Book Description
This book examines advanced Bayesian computational methods. It presents methods for sampling from posterior distributions and discusses how to compute posterior quantities of interest using Markov chain Monte Carlo (MCMC) samples. This book examines each of these issues in detail and heavily focuses on computing various posterior quantities of interest from a given MCMC sample. Several topics are addressed, including techniques for MCMC sampling, Monte Carlo methods for estimation of posterior quantities, improving simulation accuracy, marginal posterior density estimation, estimation of normalizing constants, constrained parameter problems, highest posterior density interval calculations, computation of posterior modes, and posterior computations for proportional hazards models and Dirichlet process models. The authors also discuss computions involving model comparisons, including both nested and non-nested models, marginal likelihood methods, ratios of normalizing constants, Bayes factors, the Savage-Dickey density ratio, Stochastic Search Variable Selection, Bayesian Model Averaging, the reverse jump algorithm, and model adequacy using predictive and latent residual approaches. The book presents an equal mixture of theory and applications involving real data. The book is intended as a graduate textbook or a reference book for a one semester course at the advanced masters or Ph.D. level. It would also serve as a useful reference book for applied or theoretical researchers as well as practitioners. Ming-Hui Chen is Associate Professor of Mathematical Sciences at Worcester Polytechnic Institute, Qu-Man Shao is Assistant Professor of Mathematics at the University of Oregon. Joseph G. Ibrahim is Associate Professor of Biostatistics at the Harvard School of Public Health and Dana-Farber Cancer Institute.
Customer Reviews:
not a good starting point.......2004-12-19
You need to be clear what you are looking for. If you have vaguely heard that MCMC (Monte Carlo Markov Chain) methods are a neat way to apply Bayesian ideas to practical problems, and you want to use them, then this is *not* the book for you. Go to the splendid Gilks et al, Markov Chain Monte Carlo in Practice. Also check out BUGS, which is free software, originally written by Gilks and co and improved by many others.
If you want a more general introduction to Bayesian methods, then Gelman et al, Bayesian Data Analysis is excellent.
If you are unclear about the controversies and want to know why the Bayesian approach is correct, and the others are flat wrong, then read Ed Jaynes book.
So what is this book for. Well, I think you have to be a specialist, interested in further development of the techniques, and in the maths. As a previous reviewer has commented (correctly), in that case you probably have easy access to the journal literature and need to think carefully what extra benefits this book gives you.
Same writer reviewed book 4 times!.......2004-12-19
I depend upon the Amazon reviews to help determine whether to purchase a book as most others do. When a reviewer posts four 5 star reviews of the book (out of 7 total) it biases the rating and makes one wonder whether if the reviewer has an agenda or is related to the authors. This may be a great book, but I have no confidence from the rating given here.
extensive book on MCMC.......2002-10-18
This is truly an oustanding book on MCMC methods for Bayesian
computation. The authors present a nice balance between technical
developments and applications. It covers several topics not covered by other MCMC books, such as HPD regions, model selection, and density estimation. This book is world class.
two great books.......2002-10-17
This is an outstanding book on MCMC methods. The book presents
novel and sophisticated methods for carrying out posterior
computations and summarizing posterior quantities of interest using novel MCMC techniques. The authors present a lot of their
groundbreaking work as well as summarizing the work of many others. The book presents a number of complex models used in real and interesting applications in the biomedical sciences. Two of the authors also have wirtten another outstanding book titled Bayesian Survival Analysis (Ibrahim et al., 2001), which presents modern methods for Bayesian survival analysis and provides a comprehensive and thorough treatment of the subject. The authors are to be congratulated on writing two very fine books. Both books get 5 stars from me.
two great books.......2002-10-15
This is a great book by the authors, covering a wide range of
topics in MCMC. The coverage of the material is deep and novel.
Two of the authors also have published another outstanding book
titled Bayesian Survival Analyis, by Ibrahim et al., which presents
cutting edge and novel methods in the analysis of survival data.
