Developed by Jean-Paul Benzérci more than 30 years ago, correspondence analysis as a framework for analyzing data quickly found widespread popularity in Europe. The topicality and importance of correspondence analysis continue, and with the tremendous computing power now available and new fields of application emerging, its significance is greater than ever. Correspondence Analysis and Data Coding with Java and R clearly demonstrates why this technique remains important and in the eyes of many, unsurpassed as an analysis framework. After presenting some historical background, the author presents a theoretical overview of the mathematics and underlying algorithms of correspondence analysis and hierarchical clustering. The focus then shifts to data coding, with a survey of the widely varied possibilities correspondence analysis offers and introduction of the Java software for correspondence analysis, clustering, and interpretation tools. A chapter of case studies follows, wherein the author explores applications to areas such as shape analysis and time-evolving data. The final chapter reviews the wealth of studies on textual content as well as textual form, carried out by Benzécri and his research lab. These discussions show the importance of correspondence analysis to artificial intelligence as well as to stylometry and other fields. This book not only shows why correspondence analysis is important, but with a clear presentation replete with advice and guidance, also shows how to put this technique into practice. Downloadable software and data sets allow quick, hands-on exploration of innovative correspondence analysis applications.
Due to its data handling and modeling capabilities as well as its flexibility, R is becoming the most widely used software in bioinformatics. R Programming for Bioinformatics explores the programming skills needed to use this software tool for the solution of bioinformatics and computational biology problems. Drawing on the author’s first-hand experiences as an expert in R, the book begins with coverage on the general properties of the R language, several unique programming aspects of R, and object-oriented programming in R. It presents methods for data input and output as well as database interactions. The author also examines different facets of string handling and manipulations, discusses the interfacing of R with other languages, and describes how to write software packages. He concludes with a discussion on the debugging and profiling of R code. With numerous examples and exercises, this practical guide focuses on developing R programming skills in order to tackle problems encountered in bioinformatics and computational biology.
Praise for the Second Edition: "The authors present an intuitive and easy-to-read book. ... accompanied by many examples, proposed exercises, good references, and comprehensive appendices that initiate the reader unfamiliar with MATLAB." —Adolfo Alvarez Pinto, International Statistical Review "Practitioners of EDA who use MATLAB will want a copy of this book. ... The authors have done a great service by bringing together so many EDA routines, but their main accomplishment in this dynamic text is providing the understanding and tools to do EDA. —David A Huckaby, MAA Reviews Exploratory Data Analysis (EDA) is an important part of the data analysis process. The methods presented in this text are ones that should be in the toolkit of every data scientist. As computational sophistication has increased and data sets have grown in size and complexity, EDA has become an even more important process for visualizing and summarizing data before making assumptions to generate hypotheses and models. Exploratory Data Analysis with MATLAB, Third Edition presents EDA methods from a computational perspective and uses numerous examples and applications to show how the methods are used in practice. The authors use MATLAB code, pseudo-code, and algorithm descriptions to illustrate the concepts. The MATLAB code for examples, data sets, and the EDA Toolbox are available for download on the book’s website. New to the Third Edition Random projections and estimating local intrinsic dimensionality Deep learning autoencoders and stochastic neighbor embedding Minimum spanning tree and additional cluster validity indices Kernel density estimation Plots for visualizing data distributions, such as beanplots and violin plots A chapter on visualizing categorical data
Visualization and Verbalization of Data shows how correspondence analysis and related techniques enable the display of data in graphical form, which results in the verbalization of the structures in data. Renowned researchers in the field trace the history of these techniques and cover their current applications. The first part of the book explains the historical origins of correspondence analysis and associated methods. The second part concentrates on the contributions made by the school of Jean-Paul Benzécri and related movements, such as social space and geometric data analysis. Although these topics are viewed from a French perspective, the book makes them understandable to an international audience. Throughout the text, well-known experts illustrate the use of the methods in practice. Examples include the spatial visualization of multivariate data, cluster analysis in computer science, the transformation of a textual data set into numerical data, the use of quantitative and qualitative variables in multiple factor analysis, different possibilities of recoding data prior to visualization, and the application of duality diagram theory to the analysis of a contingency table.
As a generalization of simple correspondence analysis, multiple correspondence analysis (MCA) is a powerful technique for handling larger, more complex datasets, including the high-dimensional categorical data often encountered in the social sciences, marketing, health economics, and biomedical research. Until now, however, the literature on the subject has been scattered, leaving many in these fields no comprehensive resource from which to learn its theory, applications, and implementation. Multiple Correspondence Analysis and Related Methods gives a state-of-the-art description of this new field in an accessible, self-contained, textbook format. Explaining the methodology step-by-step, it offers an exhaustive survey of the different approaches taken by researchers from different statistical "schools" and explores a wide variety of application areas. Each chapter includes empirical examples that provide a practical understanding of the method and its interpretation, and most chapters end with a "Software Note" that discusses software and computational aspects. An appendix at the end of the book gives further computing details along with code written in the R language for performing MCA and related techniques. The code and the datasets used in the book are available for download from a supporting Web page. Providing a unique, multidisciplinary perspective, experts in MCA from both statistics and the social sciences contributed chapters to the book. The editors unified the notation and coordinated and cross-referenced the theory across all of the chapters, making the book read seamlessly. Practical, accessible, and thorough, Multiple Correspondence Analysis and Related Methods brings the theory and applications of MCA under one cover and provides a valuable addition to your statistical toolbox.
