Individual-based Modeling and Ecology (Princeton Series in Theoretical and Computational Biology)

Book Description

Individual-based models are an exciting and widely used new tool for ecology. These computational models allow scientists to explore the mechanisms through which population and ecosystem ecology arises from how individuals interact with each other and their environment. This book provides the first in-depth treatment of individual-based modeling and its use to develop theoretical understanding of how ecological systems work, an approach the authors call "individual-based ecology."

Grimm and Railsback start with a general primer on modeling: how to design models that are as simple as possible while still allowing specific problems to be solved, and how to move efficiently through a cycle of pattern-oriented model design, implementation, and analysis. Next, they address the problems of theory and conceptual framework for individual-based ecology: What is "theory"? That is, how do we develop reusable models of how system dynamics arise from characteristics of individuals? What conceptual framework do we use when the classical differential equation framework no longer applies? An extensive review illustrates the ecological problems that have been addressed with individual-based models. The authors then identify how the mechanics of building and using individual-based models differ from those of traditional science, and provide guidance on formulating, programming, and analyzing models. This book will be helpful to ecologists interested in modeling, and to other scientists interested in agent-based modeling.

Customer Reviews:

Thorough.......2007-09-10

I haven't finished the book, but so far it's been very thorough on the subject and has given me lots of ideas for how to proceed on the project I'm working on. Would definitely recommend it.

Average customer rating:

there is no better book for both introduction and in detail
the best CFD primer out there
The best comprehesive book on the field

Computational Gasdynamics
Culbert B. Laney
Manufacturer: Cambridge University Press
ProductGroup: Book
Binding: Paperback

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Similar Items:

Finite Volume Methods for Hyperbolic Problems (Cambridge Texts in Applied Mathematics)
Riemann Solvers and Numerical Methods for Fluid Dynamics: A Practical Introduction
Numerical Methods for Conservation Laws
An Introduction to Computational Fluid Dynamics: The Finite Volume Method (2nd Edition)
Vectors, Tensors and the Basic Equations of Fluid Mechanics (Dover Books on Engineering)

ASIN: 0521625580

Book Description

Numerical methods are indispensable tools in the analysis of complex fluid flows. This book focuses on computational techniques for high-speed gas flows, especially gas flows containing shocks and other steep gradients. The book decomposes complicated numerical methods into simple modular parts, showing how each part fits and how each method relates to or differs from others. The text begins with a review of gasdynamics and computational techniques. Next come basic principles of computational gasdynamics. The last two parts cover basic techniques and advanced techniques. Senior- and graduate-level students, especially in aerospace engineering, as well as researchers and practicing engineers, will find a wealth of invaluable information on high-speed gas flows in this text.

Customer Reviews:

there is no better book for both introduction and in detail.......2002-07-10

This book is a detailed account of the Eulerian numerical methods used for the solution of hyperbolic pde's such as the standard scalar conservation laws of fluid mechanics and gas dynamics. The book directly investigates gas dynamiocs rather than fluid dynamics although it has application there as well through the very successful Godunov method used for multiphase flow and compressible flow leading to shocks.

There are several parts: Part I: a lead in to gas dynamics, waves and scalar conservation laws as well as the Riemann problem; followed by Part II: Computational review covering the simplest aspects of numerical methods such as numerical discretisation and error, interpolation, piecewise functions; Part III: Gas Dynamics itself involving the CFL concdition, upwinding methods, artificial viscosity, linear and non-linear stability; Part IV: Methods of Gas dynamics, for scalar conservation laws and the Euler equations; Part V: advanced methods leading into flux avergaing, flux limited methods, flux corrected methods, hybrid methods and solution averaging.

