forward time population genetics simulations methods implementation and applications

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Forward Time Population Genetics Simulations

Author : Bo Peng
ISBN : 9781118180341
Genre : Science
File Size : 80. 35 MB
Format : PDF
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The only book available in the area of forward-time population genetics simulations—applicable to both biomedical and evolutionary studies The rapid increase of the power of personal computers has led to the use of serious forward-time simulation programs in genetic studies. Forward-Time Population Genetics Simulations presents both new and commonly used methods, and introduces simuPOP, a powerful and flexible new program that can be used to simulate arbitrary evolutionary processes with unique features like customized chromosome types, arbitrary nonrandom mating schemes, virtual subpopulations, information fields, and Python operators. The book begins with an overview of important concepts and models, then goes on to show how simuPOP can simulate a number of standard population genetics models—with the goal of demonstrating the impact of genetic factors such as mutation, selection, and recombination on standard Wright-Fisher models. The rest of the book is devoted to applications of forward-time simulations in various research topics. Forward-Time Population Genetics Simulations includes: An overview of currently available forward-time simulation methods, their advantages, and shortcomings An overview and evaluation of currently available software A simuPOP tutorial Applications in population genetics Applications in genetic epidemiology, statistical genetics, and mapping complex human diseases The only book of its kind in the field today, Forward-Time Population Genetics Simulations will appeal to researchers and students of population and statistical genetics.

Foundations Of Risk Analysis

Author : Terje Aven
ISBN : 9781119945789
Genre : Mathematics
File Size : 71. 56 MB
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Foundations of Risk Analysis presents the issues core to risk analysis – understanding what risk means, expressing risk, building risk models, addressing uncertainty, and applying probability models to real problems. The author provides the readers with the knowledge and basic thinking they require to successfully manage risk and uncertainty to support decision making. This updated edition reflects recent developments on risk and uncertainty concepts, representations and treatment. New material in Foundations of Risk Analysis includes: An up to date presentation of how to understand, define and describe risk based on research carried out in recent years. A new definition of the concept of vulnerability consistent with the understanding of risk. Reflections on the need for seeing beyond probabilities to measure/describe uncertainties. A presentation and discussion of a method for assessing the importance of assumptions (uncertainty factors) in the background knowledge that the subjective probabilities are based on A brief introduction to approaches that produce interval (imprecise) probabilities instead of exact probabilities. In addition the new version provides a number of other improvements, for example, concerning the use of cost-benefit analyses and the As Low As Reasonably Practicable (ALARP) principle. Foundations of Risk Analysis provides a framework for understanding, conducting and using risk analysis suitable for advanced undergraduates, graduates, analysts and researchers from statistics, engineering, finance, medicine and the physical sciences, as well as for managers facing decision making problems involving risk and uncertainty.

Population Genetics

Author : Matthew Hamilton
ISBN : 9781444362459
Genre : Science
File Size : 60. 46 MB
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This book aims to make population genetics approachable, logical and easily understood. To achieve these goals, the book’s design emphasizes well explained introductions to key principles and predictions. These are augmented with case studies as well as illustrations along with introductions to classical hypotheses and debates. Pedagogical features in the text include: Interact boxes that guide readers step-by-step through computer simulations using public domain software. Math boxes that fully explain mathematical derivations. Methods boxes that give insight into the use of actual genetic data. Numerous Problem boxes are integrated into the text to reinforce concepts as they are encountered. Dedicated website at www.wiley.com/go/hamiltongenetics This text also offers a highly accessible introduction to coalescent theory, the major conceptual advance in population genetics of the last two decades.

Landscape Genetics

Author : Niko Balkenhol
ISBN : 9781118525241
Genre : Science
File Size : 24. 36 MB
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Despite the substantial interest in landscape genetics from the scientific community, learning about the concepts and methods underlying the field remains very challenging. The reason for this is the highly interdisciplinary nature of the field, which combines population genetics, landscape ecology, and spatial statistics. These fields have traditionally been treated separately in classes and textbooks, and very few scientists have received the interdisciplinary training necessary to efficiently teach or apply the diversity of techniques encompassed by landscape genetics. To address the current knowledge gap, this book provides the first in depth treatment of landscape genetics in a single volume. Specifically, this book delivers fundamental concepts and methods underlying the field, covering particularly important analytical methods in detail, and presenting empirical and theoretical applications of landscape genetics for a variety of environments and species. Consistent with the interdisciplinary nature of landscape genetics, the book combines an introductory, textbook like section with additional sections on advanced topics and applications that are more typical of edited volumes. The chapter topics and the expertise of the authors and the editorial team make the book a standard reference for anyone interested in landscape genetics. The book includes contributions from many of the leading researchers in landscape genetics. The group of scientists we have assembled has worked on several collaborative projects over the last years, including a large number of peer reviewed papers, several landscape genetics workshops at international conferences, and a distributed graduate seminar on landscape genetics. Based on the experiences gained during these collaborative teaching and research activities, the book includes chapters that synthesize fundamental concepts and methods underlying landscape genetics (Part 1), chapters on advanced topics that deserve a more in depth treatment (Part 2), and chapters illustrating the use of concepts and methods in empirical applications (Part 3). This structure ensures a high usefulness of the book for beginning landscape geneticists and experienced researchers alike, so that it has a broad target audience. At least one of the four co editors is involved in almost every chapter of the book, thereby ensuring a high consistency and coherency among chapters.