Both books get 5 stars from me. A splendid job by the authors
in writing two very fine books.
Book Description
A large number of scientists and engineers employ Monte Carlo simulation and related global optimization techniques (such as simulated annealing) as an essential tool in their work. For such scientists, there is a need to keep up to date with several recent advances in Monte Carlo methodologies such as cluster methods, data- augmentation, simulated tempering and other auxiliary variable methods. There is also a trend in moving towards a population-based approach. All these advances in one way or another were motivated by the need to sample from very complex distribution for which traditional methods would tend to be trapped in local energy minima. It is our aim to provide a self-contained and up to date treatment of the Monte Carlo method to this audience. The Monte Carlo method is a computer-based statistical sampling approach for solving numerical problems concerned with a complex system. The methodology was initially developed in the field of statistical physics during the early days of electronic computing (1945-55) and has now been adopted by researchers in almost all scientific fields. The fundamental idea for constructing Markov chain based Monte Carlo algorithms was introduced in the 1950s. This idea was later extended to handle more and more complex physical systems. In the 1980s, statisticians and computer scientists developed Monter Carlo-based algorithms for a wide variety of integration and optimization tasks. In the 1990s, the method began to play an important role in computational biology. Over the past fifty years, reasearchers in diverse scientific fields have studied the Monte Carlo method and contributed to its development. Today, a large number of scientisits and engineers employ Monte Carlo techniques as an essential tool in their work. For such scientists, there is a need to keep up-to-date with recent advances in Monte Carlo methodologies.
Customer Reviews:
An excellent book on Monte Carlo.......2006-05-04
Jun Liu has been a prominent researcher in MCMC since the mid 90's. His research has contributed a great deal to the development of Gibbs sampler, sequential Monte Carlo, weighting/importance sampling, missing data, and MCMC related applications in Bioinformatics. Not surprisingly, this book has them all, plus many other interesting topics. The final two chapters review some of the theories. This book has a strong flavor in statistical physics, which I like very much. It also contains some applications in, for examples, engineering (e.g. nonlinear filter, sequential Monte Carlo), biology (DNA sequencing), image analysis (clustering) and stochastic optimization.
Jun Liu presents things very clearly and concisely, and hopefully you can benefit from his book.
An awesome book on Monte Carlo methods.......2005-09-13
Now, I am reading this book. I would like to mark it 4.5 stars if possible.
[1] The author is an expert of computational statistics and Bayesian analysis, an active mathematician at Harvard.
[2] The background of this book is related to bioinformatics, physics, etc, which puzzles me a lot while reading.
[3] You can find the author's deep understanding of MC methods throughout the book.
[3] It is suitable for the graduate students of statistics.
[4] It's a little bit pity that this book is not purely written for mathematicians. Anyway, it is a witness of MC methods in development.
Solid theory in Monte Carlo, but less application examples.......2005-08-22
Solid theory in Monte Carlo, but less application examples
A First Rate Book on MC.......2001-08-07
The author is a top young gun from Harvard's Statistics Dept., and is an expert in many applied areas that utilize Monte Carlo, like the red hot bioinformatics. This book covers MC techniques developed in many different fields e.g., physics,structural biology, statistics. It has a wide range of examples, some of which are very new (e.g., bioinformatics) and non-standard. It contains many interesting ideas, and is concise mathematically and easy to read. Highly recommended.
Book Description
Monte Carlo statistical methods, particularly those based on Markov chains, are now an essential component of the standard set of techniques used by statisticians. This new edition has been revised towards a coherent and flowing coverage of these simulation techniques, with incorporation of the most recent developments in the field. In particular, the introductory coverage of random variable generation has been totally revised, with many concepts being unified through a fundamental theorem of simulation
There are five completely new chapters that cover Monte Carlo control, reversible jump, slice sampling, sequential Monte Carlo, and perfect sampling. There is a more in-depth coverage of Gibbs sampling, which is now contained in three consecutive chapters. The development of Gibbs sampling starts with slice sampling and its connection with the fundamental theorem of simulation, and builds up to two-stage Gibbs sampling and its theoretical properties. A third chapter covers the multi-stage Gibbs sampler and its variety of applications. Lastly, chapters from the previous edition have been revised towards easier access, with the examples getting more detailed coverage.