The book deals mainly with numerical techniques for one dimension of space and time although there is a small chapter at the end for multidimensions. In this sense it is deficient, but it must be remembered that 1D methods must be mastered before considering the extension to 2 or 3 dimensions. This is a very detailed book leaving nothing out and explaining the techniques in great detail and in simple language without getting lost. Compare this with the far more difficult approach used by Leveque in his book: "Finite Difference Methods for Differential Equations". If you wish to deeply understand the area then this is your text with over 600 pages making up the book its worth every cent although the rather high price of around US$60 is too high for most students. If you can afford it buy it, there is no better book for both an introduction and detail, most of the material is covered elsewhere in class notes and research papers but the fact it is explained in a single book with good continuity is a godsend.

the best CFD primer out there.......2002-04-07

I have to admit that I was at first disappointed to see that the book was loaded with description of schemes in 1-D, with scant space dedicated to multi-dimensional problems. However, I must say that the coverage is easily the most clear and complete of the books on this subject. Other texts may be required to flesh out the schemes and boundary conditions in multi-dimensional space, but a reader will be well served with the good fundamental base that this text provides.

The best comprehesive book on the field.......1998-08-24

Has a good style: * Gives clear decription of physics * Gives a good introduction to basic numerics * Clearly explains various techniques developed over the last few decades, and the incentive behind their development * Up to date, with many modern schemes

Computational studies of RNA and DNA (Challenges and Advances in Computational Chemistry and Physics)

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Computational studies of RNA and DNA (Challenges and Advances in Computational Chemistry and Physics)

Manufacturer: Springer
ProductGroup: Book
Binding: Hardcover

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ASIN: 1402047940

Product Description

Computational Studies of RNA and DNA includes, in an integrated way, modern computational studies of nucleic acids, ranging from advanced electronic structure quantum chemical calculations through explicit solvent molecular dynamics (MD) simulations up to mesoscopic modelling, with the main focus given to the MD field. It gives an equal emphasis to the leading methods and applications while successes as well as pitfalls of the computational techniques are discussed.

The systems and problems studied include:

Accurate calculations of base pairing energies

Electronic properties of nucleic acids and electron transfer, through various types of nucleic acid

Calculating DNA elasticity

This book is ideally suited to academics and researchers in organic and computational chemistry as well as biochemistry and particularly those interested in the molecular modelling of nucleic acids.

Besides the state-of-the art science, the book also provides introductory information to non-specialists to enter and understand this field.

Free Energy Calculations (Springer Series in Chemical Physics)

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A long-awaited reference

Free Energy Calculations (Springer Series in Chemical Physics)

Manufacturer: Springer
ProductGroup: Book
Binding: Hardcover

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Theory of Simple Liquids, Third Edition
Molecular Driving Forces: Statistical Thermodynamics in CHemistry & Biology

ASIN: 3540384472
Release Date: 2007-01-08

Product Description

This volume sets out to present a coherent account of the concepts that underlay different approaches devised for the determination of free energies. The reader will gain the necessary insight into the theoretical and computational foundations of the subject and will be presented with relevant applications from molecular-level modelling and simulations of chemical and biological systems. The book is aimed at a broad readership of graduate students and researchers having a background in chemistry, physics, engineering and physical biology.

Customer Reviews:

A long-awaited reference.......2007-06-18

Free energy calculations have been around for several decades, and are now a field of their own, with its massive literature and a thick jungle of algorithms and implementations. Experienced researchers have to invest a lot of time to keep up to date (not everyone does), and to newcomers, it can be very confusing. Young researchers still use introductory material from the famous books of Allen and Tildesley, and Frenkel and Smit. While very precious, those are now old (especially Allen and Tildesley) and cover many other subjects, so they give little detail about classic techniques and virtually nothing about more recent ones, such as nonequilibrium methods or Wang-Landau sampling.

This book brings together a handful of recognized experts from around the globe, who try to sum up the state of the art in free energy calculations in a concise, yet in-depth manner. Newcomers to the field will appreciate the first chapter, which gives an overview and an introduction to essential concepts. The following chapters present the main families of methods in a systematic way, from transition path sampling to simplified methods designed to treat large biological systems efficiently. Depending on each author's style, the chapters have different balances of raw theory and real-world applications. Even authors writing mostly about theory try to keep an eye on practical implications. Beyond the formally exact equations, many chapters put an emphasis on finite sampling errors and methods to minimize them: in real life, that often makes the difference between free energy calculations that work and those that don't.

