Programming with R - Part1

R for SAS and SPSS Users. Springer Series in Statistics and Computing. Springer, 2009
ISBN: 978-0-387-09417-5
by Robert A. Muenchen
This book demonstrates which of the add-on packages are most like SAS and SPSS and compares them to R's built-in functions. It steps through over 30 programs written in all three packages, comparing and contrasting the packages' differing approaches. The programs and practice datasets are available for download.

Product Description:

R is a powerful and free software system for data analysis and graphics, with over 1,200 add-on packages available. This book introduces R using SAS and SPSS terms with which you are already familiar. It demonstrates which of the add-on packages are most like SAS and SPSS and compares them to R’s built-in functions. It steps through over 30 programs written in all three packages, comparing and contrasting the packages’ differing approaches. The programs and practice datasets are available for download.

The glossary defines over 50 R terms using SAS/SPSS jargon and again using R jargon. The table of contents and the index allow you to find equivalent R functions by looking up both SAS statements and SPSS commands. When finished, you will be able to import data, manage and transform it, create publication quality graphics, and perform basic statistical analysis.

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A First Course in Bayesian Statistical Methods
by Peter D. Hoff

This book provides a compact self-contained introduction to the theory and application of Bayesian statistical methods. The book is accessible to readers with only a basic familiarity with probability, yet allows more advanced readers to quickly grasp the principles underlying Bayesian theory and methods. R code is provided throughout the text. Much of the example code can be run “as is” in R, and essentially all of it can be run after downloading the relevant datasets from the companion website for this book.

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Introductory Time Series with R
by Paul S.P. Cowpertwait

This book gives you a step-by-step introduction to analysing time series using the open source software R. Once the model has been introduced it is used to generate synthetic data, using R code, and these generated data are then used to estimate its parameters. This sequence confirms understanding of both the model and the R routine for fitting it to the data. Finally, the model is applied to an analysis of a historical data set. By using R, the whole procedure can be reproduced by the reader. All the data sets used in the book are available on the website http://www.massey.ac.nz/~pscowper/ts. The book is written for undergraduate students of mathematics, economics, business and finance, geography, engineering and related disciplines, and postgraduate students who may need to analyze time series as part of their taught program or their research.

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A Primer of Ecology with R (Use R)
by M. Henry H. Stevens

This book combines an introduction to the major theoretical concepts in general ecology with the programming language R, a cutting edge Open Source tool. Starting with geometric growth and proceeding through stability of multispecies interactions and species-abundance distributions, this book demystifies and explains fundamental ideas in population and community ecology. Graduate students in ecology, along with upper division undergraduates and faculty, will all find this to be a useful overview of important topics.

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Introduction to Multivariate Statistical Analysis in Chemometrics
by Kurt Varmuza

Using formal descriptions, graphical illustrations, practical examples, and R software tools, Introduction to Multivariate Statistical Analysis in Chemometrics presents simple yet thorough explanations of the most important multivariate statistical methods for analyzing chemical data. It includes discussions of various statistical methods, such as principal component analysis, regression analysis, classification methods, and clustering. Written by a chemometrician and a statistician, the book reflects both the practical approach of chemometrics and the more formally oriented one of statistics. To enable a better understanding of the statistical methods, the authors apply them to real data examples from chemistry. They also examine results of the different methods, comparing traditional approaches with their robust counterparts. In addition, the authors use the freely available R package to implement methods, encouraging readers to go through the examples and adapt the procedures to their own problems. Focusing on the practicality of the methods and the validity of the results, this book offers concise mathematical descriptions of many multivariate methods and employs graphical schemes to visualize key concepts. It effectively imparts a basic understanding of how to apply statistical methods to multivariate scientific data.

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Bayesian Computation With R, 2nd Edition
by Jim Albert

Bayesian Computing Using R introduces Bayesian modeling by the use of computation using the R language. T he early chapters present the basic tenets of Bayesian thinking by use of familiar one and two-parameter inferential problems. Bayesian computational methods such as Laplace's method, rejection sampling, and the SIR algorithm are illustrated in the context of a random effects model. The construction and implementation of Markov Chain Monte Carlo (MCMC) methods is introduced. These simulation-based algorithms are implemented for a variety of Bayesian applications such as normal and binary response regression, hierarchical modeling, order-restricted inference, and robust modeling. Algorithms written in R are used to develop Bayesian tests and assess Bayesian models by use of the posterior predictive distribution. The use of R to interface with WinBUGS, a popular MCMC computing language, is described with several illustrative examples. The second edition contains several new topics such as the use of mixtures of conjugate priors and the use of Zellner's g priors to choose between models in linear regression. There are more illustrations of the construction of informative prior distributions, such as the use of conditional means priors and multivariate normal priors in binary regressions. The new edition contains changes in the R code illustrations according to the latest edition of the LearnBayes package.

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Functional Data Analysis with R and MATLAB (Use R)
by J.O. Ramsay

This volume in the UseR! Series is aimed at a wide range of readers, and especially those who would like apply these techniques to their research problems. It complements Functional Data Analysis, Second Edition and Applied Functional Data Analysis: Methods and Case Studies by providing computer code in both the R and Matlab languages for a set of data analyses that showcase the functional data analysis. The authors make it easy to get up and running in new applications by adapting the code for the examples, and by being able to access the details of key functions within these pages. This book is accompanied by additional web-based support at http://www.functionaldata.org for applying existing functions and developing new ones in either language.

