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Introduction to Artificial Life / Edition 1
     

Introduction to Artificial Life / Edition 1

by Christoph Adami, Chris Adami
 

ISBN-10: 0387946462

ISBN-13: 9780387946467

Pub. Date: 12/28/1997

Publisher: Springer-Verlag New York, LLC

This book and CD-ROM have been developed in a lab-oriented course taug ht at Cal Tech in 1995 and 1996, and simultaneously augmented by ALife research conducted there. The courses have been attended by an interd isciplinary group of students from backgrounds in physics, computer sc ience, and the computational neural sciences. This project is an attem pt to bring

Overview

This book and CD-ROM have been developed in a lab-oriented course taug ht at Cal Tech in 1995 and 1996, and simultaneously augmented by ALife research conducted there. The courses have been attended by an interd isciplinary group of students from backgrounds in physics, computer sc ience, and the computational neural sciences. This project is an attem pt to bring together the necessary theoretical groundwork for understa nding the dynamics of systems of self-replicating information, as well as the result from initial experiments carried out with artificial li ving systems based on this paradigm. Its intent, in providing this int erplay between theory and experiment, is to lead us further along the road to discover not only the general principles of the living state, but also to uncover aspects of this complex system that has remained h idden, or misunderstood, because of the impossibility to heretofore pe rform dedicated experiments.

Product Details

ISBN-13:
9780387946467
Publisher:
Springer-Verlag New York, LLC
Publication date:
12/28/1997
Edition description:
BK&CD ROM
Pages:
392
Product dimensions:
7.19(w) x 9.44(h) x 1.02(d)

Table of Contents

1 Flavors of Artificial Life.- 1.1 Whither a Theory of the Living State?.- 1.2 Emulation and Simulation.- 1.3 Carbon-Based Artificial Life.- 1.4 Turing and von Neumann Automata.- 1.5 Cellular Automata.- 1.6 Overview.- 2 Artificial Chemistry and Self-Replicating Code.- 2.1 Virtual Machines and Self-Reproducing CA.- 2.2 Viruses and Core Worlds.- 2.3 The tierra System.- 2.4 avida, amoeba, and the Origin of Life.- 2.5 Overview.- 3 Introduction to Information Theory.- 3.1 Information Theory and Life.- 3.2 Channels and Coding.- 3.3 Uncertainty and Shannon Entropy.- 3.4 Joint and Conditional Uncertainty.- 3.5 Information.- 3.6 Noiseless Coding.- 3.7 Channel Capacity and Fundamental Theorem.- 3.8 Information Transmission Capacity for Genomes.- 3.9 Overview.- 4 Statistical Mechanics and Thermodynamics.- 4.1 Phase Space and Statistical Distribution Function.- 4.2 Averages, Ergodicity, and the Ergodic Theorem.- 4.3 Thermodynamical Equilibrium, Relaxation.- 4.4 Energy.- 4.5 Entropy.- 4.6 Second Law of Thermodynamics.- 4.7 Tèmperature.- 4.8 The Gibbs Distribution.- 4.9 Nonequilibrium Thermodynamics.- 4.10 First-Order Phase Transitions.- 4.11 Overview.- 5 Complexity of Simple Living Systems.- 5.1 Complexity and Information.- 5.2 The Maxwell Demon.- 5.3 Kolmogorov Complexity.- 5.4 Physical Complexity and the Natural Maxwell Demon.- 5.5 Complexity of tRNA.- 5.6 Complexity in Artificial Life.- 5.7 Overview.- 6 Self-Organization to Criticality.- 6.1 Self-Organization and Sandpiles.- 6.2 SOC in Forest Fires.- 6.3 SOC in the Living State.- 6.4 Theories of SOC.- 6.5 Overview.- 7 Percolation.- 7.1 Site Percolation.- 7.2 Cluster Size Distribution.- 7.3 Percolation in 1D.- 7.4 Higher-Dimensional Euclidean Lattices.- 7.5 Percolation on the Bethe Lattice.- 7.6 Scaling Theory.- 7.7 Percolation and Evolution.- 7.8 Overview.- 8 Fitness Landscapes.- 8.1 Theoretical Formulation.- 8.2 Example Landscapes.- 8.3 Fractal Landscapes.- 8.4 Diffusive and Nondiffusive Processes.- 8.5 RNA Landscapes.- 8.6 Fitness Landscape in avida.- 8.7 Overview.- 9 Experiments with avida.- 9.1 Choice of Chemistry.- 9.2 A Simple Experiment.- 9.3 Experiments in Adaptation.- 9.4 Experiments with Species and Genetic Distance.- 9.5 Overview.- 10 Propagation of Information.- 10.1 Information Transport and Equilibrium.- 10.2 The Artificial Life System sanda.- 10.3 Diffusion and Waves.- 10.4 Comparison: Theory and Experiment.- 10.5 Overview.- 11 Adaptive Learning at the Error Threshold.- 11.1 Information Processing at the Edge of Chaos.- 11.2 Adaptation to Computation in avida.- 11.3 Eigen’s Error Threshold.- 11.4 Molecular Evolution as an Ising Model.- 11.5 The Race to the Error Threshold.- 11.6 Approach to Error Threshold in avida.- 11.7 Overview.- A The avida User’s Manual.- A.1 Introduction.- A.2 A Beginner’s Guide to avida.- A.3 Time Slicing and the Fitness Landscape.- A.4 Reproduction.- A.5 The Virtual Computer.- A.6 Mutations.- A.7 Installing avida.- A.8 The Text Interface.- A.9 Configuring avida Runs.- A.10 Guide to Output Files.- A.11 Summary of Variables.- A.12 Glossary.- References.

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