Lattice Boltzmann Modeling: An Introduction for Geoscientists and Engineers

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Lattice Boltzmann Modeling: An Introduction for Geoscientists and Engineers
Michael C. Sukop , and Daniel T. Jr Thorne
Manufacturer: Springer
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Binding: Hardcover

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Similar Items:

The Lattice Boltzmann Equation for Fluid Dynamics and Beyond (Numerical Mathematics and Scientific Computation)
Lattice-Gas Cellular Automata and Lattice Boltzmann Models: An Introduction (Lecture Notes in Mathematics)
An Introduction to the Theory of the Boltzmann Equation (Dover Books on Physics)
Lattice Boltzmann Methods for Shallow Water Flows
Large-Eddy Simulations of Turbulence

Accessories:

MATLAB® Recipes for Earth Sciences
Computational Earthquake Physics: Simulations, Analysis and Infrastructure, Part II (Pageoph Topical Volumes)
Computational Earthquake Physics: Simulations, Analysis and Infrastructure, Part I (Pageoph Topical Volumes)

ASIN: 3540279814

Book Description

Lattice Boltzmann models have a remarkable ability to simulate single- and multi-phase fluids and transport processes within them. A rich variety of behaviors, including higher Reynolds numbers flows, phase separation, evaporation, condensation, cavitation, buoyancy, and interactions with surfaces can readily be simulated. This book provides a basic introduction that emphasizes intuition and simplistic conceptualization of processes. It avoids the more difficult mathematics that underlies LB models. The model is viewed from a particle perspective where collisions, streaming, and particle-particle/particle-surface interactions constitute the entire conceptual framework. Beginners and those with more interest in model application than detailed mathematical foundations will find this a powerful "quick start" guide. Example simulations, exercises, and computer codes are included. Working code is provided on the Internet.

Intermolecular Interactions: Physical Picture, Computational Methods and Model Potentials

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Intermolecular Interactions: Physical Picture, Computational Methods and Model Potentials
Ilya G. Kaplan
Manufacturer: Wiley
ProductGroup: Book
Binding: Hardcover

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Understanding Molecular Simulation (Computational Science Series, Vol 1)
The Art of Molecular Dynamics Simulation

ASIN: 0470863323

Book Description

The subject of this book — intermolecular interactions — is as important in physics as in chemistry and molecular biology. Intermolecular interactions are responsible for the existence of liquids and solids in nature. They determine the physical and chemical properties of gases, liquids, and crystals, the stability of chemical complexes and biological compounds.

In the first two chapters of this book, the detailed qualitative description of different types of intermolecular forces at large, intermediate and short-range distances is presented. For the first time in the monographic literature, the temperature dependence of the dispersion forces is discussed, and it is shown that at finite temperatures the famous Casimir-Polder asymptotic formula is correct only at narrow distance range. The author has aimed to make the presentation understandable to a broad scope of readers without oversimplification. In Chapter 3, the methods of quantitative calculation of the intermolecular interactions are discussed and modern achievements are presented. This chapter should be helpful for scientists performing computer calculations of many-electron systems.

The last two chapters are devoted to the many-body effects and model potentials. More than 50 model potentials exploited for processing experimental data and computer simulation in different fields of physics, chemistry and molecular biology are represented. The widely used global optimisation methods: simulated annealing, diffusion equation method, basin-hopping algorithm, and genetic algorithm are described in detail.

Book Description

Many introductions to fluid dynamics offer an illustrative approach that demonstrates some aspects of fluid behavior, but often leave you without the tools necessary to confront new problems. For more than a decade, Fluid Dynamics: Theoretical and Computational Approaches has supplied these missing tools with a constructive approach that made the book a bestseller. Now in its third edition, it supplies even more computational skills in addition to a solid foundation in theory. After laying the groundwork in theoretical fluid dynamics, independent of any particular coordinate system in order to allow coordinate transformation of the equations, the author turns to the technique of writing Navier-Stokes and Euler's equations, flow of inviscid fluids, laminar viscous flow, and turbulent flow. He also includes requisite mathematics in several "Mathematical Expositions" at the end of the book and provides abundant end-of-chapter problems. What's New in the Third Edition? · New section on free surface flow · New section on instability of flows through Chaos and nonlinear dissipative systems · New section on formulation of the large eddy simulation (LES) problem · New example problems and exercises that reflect new and important topics of current interest By integrating a strong theoretical foundation with practical computational tools, Fluid Dynamics: Theoretical and Computational Approaches, Third Edition is an indispensable guide to the methods needed to solve new and unfamiliar problems in fluid dynamics.