This textbook is intended for a second year graduate course, but will also be useful to someone who either wants to apply simulation techniques for the resolution of practical problems or wishes to grasp the fundamental principles behind those methods. The authors do not assume familiarity with Monte Carlo techniques (such as random variable generation), with computer programming, or with any Markov chain theory (the necessary concepts are developed in Chapter 6). A solutions manual, which covers approximately 40% of the problems, is available for instructors who require the book for a course.
Christian P. Robert is Professor of Statistics in the Applied Mathematics Department at Université Paris Dauphine, France. He is also Head of the Statistics Laboratory at the Center for Research in Economics and Statistics (CREST) of the National Institute for Statistics and Economic Studies (INSEE) in Paris, and Adjunct Professor at Ecole Polytechnique. He has written three other books, including The Bayesian Choice, Second Edition, Springer 2001. He also edited Discretization and MCMC Convergence Assessment, Springer 1998. He has served as associate editor for the Annals of Statistics and the Journal of the American Statistical Association. He is a fellow of the Institute of Mathematical Statistics, and a winner of the Young Statistician Award of the Societié de Statistique de Paris in 1995.
George Casella is Distinguished Professor and Chair, Department of Statistics, University of Florida. He has served as the Theory and Methods Editor of the Journal of the American Statistical Association and Executive Editor of Statistical Science. He has authored three other textbooks: Statistical Inference, Second Edition, 2001, with Roger L. Berger; Theory of Point Estimation, 1998, with Erich Lehmann; and Variance Components, 1992, with Shayle R. Searle and Charles E. McCulloch. He is a fellow of the Institute of Mathematical Statistics and the American Statistical Association, and an elected fellow of the International Statistical Institute.
Customer Reviews:
Comprehensive but hard to read.......2007-10-03
There is no doubts this text is a comprehensive study of Monte Carlo methods with an impressive number of examples. However, I must say it is hard to read for someone who is beginning to work with Monte Carlo methods. I highly recommend the book by Sobol (A primer for the Monte Carlo Method) which I think it remains to be the best introduction to the subject. After reading and enjoying this primer you will be ready to take full advantage of Robert and Casella's book.
Comprehensive and detailed.......2006-04-08
I own both versions of this book. The authors have made significant amount of changes and enrichments in the second edition. Many recent developments in this field, such as perfect sampling, trans-dimensional MCMC and sequential Monte Carlo are covered in certain details. The level of this book is intermediate to advanced, and I used this book for the 3rd year Ph.D. students. My only disappointment is the examples are not up to my expectation. However, the problems at the back of each chapter include some interesting applications.
I highly recommend this book to anyone who wants to understand and apply MCMC and other Monte Carlo methods.
Monte Carlo Statistical Methods (by Christian P. Robert).......2006-03-20
It is a fantastic book for Monte Carlo Methods
Review of the Monte Carlo Statistical Methods book.......2006-03-02
A good book, with a really interesting mathematical treatement to different simulation techniques, but a little bit complicated in some aspects.
Does something necessary, does it well........2002-12-10
This text may or may not be the best book on MC for a particular application; to be honest, it's the only book on MC I own.
However, I did peruse a number of texts before I bought this one, and I am very pleased with my decision. To me, this book does something that seems necessary but is relatively uncommon: it gives a detailed, modern, comprehensive introduction to MC methods per se. There are other texts that might have one of those characteristics, but they seem to either not have all of them: they either are not modern, not comprehensive, not introductory, or are not concerned with Monte Carlo per se.
Many other excellent texts, for example, are largely oriented toward Bayesian implementations, or general integration, but not both.
I would highly recommend this book as an excellent introduction to MC methods as a general computational tool.
