First Steps to Network Visualization with Pajek
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1 First Steps to Network Visualization with Pajek Vladimir Batagelj University of Ljubljana Slovenia University of Konstanz, Analysis of Political and Managerial Networks May 1, 00, 16h, room C 44
2 V. Batagelj: First Steps to Network Visualization with Pajek I-1 List of Slides 1 Pajek Input Data 3 Pajek s Main and Report Windows 4 Reading Data from a File 5 Pajek s Draw Window 6 Pajek s Data / NET 7 Pajek s Data / CLU, VEC, PER 8 Example: Wolfe Monkey Data 9 Pajek s Data / PAJ 10 Visualization of Network Data 11 Visualization of Partitions and Vectors
3 V. Batagelj: First Steps to Network Visualization with Pajek I- 1 Sources
4 V. Batagelj: First Steps to Network Visualization with Pajek 1 Pajek Pajek (Slovene word for Spider) is a program, for Windows (3 bit), for analysis of large networks. With Andrej Mrvar, we started to develop Pajek in November Some procedures were contributed by Matjaž Zaveršnik. Pajek is freely available, for noncommercial use, at its homepage: When you download its installation program you simply run it and it will install Pajek in the selected directory.
5 V. Batagelj: First Steps to Network Visualization with Pajek Input Data Besides its own input formats, Pajek supports several other formats: UCINET DL, genealogical GED, and some molecular formats: BS (Ball and Stick), MAC (Mac Molecule) and MOL (MDL MOLfile). Run Pajek. You will get the main window see next slide. Pajek is organized as a calculator for network data: network main object (vertices and lines); partition to which cluster a vertex belongs; vector values of vertices; permutation reordering of vertices; cluster subset of vertices (e.g. a cluster from partition); hierarchy hierarchically ordered clusters and vertices.
6 V. Batagelj: First Steps to Network Visualization with Pajek 3 Pajek s Main and Report Windows
7 V. Batagelj: First Steps to Network Visualization with Pajek 4 Reading Data from a File The power of Pajek is based on several transformations which support different transitions among these data types. Click on the first icon of the Network register and in the dialog box select the right file type. For example, for Ucinet data, the type UCINET DL files (*.dat) find your file on the disk, and request its reading by click on Open. If everything is OK, you will get a new network in the Network register and report about the reading in the report window. Now, you can draw the network using the Draw/Draw option in the main window. The draw window appears with a picture of the current network.
8 V. Batagelj: First Steps to Network Visualization with Pajek 5 Pajek s Draw Window
9 V. Batagelj: First Steps to Network Visualization with Pajek 6 Pajek s Data / NET The network is described on the file file.net that has the following basic structure: *vertices n n is the number of vertices 1 "name 1 " the label of vertex 1 is name 1... n "name n " *arcs i j v ij the arc from i to j has value v ij... *edges p q v pq the edge from p to q has value v pq... The file can contain several additional elements see Draweps.htm.
10 V. Batagelj: First Steps to Network Visualization with Pajek 7 Pajek s Data / CLU, VEC, PER All three types of files have the same structure: *vertices n n is the number of vertices v 1 vertex 1 has value v 1... v n CLUstering partition of vertices nominal or ordinal data about vertices v i IN : vertex i belongs to the cluster v i ; VECtor numeric data about vertices v i IR : the property has value v i on vertex i; PERmutation ordering of vertices v i IN : vertex i is at the v i -th position.
11 10 "f10" 11 "f11" V. Batagelj: First Steps to Network Visualization with 1 "f1" Pajek 8 Example: 0 "f0" Wolfe Monkey Data inter.net inter.net sex.clu age.vec rank.per *Vertices 0 1 "m01" "m0" 3 "m03" 4 "m04" 5 "m05" 6 "f06" 7 "f07" 8 "f08" 9 "f09" 10 "f10" 11 "f11" 1 "f1" 13 "f13" 14 "f14" 15 "f15" 16 "f16" 17 "f17" 18 "f18" 19 "f19" 0 "f0" *Edges "f13" 14 "f14" 15 "f15" 16 "f16" 17 "f17" 18 "f18" 19 "f19" *Edges *vertices University of Konstanz, 1 Analysis 15 of5political and Managerial 3 9 Networks, 8 May 1, *vertices *vertices
12 V. Batagelj: First Steps to Network Visualization with Pajek 9 Pajek s Data / PAJ All types of data can be combined into a single file Pajek s project file file.paj. The easiest way to do this is: read all data files in Pajek, compute some additional data, delete (dispose) some data, save all as a project file with File/Project file/save. Next time you can restore everything with a single File/Project file/read. Pajek supports also two-mode and temporal networks.
13 V. Batagelj: First Steps to Network Visualization with Pajek 10 Visualization of Network Data You enter the draw window selecting some of the options in the Draw menu in the main window. If the vertices have no positions yet, they are displayed on the circle. You can try to get better picture using automatic layout methods from the Layout menu. You can further improve the picture manually by moving vertices with the mouse. The options Move/Fix, Move/Grid, Options/Transform/* can be useful. Use also Options/* to determine what and how is displayed. Pajek supports D and 3D layouts. Use x, y, z keys to rotate the picture in 3D.
14 V. Batagelj: First Steps to Network Visualization with Pajek 11 Visualization of Partitions and Vectors Partitions can be visualized by colors of vertices. Draw/Draw Partition. Vectors by the size of vertices or by their position. Draw/Draw Vector, Operations/Vector/Put Coordinate/*. Transformations on and between partitions and vectors are available. The value of lines can be displayed as number Options/Lines/Mark lines/with Values or as the width of lines Options/Lines/Different Widths.
15 V. Batagelj: First Steps to Network Visualization with Pajek 1 Sources The spider (Gartenkreuzspinne / Araneus diadematus) photo from the title page was made by Stefan Ernst
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