Bioinformatics With Python Cookbook

Author : Tiago Antao
ISBN : 9781783558650
Genre : Computers
File Size : 56. 21 MB
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If you are either a computational biologist or a Python programmer, you will probably relate to the expression "explosive growth, exciting times". Python is arguably the main programming language for big data, and the deluge of data in biology, mostly from genomics and proteomics, makes bioinformatics one of the most exciting fields in data science. Using the hands-on recipes in this book, you'll be able to do practical research and analysis in computational biology with Python. We cover modern, next-generation sequencing libraries and explore real-world examples on how to handle real data. The main focus of the book is the practical application of bioinformatics, but we also cover modern programming techniques and frameworks to deal with the ever increasing deluge of bioinformatics data.

Statistical Shape And Deformation Analysis

Author : Guoyan Zheng
ISBN : 9780128104941
Genre : Computers
File Size : 64. 19 MB
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Statistical Shape and Deformation Analysis: Methods, Implementation and Applications contributes enormously to solving different problems in patient care and physical anthropology, ranging from improved automatic registration and segmentation in medical image computing to the study of genetics, evolution and comparative form in physical anthropology and biology. This book gives a clear description of the concepts, methods, algorithms and techniques developed over the last three decades that is followed by examples of their implementation using open source software. Applications of statistical shape and deformation analysis are given for a wide variety of fields, including biometry, anthropology, medical image analysis and clinical practice. Presents an accessible introduction to the basic concepts, methods, algorithms and techniques in statistical shape and deformation analysis Includes implementation examples using open source software Covers real-life applications of statistical shape and deformation analysis methods

Conservation And The Genetics Of Populations

Author : Fred W. Allendorf
ISBN : 9781118408575
Genre : Science
File Size : 77. 92 MB
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Loss of biodiversity is among the greatest problems facing the world today. Conservation and the Genetics of Populations gives a comprehensive overview of the essential background, concepts, and tools needed to understand how genetic information can be used to conserve species threatened with extinction, and to manage species of ecological or commercial importance. New molecular techniques, statistical methods, and computer programs, genetic principles, and methods are becoming increasingly useful in the conservation of biological diversity. Using a balance of data and theory, coupled with basic and applied research examples, this book examines genetic and phenotypic variation in natural populations, the principles and mechanisms of evolutionary change, the interpretation of genetic data from natural populations, and how these can be applied to conservation. The book includes examples from plants, animals, and microbes in wild and captive populations. This second edition contains new chapters on Climate Change and Exploited Populations as well as new sections on genomics, genetic monitoring, emerging diseases, metagenomics, and more. One-third of the references in this edition were published after the first edition. Each of the 22 chapters and the statistical appendix have a Guest Box written by an expert in that particular topic (including James Crow, Louis Bernatchez, Loren Rieseberg, Rick Shine, and Lisette Waits). This book is essential for advanced undergraduate and graduate students of conservation genetics, natural resource management, and conservation biology, as well as professional conservation biologists working for wildlife and habitat management agencies. Additional resources for this book can be found at: www.wiley.com/go/allendorf/populations.

An Introduction To Genetic Algorithms

Author : Melanie Mitchell
ISBN : 0262631857
Genre : Computers
File Size : 25. 76 MB
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Genetic algorithms are used in science and engineering for problem solving and as computational models. This brief introduction enables readers to implement and experiment with genetic algorithms on their own. The descriptions of applications and modeling projects stretch beyond the boundaries of computer science to include systems theory, game theory, biology, ecology, and population genetics. 20 illustrations.

Molecular Genetic And Statistical Techniques For Behavioral And Neural Research

Author : Robert T. Gerlai
ISBN : 9780128041161
Genre : Medical
File Size : 77. 28 MB
Format : PDF
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Molecular-Genetic and Statistical Techniques for Behavioral and Neural Research presents the most exciting molecular and recombinant DNA techniques used in the analysis of brain function and behavior, a critical piece of the puzzle for clinicians, scientists, course instructors and advanced undergraduate and graduate students. Chapters examine neuroinformatics, genetic and neurobehavioral databases and data mining, also providing an analysis of natural genetic variation and principles and applications of forward (mutagenesis) and reverse genetics (gene targeting). In addition, the book discusses gene expression and its role in brain function and behavior, along with ethical issues in the use of animals in genetics testing. Written and edited by leading international experts, this book provides a clear presentation of the frontiers of basic research as well as translationally relevant techniques that are used by neurobehavioral geneticists. Focuses on new techniques, including electrocorticography, functional mapping, stereo EEG, motor evoked potentials, optical coherence tomography, magnetoencephalography, laser evoked potentials, transmagnetic stimulation, and motor evoked potentials Presents the most exciting molecular and recombinant DNA techniques used in the analysis of brain function and behavior Written and edited by leading international experts

Excel Simulations

Author : Gerard Verschuuren
ISBN : 9781615470228
Genre : Computers
File Size : 31. 97 MB
Format : PDF, Kindle
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Covering a variety of Excel simulations, from gambling to genetics, this introduction is for people interested in modeling future events, without the cost of an expensive textbook. The simulations covered offer a fun alternative to the usual Excel topics and include situations such as roulette, password cracking, sex determination, population growth, and traffic patterns, among many others.

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