Book Description
While there have been few theoretical contributions on the Markov Chain Monte Carlo (MCMC) methods in the past decade, current understanding and application of MCMC to the solution of inference problems has increased by leaps and bounds. Incorporating changes in theory and highlighting new applications, Markov Chain Monte Carlo: Stochastic Simulation for Bayesian Inference, Second Edition presents a concise, accessible, and comprehensive introduction to the methods of this valuable simulation technique. The second edition includes access to an internet site that provides the code, written in R and WinBUGS, used in many of the previously existing and new examples and exercises. More importantly, the self-explanatory nature of the codes will enable modification of the inputs to the codes and variation on many directions will be available for further exploration. Major changes from the previous edition: · More examples with discussion of computational details in chapters on Gibbs sampling and Metropolis-Hastings algorithms · Recent developments in MCMC, including reversible jump, slice sampling, bridge sampling, path sampling, multiple-try, and delayed rejection · Discussion of computation using both R and WinBUGS · Additional exercises and selected solutions within the text, with all data sets and software available for download from the Web · Sections on spatial models and model adequacy The self-contained text units make MCMC accessible to scientists in other disciplines as well as statisticians. The book will appeal to everyone working with MCMC techniques, especially research and graduate statisticians and biostatisticians, and scientists handling data and formulating models. The book has been substantially reinforced as a first reading of material on MCMC and, consequently, as a textbook for modern Bayesian computation and Bayesian inference courses.
Book Description
Modern computer-intensive statistical methods play a key role in solving many problems across a wide range of scientific disciplines. This new edition of the bestselling Randomization, Bootstrap and Monte Carlo Methods in Biology illustrates the value of a number of these methods with an emphasis on biological applications. This textbook focuses on three related areas in computational statistics: randomization, bootstrapping, and Monte Carlo methods of inference. The author emphasizes the sampling approach within randomization testing and confidence intervals. Similar to randomization, the book shows how bootstrapping, or resampling, can be used for confidence intervals and tests of significance. It also explores how to use Monte Carlo methods to test hypotheses and construct confidence intervals. New to the Third Edition · Updated information on regression and time series analysis, multivariate methods, survival and growth data as well as software for computational statistics · References that reflect recent developments in methodology and computing techniques · Additional references on new applications of computer-intensive methods in biology Providing comprehensive coverage of computer-intensive applications while also offering data sets online, Randomization, Bootstrap and Monte Carlo Methods in Biology, Third Edition supplies a solid foundation for the ever-expanding field of statistics and quantitative analysis in biology.
Average customer rating:
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A Monte Carlo Primer: A Practical Approach to Radiation Transport
Stephen A. Dupree
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Monte Carlo Primer: Volume 2
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Monte Carlo
ASIN: 0306467488 |
Book Description
This book introduces the reader to the use of Monte Carlo methods for solving practical problems in radiation transport, and will also serve as a reference work for practitioners in the field. It assumes the reader has a general knowledge of calculus and radiation physics, and a knowledge of Fortran programming, but assumes no prior knowledge of stochastic methods or statistical physics. The subject is presented by a combination of theoretical development and practical calculations. Because Monte Carlo methods are closely linked to the use of computers, from the beginning the reader is taught to convert the theoretical constructs developed in the text into functional software for use on a personal computer. Example problems provide the reader with an in-depth understanding of the concepts presented and lead to the production of a unique learning tool, a probabilistic framework code that models in a simple manner the features of production of Monte Carlo transport codes. This framework code is developed in stages such that every function is understood, tested, and demonstrated - random sampling, generating random numbers, implementing geometric models, using variance reduction, tracking particles in a random walk, testing the thoroughness with which the problem phase space is sampled, scoring detectors, and obtaining estimates of uncertainty in results. Advanced topics covered include criticality, correlated sampling, adjoint transport, and neutron thermalization.