Customer Reviews:

More Math than Physics.......2004-08-02

This book is a very comprehensive one. It treats Incompressible flows, laminar and turbulent ones. It will guide you through the derivation of NS equation, boundary layer equation, and it will give you an introduction to turbulence. The book is complete in the sense that it deeply describes every aspect of the subject, but it does it ONLY from the MATHEMATHICAL point of view. No physics, no pictures (almost). It isn't ABSOLUTELY an introductory book: the level of mathematics is pretty high.

One of the best on the market.......2003-03-16

This is a fantastic fluid dynamics book! It is clearly written and easy to follow. The chapter exercises are very useful. Chapters include kinematics of fluid motion, conservation laws and kinematics of flows, Navier-Stokes equations, inviscid flows, laminar viscous flow, and turbulent flow. (The chapter on turbulent flow is excellent, balancing the right amount of theory and modeling.)

The book also includes chapters on important mathematical concepts such as base vectors and representations, Gauss, Green, and Stokes theorems, geometry of space and plane curves, coordinate transformations, potential theory, singularities of the first order ODEs, geometry of surfaces, finite difference applied to PDSs, and frame invariancy.

This is an excellent book that would be an excellent choice for advanced-undergraduate and graduate study.

BUY IT NOW !.......2002-09-26

I bought this book about a week ago and I'm very excited of having it, but it's hard for me to read this book at my current level. After briefly going through the pages, I think this book will be very helpfull to me in a year, or so.. If you're an undegraduate student and taking your 1st or 2nd course in "Fluid Dynamics", a better choice for you would be "Fundamentals of AERODYNAMICS" by Anderson - it will help you to start in "Fluids" easier than with this text, and it's more "student-oriented". However, if you're a graduate student (and by "graduate" I mean "just about to graduate" - don't wait - it seems to be a very serious text.

An inspirational writer.......1999-08-22

The books infuence and interminate info is one thing to aspire, but the person himself is one of unique interest. His very knowledge will keep you jumping out of your seat in full attentiveness of his every word uttered. He also is not limited to only one field but has aquired knowledge and skills of a variety of interests. As a person he is a very loving, caring, and humble indivisual who thinks of everyone but himself. With all of these qualities, creates an inspirational writer, whose work is revered by many. May God bless him, and continue his success!

the best fluid dynamics book of 90s.......1999-07-15

The best fluid dynamics book I've ever read because it is complete and accurate . It will be an everlasting value to keep at hand in every moment. Do use it whenever you need to understand or remember the kernel of the most common fluid dynamics phenomena. A must-have worth buying

Combustion: Physical and Chemical Fundamentals, Modeling and Simulation, Experiments, Pollutant Formation

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Useful book
Combustion modeling review

Combustion: Physical and Chemical Fundamentals, Modeling and Simulation, Experiments, Pollutant Formation
J. Warnatz , U. Maas , and R.W. Dibble
Manufacturer: Springer
ProductGroup: Book
Binding: Hardcover

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Similar Items:

Theoretical and Numerical Combustion, Second Edition
Principles of Combustion
Turbulent Combustion
An Introduction to Combustion
Chemically Reacting Flow : Theory and Practice

ASIN: 3540259929

Book Description

Combustion is an old technology, which at present provides about 90% of our worldwide energy support. Combustion research in the past used fluid mechanics with global heat release by chemical reactions described with thermodynamics, assuming infinitely fast reactions. This approach was useful for stationary combustion processes, but it is not sufficient for transient processes like ignition and quenching or for pollutant formation. Yet pollutant formation during combustion of fossil fuels is a central topic and will continue to be so in the future. This book provides a detailed and rigorous treatment of the coupling of chemical reactions and fluid flow. Also, combustion-specific topics of chemistry and fluid mechanics are considered and tools described for the simulation of combustion processes.

