Prof. Tanya Leise

Meets: MW 10am in JOCH202 and T 1pm / F 10am in Mudd014

Text: Agent-Based and Individual-Based Modeling by Railsback and Grimm (available at Amherst Books)

Text website:

Materials: NetLogo modeling software (free download, works on all computers)

on -
Date
Topic

Materials/Assignments

9/4-9/7
 
T

Introduction
Game of Life - more info

Game of Life worksheet
W

Verbal reports on Game of Life
Overview of modeling

Read Ch 1 by Fri
F
NetLogo programming Tutorials worksheet
9/10-9/14
   
M
Discuss modeling process

Read Ch 3 by Wed
Selfish Herd article
Sheep herding video

T

Do NetLogo Tutorial #3; at end, add your own rule and observe how it affects the resulting patterns

Read Ch 4; prepare butterfly model in Netlogo and do exercises 1-4 on p 59 before Friday's lab (save model on U drive so you can access it during lab, but don't need to turn anything in)
W
ODD Protocol

Ecology of Sleep paper (submit reaction statement on Moodle by 5am Wed morning)

F
Program extended butterfly hilltopping model in Ch 5 (bring text to class)
Do exercises 1-5 on p 72
ODD for butterfly model
ElevationData.txt
Optional reading: article on similar model
9/17-9/21
   
M
Intro to forest fire model  
T
Start forest fire model

Read Ch 6 by Fri
Basic Fire Model in NetLogo

W
Development of forest fire model Forest Encyclopedia (overview of background info)
F
Continue forest fire model: wind and choosing numerical scales Extended Fire Model
Submit Reaction Statement on Moodle about Savanna Fire article by Monday morning
9/24-9/28
   
M
Forest fire modeling Read Ch 7-8 by Tues
T
Forest fire modeling Start modeling projects
W
Forest fire modeling BehaviorSpace
F
Forest fire modeling Project assignment
Submit Reaction Statement on Moodle about Pattern-Oriented Modeling article by Monday morning
10/1-10/5
   
M
Forest fire modeling Read Ch 9 by Tues
T
Forest fire modeling  
W
Forest fire modeling  
F
Forest fire modeling  
10/8-9 Fall break  
10/10-10/12
   
W
Forest fire modeling Presentations
F
Forest fire modeling Presentations
10/15-10/19
   
M
Forest fire modeling Presentations
Fire modeling reports due
T
Start schooling models Simple fish school model in NetLogo
W
Discuss Huth & Wissel 1994 article  
F
Extend simple schooling model Submit Reaction Statement on Moodle about Vabo & Nottestad article by Monday morning
10/22-10/26
   
M
Quantifying patterns in schooling models Read Chapters 10-11 for Friday
T
School modeling with predator Schooling with predator project
W
Adaptive behavior: predator-prey interaction  
F
School modeling with predator Submit Reaction Statement on Moodle about Gautrais et al. article by Monday morning
10/29-11/2
   
M
Classes cancelled  
T
School modeling with predator  
W
Happy Halloween! Discussion of Gautrais article  
F
No class - teach-in day Schooling model reports due by 6pm on Monday
Email NetLogo files to tleise@amherst.edu by 10am on Monday
11/5-11/9
   
M
Quick demos of predator-school models Submit Reaction Statement on Moodle about Mind of the Swarm by Wed 11/9
T
Start sheep/sheepdog model Real data in NetLogo
W
Discussion of Mind of the Swarm
Working with real herd data
Read Chapters 12-13 for Friday
F
Sheep/sheepdog modeling Submit Reaction Statement on Moodle about Democratic Consensus by Mon 11/12
Starting sheep-herding model
11/12-11/16
   
M
Discussion of Democratic Consensus article Submit Reaction Statement on Moodle about Dilemma of Selfish Herd by Wed 11/14
T
Sheep/sheepdog modeling Read Chapters 14-16 for Friday
Getting rolling on the sheep-herding model
W
Discussion of Dilemma of the Selfish Herd Submit Reaction Statement on Moodle about Geometry of Mutualistic and Selfish Herds by Mon 11/26
F
Sheep/sheepdog modeling  
Thanksgiving    
11/26-11/30
   
M
Discussion of Geometry of Mutualistic and Selfish Herds Read Chapters 17-20 for Wednesday
Requirements for herding project
T
Sheep/sheepdog modeling - measuring patternsHerding model calculations
W
Discussion of Chapters 17-20 Submit Reaction Statement on Moodle about Simulated Evolution of Selfish Herd Behavior by Fri 12/7
F
Sheep/sheepdog modeling  
12/3-12/7    
M
Model demonstrations Project reports and NetLogo models due Wed 12/5
T
Model demonstrations  
W
Model demonstrations  
F

Discussion of Simulated Evolution of Selfish Herd Behavior
Start evolutionary simulations

See Moodle for the NetLogo and Mathematica files
Read Chapter 23 for Monday
12/10-12
   
M
Sensitivity and Robustness Submit Reaction Statement on Moodle on network articles by Mon 12/12
T Evolutionary simulations  
W Discuss network articles and wrap-up Last report due Wed Dec 19 by 4pm