • used for exporting networks, on Web / Exporting networks on the Web using Seadragon, Getting ready, How to do it…, How it works…
  • URL / See also
• Seadragon, for Gelphi
  • URL / See also
• shortest path
  • in graph, finding / Finding out the shortest path in the graph, How it works…, See also
• Sigma.js
  • used, for exporting rich interactive visualizations / Exporting rich interactive visualizations using Sigma.js, How to do it…, How it works…
  • URL / See also
• small-world networks / Using the Force Atlas layout algorithm
  • URL / See also, See also
• SNAMetricsPlugin / Getting ready
• Social Network Analysis
  • URL, for courses / See also
• social network analysis
  • performing / Performing social network analysis, How to do it…, How it works…, There's more…
• social networks
  • URL / See also
  • Zacharys karate club dataset / Exploring social networks – Zachary's karate club dataset, How to do it…, How it works…, There's more…
  • Twitter mentions / Exploring social networks – Twitter's mentions and retweets dataset, How to do it…
  • retweets dataset / Exploring social networks – Twitter's mentions and retweets dataset, How to do it…
• spatial antialising
  • URL / See also
• spreadsheet
  • importing / Importing a spreadsheet, How to do it…, How it works…
• subgraphs
  • expanding, in metanodes / Expanding and contracting subgraphs in metanodes, How to do it…, How it works…
  • contracting, in metanodes / Expanding and contracting subgraphs in metanodes, How to do it…, How it works…
• SVF files / There's more…
• SVG format
  • graph, exporting in / Exporting a graph in the SVG, PNG, or PDF format, How to do it…, How it works…, There's more…

T

• table
  • exporting / Exporting a table, How to do it…
• Tag Cloud mode
  • graph, fine-tuning in / Previewing and fine-tuning a graph in the Tag Cloud mode, How to do it…, How it works…
  • graph, previewing in / Previewing and fine-tuning a graph in the Tag Cloud mode, How to do it…, How it works…
• temporal graphs
  • building / Building dynamic/temporal graphs in Gephi, How to do it…, There's more…
  • URL / See also, See also
  • working with / Working with dynamic/temporal graphs, How to do it…, How it works…, There's more…
• Text Outline mode
  • graph, previewing in / Previewing and fine-tuning a graph in the Text outline mode, How to do it…, How it works…
  • graph, fine-tuning in / Previewing and fine-tuning a graph in the Text outline mode, How to do it…, How it works…
• Tiled Rendering / How it works…
• Twitter mentions
  • about / Exploring social networks – Twitter's mentions and retweets dataset, How to do it…, How it works…
  • URL / Getting ready

U

• University of Oregon Route Views Project
  • URL / See also

W

• Web
  • networks, exporting on / Exporting networks on the Web using Seadragon, Getting ready, How to do it…, How it works…
• Web and Internet domain
  • EuroSiS Web mapping study / Exploring the Web and Internet domain – EuroSiS Web mapping study, How to do it…, How it works…
  • Internet dataset / Exploring the Web and Internet domain – the Internet dataset, How to do it…, How it works…, There's more…
• world maps
  • generating / Generating world maps, How to do it…

Y

• yeast dataset
  • about / Exploring biological networks – the yeast dataset, How to do it…, How it works…
• Yifan Hu layout algorithm
  • using / Using the Yifan Hu layout algorithm, How to do it…, How it works…, There's more…
  • Quadtree Max Level / There's more…
  • Theta / There's more…
  • Optimal Distance / There's more…
  • Relative Strength / There's more…
  • Initial Step Size / There's more…
  • Step ratio / There's more…
  • Adaptive cooling / There's more…
  • Convergence threshold / There's more…
  • URL / See also
• Yifan Hu Multilevel layout algorithm
  • using / Using the Yifan Hu Multilevel layout algorithm, How it works…
  • Quadtree max level / There's more…
  • Theta / There's more…
  • Minimum Level Size / There's more…
  • Minimum Coarsening Rate / There's more…
  • Step Ratio / There's more…
  • Optimal Distance / There's more…
  • URL / See also
• Yifan Hu Proportional layout algorithm
  • using / Using the Yifan Hu Proportional layout algorithm, How to do it…
  • URL / See also

Z

• Zacharys karate club dataset
  • about / Exploring social networks – Zachary's karate club dataset, How to do it…, How it works…, There's more…