Monte Carlo codes can produce highly precise wrong answers. The probability of this occurring is increased if production codes are run as opaque, `black boxes' of software. This text attempts to make Monte Carlo into a comprehensible, usable tool for solving practical transport problems. It is suitable for advanced undergraduate and graduate students and researchers who wish to expand their knowledge of the Monte Carlo technique.
Book Description
The use of Bayesian methods for the analysis of data has grown substantially in areas as diverse as applied statistics, psychology, economics and medical science. Bayesian Methods for Categorical Data sets out to demystify modern Bayesian methods, making them accessible to students and researchers alike. Emphasizing the use of statistical computing and applied data analysis, this book provides a comprehensive introduction to Bayesian methods of categorical outcomes.
* Reviews recent Bayesian methodology for categorical outcomes (binary, count and multinomial data).
* Considers missing data models techniques and non-standard models (ZIP and negative binomial).
* Evaluates time series and spatio-temporal models for discrete data.
* Features discussion of univariate and multivariate techniques.
* Provides a set of downloadable worked examples with documented WinBUGS code, available from an ftp site.
The author's previous 2 bestselling titles provided a comprehensive introduction to the theory and application of Bayesian models. Bayesian Models for Categorical Data continues to build upon this foundation by developing their application to categorical, or discrete data - one of the most common types of data available. The author's clear and logical approach makes the book accessible to a wide range of students and practitioners, including those dealing with categorical data in medicine, sociology, psychology and epidemiology.
Download Description
The use of Bayesian methods for the analysis of data has grown substantially in areas as diverse as applied statistics, psychology, economics and medical science. Bayesian Methods for Categorical Data sets out to demystify modern Bayesian methods, making them accessible to students and researchers alike. Emphasizing the use of statistical computing and applied data analysis, this book provides a comprehensive introduction to Bayesian methods of categorical outcomes. Reviews recent Bayesian methodology for categorical outcomes (binary, count and multinomial data). Considers missing data models techniques and non-standard models (ZIP and negative binomial). Evaluates time series and spatio-temporal models for discrete data. Features discussion of univariate and multivariate techniques. Provides a set of downloadable worked examples with documented WinBUGS code, available from an ftp site. The author's previous 2 bestselling titles provided a comprehensive introduction to the theory and application of Bayesian models. Bayesian Models for Categorical Data continues to build upon this foundation by developing their application to categorical, or discrete data & one of the most common types of data available. The author's clear and logical approach makes the book accessible to a wide range of students and practitioners, including those dealing with categorical data in medicine, sociology, psychology and epidemiology.
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Likelihood, Bayesian and MCMC Methods in Quantitative Genetics
Daniel Sorensen
Manufacturer: Springer
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Mathematical and Statistical Methods for Genetic Analysis
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Statistical Approach to Genetic Epidemiology: Concepts and Applications
ASIN: 0387954406 |
Book Description
Over the last ten years the introduction of computer intensive statistical methods has opened new horizons concerning the probability models that can be fitted to genetic data, the scale of the problems that can be tackled and the nature of the questions that can be posed. In particular, the application of Bayesian and likelihood methods to statistical genetics has been facilitated enormously by these methods. Techniques generally referred to as Markov chain Monte Carlo (MCMC) have played a major role in this process, stimulating synergies among scientists in different fields, such as mathematicians, probabilists, statisticians, computer scientists and statistical geneticists. Specifically, the MCMC "revolution" has made a deep impact in quantitative genetics. This can be seen, for example, in the vast number of papers dealing with complex hierarchical models and models for detection of genes affecting quantitative or meristic traits in plants, animals and humans that have been published recently. This book, suitable for numerate biologists and for applied statisticians, provides the foundations of likelihood, Bayesian and MCMC methods in the context of genetic analysis of quantitative traits. Most students in biology and agriculture lack the formal background needed to learn these modern biometrical techniques. Although a number of excellent texts in these areas have become available in recent years, the basic ideas and tools are typically described in a technically demanding style, and have been written by and addressed to professional statisticians. For this reason, considerable more detail is offered than what may be warranted for a more mathematically apt audience. The book is divided into four parts. Part I gives a review of probability and distribution theory. Parts II and III present methods of inference and MCMC methods. Part IV discusses several models that can be applied in quantitative genetics, primarily from a Bayesian perspective. An effort has been made to relate biological to statistical parameters throughout, and examples are used profusely to motivate the developments. Daniel Sorensen is a Research Professor in Statistical Genetics, at the Department of Animal Breeding and Genetics in the Danish Institute of Agricultural Sciences. Daniel Gianola is Professor in the Animal Sciences, Biostatistics and Medical Informatics, and Dairy Science Departments of the University of Wisconsin-Madison. Gianola and Sorensen pioneered the introduction of Bayesian and MCMC methods in animal breeding. The authors have published and lectured extensively in applications of statistics to quantitative genetics.
