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OpenIntro Statistics

by David M Diez, Christopher D Barr, and Mine Çetinkaya-Rundel

Chapters Used:

  • Chapter 1: Introduction to Data
  • Chapter 4: Foundations of Inference
  • Chapter 7: Introduction to Linear Regression
  • Chapter 8: Multiple and Logistic Regression

 

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Model Based Inference in the Life Sciences

by David R. Anderson

Chapters Used:

  • Chapter 1:  Introduction: Science Hypotheses and Science Philosophy
  • Chapter 2:  Data and Models
  • Chapter 3:  Information Theory and Entropy
  • Chapter 4:  Quantifying the Evidence About Science Hypotheses

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Agent-Based and Individual-Based Modeling: A Practical Introduction

by Steven F. Railsback and Volker Grimm

Chapters Used:

  • Chapter 1: Models, Agent-Based Models, and the Modeling Cycle
  • Chapter 2: Getting Started with NetLogo
  • Chapter 3: Describing and Formulating ABMs:  The ODD Protocol
  • Chapter 4: Implementing a First Agent-Based Model
  • Chapter 5: From Animations to Science
  • Chapter 6: Testing Your Program
  • Chapter 7: Introduction to Part II
  • Chapter 8: Emergence

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Fundamentals of Molecular Evolution

by Dan Graur and Wen-Hsiung Li

Chapters Used:

  • Chapter 2: Dynamics of Genes in Populations

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Mathematical Modeling in Systems Biology: An Introduction

by Brian P. Ingalls

Chapters Used:

  • Chapter 1: Introduction
  • Chapter 2: Modeling of Chemical Reaction Networks
  • Chapter 3: Biochemical Kinetics
  • Chapter 4: Analysis of Dynamic Mathematical Models
  • Chapter 5: Metabolic Networks
  • Chapter 6: Signal Transduction Pathways
  • Chapter 7: Gene Regulatory Networks

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