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Gephi 101. Dan Ryan Mills College Spring 2012. What is XML?. Circa 1997/9 E x tensible M arkup L anguage  a  markup language for encoding/transmitting/storing data both  human-readable and machine-readable.  A “schema” says “this kind of data has this format”

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gephi 101

Gephi 101

Dan Ryan Mills College Spring 2012

what is xml
What is XML?
  • Circa 1997/9
  • Extensible Markup Language 
    • a markup language
    • for encoding/transmitting/storing data
    • both human-readable and machine-readable. 
  • A “schema” says “this kind of data has this format”
  • THEN: anyone can write code to put data into that format or take data from that format
gexf graph exchange xml format
GEXF (Graph Exchange XML Format)

http://gexf.net/format/

  • circa 2007, GEPHI project
  • Specifically intended as interchange format

Gexf.net

A hello world! file

graphml format
GraphML Format

http://graphml.graphdrawing.org/

  • Circa 2000/2001
  • An XML specification for network data

pajek net format
Pajek.net Format

Vertex Attributes

*Vertices 6

1 "1" 0.3034 0.7561

2 "2" 0.4565 0.6039

3 "3" 0.4887 0.8188

4 "4" 0.5687 0.4184

5 "5" 0.3574 0.4180

6 "6" 0.7347 0.2678

*Arcs

*Edges

1 2 1

1 3 1

2 3 1

2 4 1

2 5 1

4 5 1

4 6 1

  • Pajek is a free networkanalysis software tool
  • Circa 1990s
  • Simple text files
  • Lots of features beyond simple adjacency, attributes and weights

Edge Weights

slide6
GDF
  • Used by GUESS (an open source Graph Exploration System

nodedef> name

a

b

c

d

edgedef> node1,node2

a,b

a,c

a,d

http://graphexploration.cond.org/index.html

gml graph modelling language
GML: Graph Modelling Language

graph[  node  [   id A  ]  node  [   id B  ]  node  [   id C  ]   edge  [   source B   target A  ]  edge  [   source C   target A  ]]

  • Circa 2000s
  • text file format
  • University Passau?
slide8
TLP
  • C. 2007
  • “Tulip is an information visualization framework dedicated to the analysis and visualization of relational data.”
  • (tlp "2.0“
    • (nodes id_node1 id_node2 ...)
  • (edge id id_sourceid_target)
  • )
the gephi gui
The GEPHI GUI
  • Intended to be flexible
slide12
Select vertex and show its edges

Select vertices in a square

Drag a vertex

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