Introduction to the Modeling and Analysis of Complex Systems

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15.5. IMPORTING/EXPORTING NETWORK DATA 315showing node namesusing different node shape24 2527 232612 31 2917 7113 19 28 1802 3332146 1 1516 13 85302042210921changing node sizescoloring nodes and edges1.0nodes only1.0edges only0.80.80.60.60.40.40.20.20.00.00.20.2 0.0 0.2 0.4 0.6 0.8 1.0 1.20.20.2 0.0 0.2 0.4 0.6 0.8 1.0 1.2Figure 15.5: Visual output of Code 15.13, showing examples of drawing options availablein NetworkX. The same node positions are used in all panels. The last two examplesshow the axes because they are generated using different drawing functions.To suppress the axes, use axis(’off’) right after the network drawing.
316 CHAPTER 15. BASICS OF NETWORKSLet’s work on a simple example. You can create your own adjacency list in a regularspreadsheet (such as Microsoft Excel or Google Spreadsheet) and then save it in a “csv”format file (Fig. 15.6). In this example, the adjacency list says that John is connected toJane and Jack; Jess is connected to Josh and Jill; and so on.Figure 15.6: Creating an adjacency list in a spreadsheet.You can read this file by using the read_adjlist command, as follows:Code 15.14: read-adjlist.pyfrom pylab import *import networkx as nxg = nx.read_adjlist(’myNetworkData.csv’, delimiter = ’,’)nx.draw(g, with_labels = True)show()The read_adjlist command generates a network by importing a text file that lists thenames of nodes in the adjacency list format. By default, it considers spaces (’ ’) a separator,so we need to specify the delimiter = ’,’ option to read the CSV (comma separated
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Introduction to the Modeling and An
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iiiAbout the TextbookIntroduction t
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New York. He is also a Fellow of th
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PrefaceThis is an introductory text
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a comprehensive view of the related
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Chen, Hal Lewis, Vlad Miskovic, Chu
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xviCONTENTS5 Discrete-Time Models I
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xviiiCONTENTS15.3 Constructing Netw
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Chapter 1Introduction1.1 Complex Sy
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1.1. COMPLEX SYSTEMS IN A NUTSHELL
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1.2. TOPICAL CLUSTERS 7The possibil
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1.2. TOPICAL CLUSTERS 9these topica
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12 CHAPTER 2. FUNDAMENTALS OF MODEL
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Part IISystems with a Small Number
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30 CHAPTER 3. BASICS OF DYNAMICAL S
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36 CHAPTER 4. DISCRETE-TIME MODELS
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Chapter 6Continuous-Time Models I:
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6.2. CLASSIFICATIONS OF MODEL EQUAT
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6.3. CONNECTING CONTINUOUS-TIME MOD
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6.4. SIMULATING CONTINUOUS-TIME MOD
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6.4. SIMULATING CONTINUOUS-TIME MOD
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6.5. BUILDING YOUR OWN MODEL EQUATI
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112 CHAPTER 7. CONTINUOUS-TIME MODE
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Chapter 8Bifurcations8.1 What Are B
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8.2. BIFURCATIONS IN 1-D CONTINUOUS
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8.3. HOPF BIFURCATIONS IN 2-D CONTI
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8.3. HOPF BIFURCATIONS IN 2-D CONTI
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8.4. BIFURCATIONS IN DISCRETE-TIME
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Chapter 9Chaos9.1 Chaos in Discrete
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9.1. CHAOS IN DISCRETE-TIME MODELS
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Next phase space9.3. LYAPUNOV EXPON
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9.3. LYAPUNOV EXPONENT 159easily co
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9.3. LYAPUNOV EXPONENT 16110Lyapuno
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9.4. CHAOS IN CONTINUOUS-TIME MODEL
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Chapter 10Interactive Simulation of
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10.2. INTERACTIVE SIMULATION WITH P
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10.4. SIMULATION WITHOUT PYCX 181Co
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10.4. SIMULATION WITHOUT PYCX 183re
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Chapter 11Cellular Automata I: Mode
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11.1. DEFINITION OF CELLULAR AUTOMA
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11.1. DEFINITION OF CELLULAR AUTOMA
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11.2. EXAMPLES OF SIMPLE BINARY CEL
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11.3. SIMULATING CELLULAR AUTOMATA
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11.5. EXAMPLES OF BIOLOGICAL CELLUL
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Chapter 12Cellular Automata II: Ana
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12.2. PHASE SPACE VISUALIZATION 211
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12.2. PHASE SPACE VISUALIZATION 213
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12.3. MEAN-FIELD APPROXIMATION 215E
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12.3. MEAN-FIELD APPROXIMATION 217T
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12.4. RENORMALIZATION GROUP ANALYSI
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228 CHAPTER 13. CONTINUOUS FIELD MO
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OutIn232 CHAPTER 13. CONTINUOUS FIE
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366 CHAPTER 16. DYNAMICAL NETWORKS
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368 CHAPTER 16. DYNAMICAL NETWORKS
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Chapter 17Dynamical Networks II: An
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17.1. NETWORK SIZE, DENSITY, AND PE
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17.1. NETWORK SIZE, DENSITY, AND PE
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17.2. SHORTEST PATH LENGTH 37717.2
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17.2. SHORTEST PATH LENGTH 379Eccen
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17.3. CENTRALITIES AND CORENESS 381
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17.4. CLUSTERING 387while the numer
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17.5. DEGREE DISTRIBUTION 3891.00.8
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17.5. DEGREE DISTRIBUTION 391er = n
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17.5. DEGREE DISTRIBUTION 393Pk = [
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17.5. DEGREE DISTRIBUTION 395logkda
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17.6. ASSORTATIVITY 397Assortativit
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17.6. ASSORTATIVITY 399>>> nx.degre
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17.7. COMMUNITY STRUCTURE AND MODUL
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17.7. COMMUNITY STRUCTURE AND MODUL
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406CHAPTER 18. DYNAMICAL NETWORKS I
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428 CHAPTER 19. AGENT-BASED MODELSE
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430 CHAPTER 19. AGENT-BASED MODELS
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432 CHAPTER 19. AGENT-BASED MODELST
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434 CHAPTER 19. AGENT-BASED MODELSI
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436 CHAPTER 19. AGENT-BASED MODELSt
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438 CHAPTER 19. AGENT-BASED MODELSF
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440 CHAPTER 19. AGENT-BASED MODELSY
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442 CHAPTER 19. AGENT-BASED MODELS3
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444 CHAPTER 19. AGENT-BASED MODELSn
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450 CHAPTER 19. AGENT-BASED MODELSF
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452 CHAPTER 19. AGENT-BASED MODELSe
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454 CHAPTER 19. AGENT-BASED MODELSf
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458 CHAPTER 19. AGENT-BASED MODELSi
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460 CHAPTER 19. AGENT-BASED MODELSw
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462 CHAPTER 19. AGENT-BASED MODELSi
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464 CHAPTER 19. AGENT-BASED MODELSB
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466 BIBLIOGRAPHY[12] “The Human C
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468 BIBLIOGRAPHY[39] H. Sayama, “
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470 BIBLIOGRAPHY[65] P. Holme and J
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Indexaction potential, 202actor, 29
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INDEX 475equilibrium point, 61, 111
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INDEX 477partial differential equat
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Introduction to the Modeling and Analysis of Complex Systems

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