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2015 Complexity and Modeling Program Readings: Difference between revisions

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[[Media:Dorigo,_Maniezzo,_Colorni_-_The_Ant_System_-_Optimization_by_a_colony_of_cooperating_agents.pdf‎ | The Ant System: Optimization by a Colony of Cooperating Agents - Dorigo, Maniezzo, Colorni ]]
[[Media:Dorigo,_Maniezzo,_Colorni_-_The_Ant_System_-_Optimization_by_a_colony_of_cooperating_agents.pdf‎ | The Ant System: Optimization by a Colony of Cooperating Agents - Dorigo, Maniezzo, Colorni ]]
===Modeling Complexity in Evolution===
==== Schedule and handouts ====
* [[Media:schedule.pdf|Schedule]]
* [[Media:netlogo_day1_drift-mutation.pdf|Netlogo - day 1 - drift and mutation]]
* [[Media:netlogo_day2_cooperation.pdf|Netlogo - day 2 - cooperation]]
* [[Media:game_instructions.pdf|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:
# [[Media:McShea.Brandon_2010_BiologysFirstLaw_Chapter1.pdf|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.]]
# [[Media:Zimmer_2013_SciAm.pdf|Zimmer, Carl. 2013. The Surprising Origins of Life's Complexity. ''Scientific American'' 309:84--89. doi:10.1038/scientificamerican0813-84]]
# [[Media:Doolittle_2012_Nature.pdf|Doolittle, W. Ford. 2012. Evolutionary biology: A ratchet for protein complexity. ''Nature'' 481:270--271. doi:10.1038/nature10816]]
Day 2:
# [[Media:Szathmary.MaynardSmith_1995_Nature.pdf|Szathmáry, Eörs and Maynard Smith, John. 1995. The major evolutionary transitions. ''Nature'' 374:227--232. doi:10.1038/374227a0]]
# [[Media:Godfrey-Smith_2006_BiolTheory.pdf|Godfrey-Smith, Peter. 2006. Local Interaction, Multilevel Selection, and Evolutionary Transitions. ''Biological Theory'' 1:372--380. doi:10.1162/biot.2006.1.4.372]]
# [[Media:Okasha_2010_CurrBiol.pdf|Okasha, Samir. 2010. Levels of selection. ''Current Biology'' 20:R306-7. doi:10.1016/j.cub.2010.01.025]]


===Epidemiology===
===Epidemiology===

Revision as of 18:58, 13 February 2015

2015 Complexity and Modeling Program Navigation


Readings and Materials

Santa Fe Institute Website

Complexity Resources

Introduction to Complexity Online Videos
Complexity Explorer Terms Glossary
Santa Fe Institute Online Courses on Complexity
A huge online archive of Santa Fe Institute YouTube Videos
Background Reading on Complexity

General Agent-Based Modeling

Ecological Modeling

Rock, Paper, Scissors

Rock Paper Scissors in Bacteria & Biodiversity - Kerr et al.‎

Emergent Behavior of Rock Paper Scissors - Kircher


Chaos Theory

Deterministic Nonperiodic Flow - Lorenz‎

Networks

Ants

The Ant System: Optimization by a Colony of Cooperating Agents - Dorigo, Maniezzo, Colorni

Epidemiology

Global Epidemic and Mobility modeler: [1]

Readings:

Curriculum & Tools

Walk & Turn (doc)‎

Swords & Shields (doc)

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

Video Catalog of SFI Lectures

Iain Couzin, Understanding Human Behavior

Hunting the Hidden Dimension, NOVA documentary on fractal geometry

Emergence, Abridged NOVA ScienceNOW documentary on emergent phenomena

Progect GUTS Intro to Complex Adaptive Systems

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