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A Handbook of Statistical Analyses Using R Brian S. Everitt and Torsten Hothorn Preface This book is intended as a guide to data analysis with the R system for sta- tistical computing. R is an environment incorporating an implementation of the S programming language, which is powerful, flexible and has excellent graphical facilities (R Development Core Team, 2005) . In the Handbook we aim to give relatively brief and straightforward descriptions of how to conduct a range of statistical analyses using R. Each chapter deals with the analysis appropriate for one or several data sets. A brief account of the relevant statisti- cal background is included in each chapter along with appropriate references, but our prime focus is on how to use R and how to interpret results. We hope the book will provide students and researchers in many disciplines with a self-contained means of using R to analyse their data. R is an open-source project developed by dozens of volunteers for more than ten years now and is available from the Internet under the General Public Licence. R has become the lingua franca of statistical computing. Increasingly, implementations of new statistical methodology first appear as R add-on packages. In some com- munities, such as in bioinformatics, R already is the primary workhorse for statistical analyses. Because the sources of the R system are open and avail- able to everyone without restrictions and because of its powerful language and graphical capabilities, R has started to become the main computing engine for reproducible statistical research (Leisch, 2002a,b, 2003, Leisch and Rossini, 2003, Gentleman, 2005) . For a reproducible piece of research, the original observations, all data preprocessing steps, the statistical analysis as well as the scientific report form a unity and all need to be available for inspection, reproduction and modification by the readers. Reproducibility is a natural re- quirement for textbooks such as the ‘Handbook of Statistical Analyses Using R’ and therefore this book is fully reproducible using an R version greater or equal to 2.5.0. All analyses and results, including figures and tables, can be reproduced by the reader without having to retype a single line of R code. The data sets presented in this book are collected in a dedicated add-on package called HSAUR accompanying this book. The package can be installed from the Comprehensive R Archive Network (CRAN) via R install.packages("HSAUR") and its functionality is attached by R library("HSAUR") The relevant parts of each chapter are available as a vignette, basically a
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