The actual fourth edition presents a completely restructured book: Mathematical Formulae and derivations as well as the space-consuming reaction mechanisms have been replaced from the text to appendix. A new chapter discusses the impact of combustion processes on the earth’s atmosphere, the chapter on auto-ignition is extended to combustion in Otto- and Diesel-engines, and the chapters on heterogeneous combustion and on soot formation appear heavily revised.

Customer Reviews:

Useful book.......2007-08-17

This book is not a complete guide but is a good self-learning help.
It can be also used as a quick reference.
A good starting point for combustion studies. Then other books are required if complete treatment is required.
Small but nice part of useful mathematics in appendix. Not a rigorous treatment but quick explanation of some topics related to CFD.

Combustion modeling review.......2000-04-08

This is a very good book. It format is very succictinct and as such spares no space for unecessary content. This give the narrative a somewhat terse style. It must be remembered that the science of combustion wrestles with some formidable concepts; such as turbulent flow, reduced reaction mechanisms for complex chemical reactions, fluid flow and heat transfer. This is not a book for those who are easily frightened by close typed differential equations. This book however, is an excellent introduction to the science of combustion, and contains a detailed and upto date biblography, pointing the interested reader in the right direction. It also contains one of the most complete tables of kinetic data for combustion reactions, I have seen in published literature. My one regret is that there is no companion volume of solved examples that could be used by an unassisted, but interested student. Read in conjunction with Smith/Missen, computation of chemical equilibrium, and Anderson's excellent introduction to Computational fluid dynamics, and the world of this facinating and most important field opens up.

Thinking in Complexity: The Computational Dynamics of Matter, Mind, and Mankind

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very difficult subject; but intriguing ideas
understandable highest level science with cultural backg
Full but turgid catalogue of complexity phenomena

Thinking in Complexity: The Computational Dynamics of Matter, Mind, and Mankind
Klaus Mainzer
Manufacturer: Springer
ProductGroup: Book
Binding: Hardcover

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Similar Items:

Complexity: Metaphors, Models, and Reality
Foundations of Complex-system Theories: In Economics, Evolutionary Biology, and Statistical Physics
The Little Book of Time (Little Book Series)
Hidden Order: How Adaptation Builds Complexity (Helix Books)
At Home in the Universe: The Search for the Laws of Self-Organization and Complexity

ASIN: 3540002391

Amazon.com

Chaos is cropping up everywhere these days. As it becomes ever more apparent that Newtonian mechanics is inadequate for modeling nonlinear systems, or systems that have too many degrees of freedom to handle easily, researchers in all fields are turning toward nonlinear dynamics as a refreshing alternative. This is a paradigm shift à la Kuhn, and Klaus Mainzer guides us through it with an astounding range of historical and scientific knowledge. From quantum physics to consciousness to economics, Mainzer shows us how thinking complexly can solve problems over which standard, linear thinking continually stumbles. Instead of simplifying, however, Mainzer revels in the complexity of complexity, so the reader should be prepared for advanced concepts in such varied fields as mathematics, physics, and economics. Difficult, but worthwhile reading.

Book Description

The theory of nonlinear, complex systems has become by now a proven problem-solving approach in the natural sciences. And it is now also recognized that many if not most of our social, ecological, economical and political problems are essentially of a global, complex and nonlinear nature. And it is now further accepted than any holistic perspective of the human mind and brain can hardly be achieved by any other approach. In this wide-ranging, scholarly but very concise treatment, physicist, computer scientist and philosopher Klaus Mainzer discusses, in essentially nontechnical language, the common framework behind these ideas and challenges. Emphasis is given to the evolution of new structures in natural and cultural systems and we are lead to see clearly how the new integrative approach can give insights not available from traditional reductionistic methods. The fifth edition enlarges and revises almost all sections and supplements an entirely new chapter on the complexity of economic systems.