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Beautiful Data The Stories Behind Elegant Data Solutions
by Toby Segaran

This book will be useful to everyone who has struggled with displaying their data in an informative and attractive way. You will need some basic knowledge of R (i.e., you should be able to get your data into R), but ggplot2 is a mini-language specifically tailored for producing graphics, and you'll learn everything you need in the book. After reading this book you'll be able to produce graphics customized precisely for your problems, to and you'll find it easy to get graphics out of your head and on to the screen or page.

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Dynamic Linear Models with R (Use R)
by Giovanni Petris

After a detailed introduction to general state space models, this book focuses on dynamic linear models, emphasizing their Bayesian analysis. Whenever possible it is shown how to compute estimates and forecasts in closed form; for more complex models, simulation techniques are used. A final chapter covers modern sequential Monte Carlo algorithms. The book illustrates all the fundamental steps needed to use dynamic linear models in practice, using R. Many detailed examples based on real data sets are provided to show how to set up a specific model, estimate its parameters, and use it for forecasting. All the code used in the book is available online. No prior knowledge of Bayesian statistics or time series analysis is required, although familiarity with basic statistics and R is assumed.

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Nonlinear Regression with R (Use R)
by Christian Ritz

R is a rapidly evolving lingua franca of graphical display and statistical analysis of experiments from the applied sciences. Currently, R offers a wide range of functionality for nonlinear regression analysis, but the relevant functions, packages and documentation are scattered across the R environment. This book provides a coherent and unified treatment of nonlinear regression with R by means of examples from a diversity of applied sciences such as biology, chemistry, engineering, medicine and toxicology. The book starts out giving a basic introduction to fitting nonlinear regression models in R. Subsequent chapters explain the salient features of the main fitting function nls(), the use of model diagnostics, how to deal with various model departures, and carry out hypothesis testing. In the final chapter grouped-data structures, including an example of a nonlinear mixed-effects regression model, are considered.

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Applied Statistical Genetics with R For Population-based Association Studies (Use R)
by Andrea S. Foulkes

In this introductory graduate level text, Dr. Foulkes elucidates core concepts that undergird the wide range of analytic techniques and software tools for the analysis of data derived from population-based genetic investigations. Applied Statistical Genetics with R offers a clear and cogent presentation of several fundamental statistical approaches that researchers from multiple disciplines, including medicine, public health, epidemiology, statistics and computer science, will find useful in exploring this emerging field.

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Mixed effects models and extensions in ecology with R
by Alain F. Zuur

Building on the successful Analysing Ecological Data (2007) by Zuur, Ieno and Smith, the authors now provide an expanded introduction to using regression and its extensions in analysing ecological data. As with the earlier book, real data sets from postgraduate ecological studies or research projects are used throughout. The first part of the book is a largely non-mathematical introduction to linear mixed effects modelling, GLM and GAM, zero inflated models, GEE, GLMM and GAMM. The second part provides ten case studies that range from koalas to deep sea research. These chapters provide an invaluable insight into analysing complex ecological datasets, including comparisons of different approaches to the same problem. By matching ecological questions and data structure to a case study, these chapters provide an excellent starting point to analysing your own data. Data and R code from all chapters are available from http://www.highstat.com.

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A Beginner's Guide to R (Use R)
by Alain F. Zuur

Based on their extensive experience with teaching R and statistics to applied scientists, the authors provide a beginner's guide to R. To avoid the difficulty of teaching R and statistics at the same time, statistical methods are kept to a minimum. The text covers how to download and install R, import and manage data, elementary plotting, an introduction to functions, advanced plotting, and common beginner mistakes. This book contains everything you need to know to get started with R.

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Simulation and Inference for Stochastic Differential Equations With R Examples
by Stefano M. Iacus

This book is very different from any other publication in the field and it is unique because of its focus on the practical implementation of the simulation and estimation methods presented. The book should be useful to practitioners and students with minimal mathematical background, but because of the many R programs, probably also to many mathematically well educated practitioners. Many of the methods presented in the book have, so far, not been used much in practice because the lack of an implementation in a unified framework. This book fills the gap. With the R code included in this book, a lot of useful methods become easy to use for practitioners and students. An R package called `sde' provides functionswith easy interfaces ready to be used on empirical data from real life applications. Although it contains a wide range of results, the book has an introductory character and necessarily does not cover the whole spectrum of simulation and inference for general stochastic differential equations. The book is organized in four chapters. The first one introduces the subject and presents several classes of processes used in many fields of mathematics, computational biology, finance and the social sciences. The second chapter is devoted to simulation schemes and covers new methods not available in other milestones publication known so far. The third one is focused on parametric estimation techniques. In particular, it includes exact likelihood inference, approximated and pseudo-likelihood methods, estimating functions, generalized method of moments and other techniques. The last chapter contains miscellaneous topics like nonparametric estimation, model identification and change point estimation. The reader non-expert in R language, will find a concise introduction to this environment focused on the subject of the book which should allow for instant use of the proposed material. To each R functions presented in the book a documentation page is available at the end of the book.

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