2013 Complexity and Modeling Program Readings: Difference between revisions
From Santa Fe Institute Events Wiki
| (7 intermediate revisions by 3 users not shown) | |||
| Line 32: | Line 32: | ||
[[Media:Reynolds_-_Flocks,_Herds,_and_Schools.PDF | Flocks, Herds, and Schools - Reynolds]] | [[Media:Reynolds_-_Flocks,_Herds,_and_Schools.PDF | Flocks, Herds, and Schools - Reynolds]] | ||
===Peppered Moths: Melanism and Evolution=== | |||
[[Media:melanism.pdf | Fine-tuning the Peppered Moth Paradigm - Grant ]] | |||
[[Media:Darwiniandisciple.pdf | The Peppered Moth: Decline of a Darwinian Disciple - Majerus ]] | |||
[[Media:Swedentalk220807.pdf | The Peppered Moth: The Proof of Darwinian Evolution - Majerus ]] | |||
===Chaos Theory=== | ===Chaos Theory=== | ||
| Line 54: | Line 62: | ||
* [[Media:game_instructions.pdf|Instructions for online economic game]] | * [[Media:game_instructions.pdf|Instructions for online economic game]] | ||
==== NetLogo files | ==== NetLogo files ==== | ||
* [[ | * [[https://www.dropbox.com/s/tctj53o64p2u5k2/GenDriftBasic.nlogo Day 1 - drift and mutation]] | ||
* [[ | * [[https://www.dropbox.com/s/mwyno2gpuhdcfxi/Altruism_basic.nlogo Day 2 - cooperation]] | ||
====Readings==== | ====Readings==== | ||
| Line 92: | Line 100: | ||
[[Media:C1-Swords&Shields.doc | Swords & Shields (doc)]] | [[Media:C1-Swords&Shields.doc | Swords & Shields (doc)]] | ||
[http://projectguts.org/files/ | [http://projectguts.org/files/Lorenz_0.nlogo Lorenz Attractor Netlogo Program ] | ||
==Suggested Readings== | ==Suggested Readings== | ||
Latest revision as of 16:24, 6 August 2013
| 2013 Complexity and Modeling Program Navigation
|
Readings and Materials
General Agent-Based Modeling
Aligning Simulation Models - Axtell et al.
Agent-Based Generative Social Science - Epstein
Modeling Civil Violence - Epstein
Complexity of Langton's Ant - Gajardo, Moreira, and Goles
Tasmanian Devils
Rock, Paper, Scissors
Rock Paper Scissors in Bacteria & Biodiversity - Kerr et al.
RPS on a Small World Network - Szabo, Szolnoki, Izsak
Emergent Behavior of Rock Paper Scissors - Kircher
Flocking
Statistical Physics is for the Birds - Feder
Autonomous Boids - Hartman & Benes
Flocks, Herds, and Schools - Reynolds
Peppered Moths: Melanism and Evolution
Fine-tuning the Peppered Moth Paradigm - Grant
The Peppered Moth: Decline of a Darwinian Disciple - Majerus
The Peppered Moth: The Proof of Darwinian Evolution - Majerus
Chaos Theory
Deterministic Nonperiodic Flow - Lorenz
Networks
Ants
The Ant System: Optimization by a Colony of Cooperating Agents - Dorigo, Maniezzo, Colorni
Modeling Complexity in Evolution
Schedule and handouts
- Schedule
- Netlogo - day 1 - drift and mutation
- Netlogo - day 2 - cooperation
- Instructions for online economic game
NetLogo files
Readings
In order to help you prioritize, the first reading for each day is the most important, while the second is important and the third is less important.
Day 1:
- McShea, Daniel W and Brandon, Robert N. 2010. Biology's first law: the tendency for diversity and complexity to increase in evolutionary systems. University of Chicago Press, Chicago. Chapter 1.
- Zimmer, Carl. 2013. The Surprising Origins of Life's Complexity. Scientific American 309:84--89. doi:10.1038/scientificamerican0813-84
- Doolittle, W. Ford. 2012. Evolutionary biology: A ratchet for protein complexity. Nature 481:270--271. doi:10.1038/nature10816
Day 2:
- Szathmáry, Eörs and Maynard Smith, John. 1995. The major evolutionary transitions. Nature 374:227--232. doi:10.1038/374227a0
- Godfrey-Smith, Peter. 2006. Local Interaction, Multilevel Selection, and Evolutionary Transitions. Biological Theory 1:372--380. doi:10.1162/biot.2006.1.4.372
- Okasha, Samir. 2010. Levels of selection. Current Biology 20:R306-7. doi:10.1016/j.cub.2010.01.025
Epidemiology
Global Epidemic and Mobility modeler: [1]
Readings:
Article on the role of airline network in predicting global epidemics.
Maps and cartograms of disease evolution in the US via air traffic.
Curriculum & Tools
Lorenz Attractor Netlogo Program
Suggested Readings
Why Model? - Joshua M Epstein,
Jim Crutchfield, The Dreams of Theory
Melanie Mitchell, Complexity: A Guided Tour
Thomas D. Seeley, Honey Bee Democracy
Suggested Videos
Iain Couzin, Understanding Human Behavior
Hunting the Hidden Dimension, NOVA documentary on fractal geometry
The Secret Life of Chaos, BBC documentary on chaos theory
Emergence, Abridged NOVA ScienceNOW documentary on emergent phenomena