Interior Point Algorithms

A thorough look at how societies can use cultural algorithms to understand human social evolution For those working in computational intelligence, developing an understanding of how cultural algorithms and social intelligence form the essential framework for the evolution of human social interaction is essential. This book, Cultural Algorithms: Tools to Model Complex Dynamic Social Systems , is the foundation of that study. It showcases how we can use cultural algorithms to organize social structures and develop socio-political systems that work. For such a vast topic, the text covers everything from the history of the development of cultural algorithms and the basic framework with which it was organized. Readers will also learn how other nature-inspired algorithms can be expressed and how to use social metrics to assess the performance of various algorithms.  In addition to these topics, the book covers topics including: ● The CAT system including the Repast Simphony System and CAT Sample Runs ● How to problem solve using social networks in cultural algorithms with auctions ● Understanding Common Value Action to enhance Social Knowledge Distribution Systems ● Case studies on team formations ● An exploration of virtual worlds using cultural algorithms For industry professionals or new students, Cultural Algorithms provides an impactful and thorough look at both social intelligence and how human social evolution translates into the modern world.

Presents algorithmic techniques for solving problems in bioinformatics, including applications that shed new light on molecular biology This book introduces algorithmic techniques in bioinformatics, emphasizing their application to solving novel problems in post-genomic molecular biology. Beginning with a thought-provoking discussion on the role of algorithms in twenty-first-century bioinformatics education, Bioinformatics Algorithms covers: General algorithmic techniques, including dynamic programming, graph-theoretical methods, hidden Markov models, the fast Fourier transform, seeding, and approximation algorithms Algorithms and tools for genome and sequence analysis, including formal and approximate models for gene clusters, advanced algorithms for non-overlapping local alignments and genome tilings, multiplex PCR primer set selection, and sequence/network motif finding Microarray design and analysis, including algorithms for microarray physical design, missing value imputation, and meta-analysis of gene expression data Algorithmic issues arising in the analysis of genetic variation across human population, including computational inference of haplotypes from genotype data and disease association search in case/control epidemiologic studies Algorithmic approaches in structural and systems biology, including topological and structural classification in biochemistry, and prediction of protein-protein and domain-domain interactions Each chapter begins with a self-contained introduction to a computational problem; continues with a brief review of the existing literature on the subject and an in-depth description of recent algorithmic and methodological developments; and concludes with a brief experimental study and a discussion of open research challenges. This clear and approachable presentation makes the book appropriate for researchers, practitioners, and graduate students alike.

Evolutionary algorithms are bio-inspired algorithms based on Darwin’s theory of evolution. They are expected to provide non-optimal but good quality solutions to problems whose resolution is impracticable by exact methods. In six chapters, this book presents the essential knowledge required to efficiently implement evolutionary algorithms. Chapter 1 describes a generic evolutionary algorithm as well as the basic operators that compose it. Chapter 2 is devoted to the solving of continuous optimization problems, without constraint. Three leading approaches are described and compared on a set of test functions. Chapter 3 considers continuous optimization problems with constraints. Various approaches suitable for evolutionary methods are presented. Chapter 4 is related to combinatorial optimization. It provides a catalog of variation operators to deal with order-based problems. Chapter 5 introduces the basic notions required to understand the issue of multi-objective optimization and a variety of approaches for its application. Finally, Chapter 6 describes different approaches of genetic programming able to evolve computer programs in the context of machine learning.

ALGORITHMS IN BIOINFORMATICS Explore a comprehensive and insightful treatment of the practical application of bioinformatic algorithms in a variety of fields Algorithms in Bioinformatics: Theory and Implementation delivers a fulsome treatment of some of the main algorithms used to explain biological functions and relationships. It introduces readers to the art of algorithms in a practical manner which is linked with biological theory and interpretation. The book covers many key areas of bioinformatics, including global and local sequence alignment, forced alignment , detection of motifs, Sequence logos, Markov chains or information entropy. Other novel approaches are also described, such as Self-Sequence alignment, Objective Digital Stains (ODSs) or Spectral Forecast and the Discrete Probability Detector (DPD) algorithm. The text incorporates graphical illustrations to highlight and emphasize the technical details of computational algorithms found within, to further the reader’s understanding and retention of the material. Throughout, the book is written in an accessible and practical manner, showing how algorithms can be implemented and used in JavaScript on Internet Browsers. The author has included more than 120 open-source implementations of the material, as well as 33 ready-to-use presentations. The book contains original material that has been class-tested by the author and numerous cases are examined in a biological and medical context. Readers will also benefit from the inclusion of: A thorough introduction to biological evolution, including the emergence of life, classifications and some known theories and molecular mechanismsA detailed presentation of new methods, such as Self-sequence alignment, Objective Digital Stains and Spectral Forecast A treatment of sequence alignment, including local sequence alignment, global sequence alignment and forced sequence alignment with full implementationsDiscussions of position-specific weight matrices, including the count, weight, relative frequencies, and log-likelihoods matricesA detailed presentation of the methods related to Markov Chains as well as a description of their implementation in Bioinformatics and adjacent fieldsAn examination of information and entropy, including sequence logos and explanations related to their meaningAn exploration of the current state of bioinformatics, including what is known and what issues are usually avoided in the fieldA chapter on philosophical transactions that allows the reader a broader view of the prediction processNative computer implementations in the context of the field of BioinformaticsExtensive worked examples with detailed case studies that point out the meaning of different results Perfect for professionals and researchers in biology, medicine, engineering, and information technology, as well as upper level undergraduate students in these fields, Algorithms in Bioinformatics: Theory and Implementation will also earn a place in the libraries of software engineers who wish to understand how to implement bioinformatic algorithms in their products.