From the reviews of the fourth edition:

"This book is ambitious, incredibly erudite with 22 pages of references, and is indisputably clearly and beautifully written and illustrated. It is perfectly suited to a first course on the science of complexity. Even beginners and young graduate students will have something to learn from this book." (Andre Hautot, Physicalia, Vol. 57 (3), 2005)

"All-in-all, this highly recommended book is a wonderful resource for intuitive basic ideas in the need of rigorous formulation." (Albert A. Mullin, Zentralblatt MATH, vol. 1046, 2004)

"Readers of this book will enjoy Mainzer's exposition, which is based on a tight coupling between classical and historical concepts from Plato and Aristotle to modern, mathematical and physical developments . Every chapter begins with a section designed to orient the reader to the perspective of philosophical developments through the ages pertinent to the topic at hand. The author takes pains to point out essential differences between classical science and the science of complexity. Thinking in Complexity is an outstandingly readable book." (Anutosh Moitra, The Industrial Physicist, August/September, 2004)

Customer Reviews:

very difficult subject; but intriguing ideas.......2006-01-19

[A review of the 4th Edition, 2003.]
This book studies complexity and nonlinearity across a diverse range of applications. Much of the book revolves around organic evolution and the evolution of a sentient mind. And how complexity analysis might aid in the understanding of these fields. Not the least in devising deeper forms of artificial intelligence.

So intriguing techniques like cellular automata and neural networks are studied. There is a fair amount of speculation as to how these and other topics might ultimately relate to sentience or consciousness. But the musings are grounded in solid science. Like that of a Hopfield system or a Boltzmann machine. This 4th edition is a good reflection of the boundaries of our knowledge.

understandable highest level science with cultural backg.......1999-06-16

The book covers a broad field - all parts in close connection with the others and its background in modern science and historic cultural connotations. The theoretical aspects are merged with lively explanations. Readable for the non-specialist, understandable for the average science-educated and meaningful for the specilaists, both in physical systems science and in philosophy. A top-notch guide through this topic of multidisciplinary novelties.

Full but turgid catalogue of complexity phenomena.......1998-02-25

This book is an extremely well-informed cataloguing of the many areas of human experience in which self-organisation and complexity phenomena play an important role. However the writer's style becomes very heavy as a result of transferring German constructions into English - so much so that I was forced to skim read many sections.

Introduction to Theoretical and Computational Fluid Dynamics

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Introduction to Theoretical and Computational Fluid Dynamics
C. Pozrikidis
Manufacturer: Oxford University Press, USA
ProductGroup: Book
Binding: Hardcover

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Boundary Integral and Singularity Methods for Linearized Viscous Flow (Cambridge Texts in Applied Mathematics)
Microhydrodynamics: Principles and Selected Applications
An Introduction to Fluid Dynamics
A Practical Guide to Boundary Element Methods with the Software Library BEMLIB
Bubbles, Drops, and Particles

ASIN: 0195093208

Book Description

Introduction to Theoretical and Computational Fluid Dynamics is the first textbook to combine theoretical and computational aspects of fluid dynamics in a unified and comprehensive treatment. The theoretical developments are carried into the realm of numerical computation, and the numerical procedures are developed from first principles. This book offers a comprehensive and rigorous introduction to the fundamental principles and equations that govern the kinematics and dynamics of the laminar flow of incompressible Newtonian fluids. It simultaneously illustrates the application of numerical methods to solving a broad range of problems drawn from diverse areas, and discusses the development of pertinent computational algorithms. Topics considered include the description and analysis of flow kinematics; the computation of exact solutions of hydrostatics and hydrodynamics by solving ordinary differential equations; the study and computation of potential flow; the theory and numerical study of flow at low Reynolds numbers, linear hydrodynamic stability, and vortex motion; boundary-integral methods for potential and Stokes flow; and finite-difference methods for the Navier-Stokes equation. An appendix contains a primer of numerical methods that allows for ready reference. A unique synthesis of the theoretical and computational aspects of its field, Introduction to Theoretical and Computational Fluid Dynamics serves as an ideal text and source reference for advanced undergraduate students, graduate students, and researchers in the various fields of science and engineering, including mechanical, aeronautical, and chemical engineering, applied mathematics, physics, and computational science. It assumes no prior experience in computational fluid dynamics, and provides references for specialized topics. Each section is followed by theoretical and computer problems that allow the reader to acquire hands-on experience and simultaneously develop insights into the physics of a variety of flows.

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