Customer Reviews:
Highly recommended!.......2004-08-27
This book contains a wealth of well presented and organized information, which is not easy to find in texts of similar level. I especially enjoyed the style and clarity of presentation. Outstanding!
Book Description
This book provides an introduction to Monte Carlo simulations in classical statistical physics and is aimed both at students beginning work in the field and at more experienced researchers who wish to learn more about Monte Carlo methods. The material covered includes methods for both equilibrium and out of equilibrium systems, and common algorithms like the Metropolis and heat-bath algorithms are discussed in detail, as well as more sophisticated ones such as continuous time Monte Carlo, cluster algorithms, multigrid methods, entropic sampling and simulated tempering. Data analysis techniques are also explained starting with straightforward measurement and error-estimation techniques and progressing to topics such as the single and multiple histogram methods and finite size scaling. The last few chapters of the book are devoted to implementation issues, including discussions of such topics as lattice representations, efficient implementation of data structures, multispin coding, parallelization of Monte Carlo algorithms, and random number generation. At the end of the book the authors give a number of example programmes demonstrating the applications of these techniques to a variety of well-known models.
Customer Reviews:
A practical book on Monte Carlo in Stat. Phy........2006-07-11
Overall, it's an excellent book on the practice of Monte Carlo and the c++ code in appendix are very instructive (Random Number Generators, Solid Monte Carlo Routines, etc.). It does have certain weaknesses though.
1) Sometimes the description are trivial in principle but written in great details. For example, on Pg 58 on the exact methods (so-called 'efficient way') of calculating averaged quantities from simulation.
2) Most of the content are heuristic. The discussion of the whole book is based on practice, although you do find something looks like a rigious proof (but no in fact). By rigious, I mean the proof should be based on Markov Chain and related properties of random process and statistical physics.
But as I said in the beginning, this is a invaluable book to anyone who wants to use Monte Carlo method in his/her domain. For myself, I am using this book as a reference to tackle functional optimization - Simulated Annealing, which is a very close sibling of Monte Carlo method.
One of the best and up-to-date books in market.......2000-03-27
This book covers a wide range of applications in Statistical Mechanics, with clear explanation, examples, tips, algorithms, and explicit programs at the end of the book. It is good for beginners and experienced alike, since it discusses "classical" and modern algorithms. It is a must for those who want to make actual numerical calculations in Statistical Physics.
Book Description
This new and updated edition deals with all aspects of Monte Carlo simulation of complex physical systems encountered in condensed-matter physics, statistical mechanics, and related fields. After briefly recalling essential background in statistical mechanics and probability theory, it gives a succinct overview of simple sampling methods. The concepts behind the simulation algorithms are explained comprehensively, as are the techniques for efficient evaluation of system configurations generated by simulation. It contains many applications, examples, and exercises to help the reader and provides many new references to more specialized literature. This edition includes a brief overview of other methods of computer simulation and an outlook for the use of Monte Carlo simulations in disciplines beyond physics. This is an excellent guide for graduate students and researchers who use computer simulations in their research. It can be used as a textbook for graduate courses on computer simulations in physics and related disciplines.
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