A clear and lucid bottom-up approach to the basic principles of evolutionary algorithms Evolutionary algorithms (EAs) are a type of artificial intelligence. EAs are motivated by optimization processes that we observe in nature, such as natural selection, species migration, bird swarms, human culture, and ant colonies. This book discusses the theory, history, mathematics, and programming of evolutionary optimization algorithms. Featured algorithms include genetic algorithms, genetic programming, ant colony optimization, particle swarm optimization, differential evolution, biogeography-based optimization, and many others. Evolutionary Optimization Algorithms: Provides a straightforward, bottom-up approach that assists the reader in obtaining a clear—but theoretically rigorous—understanding of evolutionary algorithms, with an emphasis on implementation Gives a careful treatment of recently developed EAs—including opposition-based learning, artificial fish swarms, bacterial foraging, and many others— and discusses their similarities and differences from more well-established EAs Includes chapter-end problems plus a solutions manual available online for instructors Offers simple examples that provide the reader with an intuitive understanding of the theory Features source code for the examples available on the author's website Provides advanced mathematical techniques for analyzing EAs, including Markov modeling and dynamic system modeling Evolutionary Optimization Algorithms: Biologically Inspired and Population-Based Approaches to Computer Intelligence is an ideal text for advanced undergraduate students, graduate students, and professionals involved in engineering and computer science.

* This book deals with the fundamentals of genetic algorithms and their applications in a variety of different areas of engineering and science * Most significant update to the second edition is the MATLAB codes that accompany the text * Provides a thorough discussion of hybrid genetic algorithms * Features more examples than first edition

Discover the benefits of applying algorithms to solve scientific, engineering, and practical problems Providing a combination of theory, algorithms, and simulations, Handbook of Applied Algorithms presents an all-encompassing treatment of applying algorithms and discrete mathematics to practical problems in «hot» application areas, such as computational biology, computational chemistry, wireless networks, and computer vision. In eighteen self-contained chapters, this timely book explores: * Localized algorithms that can be used in topology control for wireless ad-hoc or sensor networks * Bioinformatics algorithms for analyzing data * Clustering algorithms and identification of association rules in data mining * Applications of combinatorial algorithms and graph theory in chemistry and molecular biology * Optimizing the frequency planning of a GSM network using evolutionary algorithms * Algorithmic solutions and advances achieved through game theory Complete with exercises for readers to measure their comprehension of the material presented, Handbook of Applied Algorithms is a much-needed resource for researchers, practitioners, and students within computer science, life science, and engineering. Amiya Nayak, PhD, has over seventeen years of industrial experience and is Full Professor at the School of Information Technology and Engineering at the University of Ottawa, Canada. He is on the editorial board of several journals. Dr. Nayak's research interests are in the areas of fault tolerance, distributed systems/algorithms, and mobile ad-hoc networks. Ivan StojmenoviC?, PhD, is Professor at the University of Ottawa, Canada (www.site.uottawa.ca/~ivan), and Chair Professor of Applied Computing at the University of Birmingham, United Kingdom. Dr. Stojmenovic? received the Royal Society Wolfson Research Merit Award. His current research interests are mostly in the design and analysis of algorithms for wireless ad-hoc and sensor networks.

A thorough and insightful introduction to using genetic algorithms to optimize electromagnetic systems Genetic Algorithms in Electromagnetics focuses on optimizing the objective function when a computer algorithm, analytical model, or experimental result describes the performance of an electromagnetic system. It offers expert guidance to optimizing electromagnetic systems using genetic algorithms (GA), which have proven to be tenacious in finding optimal results where traditional techniques fail. Genetic Algorithms in Electromagnetics begins with an introduction to optimization and several commonly used numerical optimization routines, and goes on to feature: Introductions to GA in both binary and continuous variable forms, complete with examples of MATLAB(r) commands Two step-by-step examples of optimizing antenna arrays as well as a comprehensive overview of applications of GA to antenna array design problems Coverage of GA as an adaptive algorithm, including adaptive and smart arrays as well as adaptive reflectors and crossed dipoles Explanations of the optimization of several different wire antennas, starting with the famous «crooked monopole» How to optimize horn, reflector, and microstrip patch antennas, which require significantly more computing power than wire antennas Coverage of GA optimization of scattering, including scattering from frequency selective surfaces and electromagnetic band gap materials Ideas on operator and parameter selection for a GA Detailed explanations of particle swarm optimization and multiple objective optimization An appendix of MATLAB code for experimentation

Many physicists are not aware of the fact that they can solve their problems by applying optimization algorithms. Since the number of such algorithms is steadily increasing, many new algorithms have not been presented comprehensively until now. This presentation of recently developed algorithms applied in physics, including demonstrations of how they work and related results, aims to encourage their application, and as such the algorithms selected cover concepts and methods from statistical physics to optimization problems emerging in theoretical computer science.

Machine Learning Algorithms  is for current and ambitious machine learning specialists looking to implement solutions to real-world machine learning problems. It talks entirely about the various applications of machine and deep learning techniques, with each chapter dealing with a novel approach of machine learning architecture for a specific application, and then compares the results with previous algorithms. The book discusses many methods based in different fields, including statistics, pattern recognition, neural networks, artificial intelligence, sentiment analysis, control, and data mining, in order to present a unified treatment of machine learning problems and solutions. All learning algorithms are explained so that the user can easily move from the equations in the book to a computer program.