Researchers in fields ranging from biology and medicine to the social sciences, law, and economics regularly encounter variables that are discrete or categorical in nature. While there is no dearth of books on the analysis and interpretation of such data, these generally focus on large sample methods. When sample sizes are not large or the data are otherwise sparse, exact methods--methods not based on asymptotic theory--are more accurate and therefore preferable. This book introduces the statistical theory, analysis methods, and computation techniques for exact analysis of discrete data. After reviewing the relevant discrete distributions, the author develops the exact methods from the ground up in a conceptually integrated manner. The topics covered range from univariate discrete data analysis, a single and several 2 x 2 tables, a single and several 2 x K tables, incidence density and inverse sampling designs, unmatched and matched case -control studies, paired binary and trinomial response models, and Markov chain data. While most chapters focus on statistical theory and applications, three chapters deal exclusively with computational issues. Detailed worked examples appear throughout the book, and each chapter includes an extensive problem set. Written at an elementary to intermediate level, Exact Analysis of Discrete Data is accessible to anyone having taken a basic course in statistics or biostatistics, bringing to them valuable material previously buried in specialized journals.
R is revolutionizing the world of statistical computing. Powerful, flexible, and best of all free, R is now the program of choice for tens of thousands of statisticians. Destined to become an instant classic, R Graphics presents the first complete, authoritative exposition on the R graphical system. Paul Murrell, widely known as the leading expert on R graphics, has developed an in-depth resource that takes nothing for granted and helps both neophyte and seasoned users master the intricacies of R graphics. After an introductory overview of R graphics facilities, the presentation first focuses on the traditional graphics system, showing how to work the traditional functions, describing functions that are available to produce complete plots, and how to customize the details of plots. The second part of the book describes the grid graphics system - a system unique to R and much more powerful than the traditional system. The author, who was integral in the development of the grid system, shows, starting from a blank page, how it can be used to produce graphical scenes. He also describes how to develop new graphical functions that are easy for others to use and build on. Appendices contain a brief introduction to the R system in general and discuss how the traditional and grid graphics systems can be combined. Much of the information presented in this book cannot be found anywhere else. Well ahead of the curve, particularly regarding the grid system, R Graphics will have a major impact on the future direction of statistical graphics development. The author maintains a website with more information.
Lucidly Integrates Current Activities Focusing on both fundamentals and recent advances, Introduction to Machine Learning and Bioinformatics presents an informative and accessible account of the ways in which these two increasingly intertwined areas relate to each other. Examines Connections between Machine Learning & Bioinformatics The book begins with a brief historical overview of the technological developments in biology. It then describes the main problems in bioinformatics and the fundamental concepts and algorithms of machine learning. After forming this foundation, the authors explore how machine learning techniques apply to bioinformatics problems, such as electron density map interpretation, biclustering, DNA sequence analysis, and tumor classification. They also include exercises at the end of some chapters and offer supplementary materials on their website. Explores How Machine Learning Techniques Can Help Solve Bioinformatics Problems Shedding light on aspects of both machine learning and bioinformatics, this text shows how the innovative tools and techniques of machine learning help extract knowledge from the deluge of information produced by today’s biological experiments.
Author: Michael J. Crawley
Publisher: John Wiley & Sons
Release Date: 2012-11-07
Hugely successful and popular text presenting an extensive and comprehensive guide for all R users The R language is recognized as one of the most powerful and flexible statistical software packages, enabling users to apply many statistical techniques that would be impossible without such software to help implement such large data sets. R has become an essential tool for understanding and carrying out research. This edition: Features full colour text and extensive graphics throughout. Introduces a clear structure with numbered section headings to help readers locate information more efficiently. Looks at the evolution of R over the past five years. Features a new chapter on Bayesian Analysis and Meta-Analysis. Presents a fully revised and updated bibliography and reference section. Is supported by an accompanying website allowing examples from the text to be run by the user. Praise for the first edition: ‘…if you are an R user or wannabe R user, this text is the one that should be on your shelf. The breadth of topics covered is unsurpassed when it comes to texts on data analysis in R.’ (The American Statistician, August 2008) ‘The High-level software language of R is setting standards in quantitative analysis. And now anybody can get to grips with it thanks to The R Book…’ (Professional Pensions, July 2007)
Author: Fang Kai Tai
Publisher: Chapman & Hall
Release Date: 2006
Computer simulations based on mathematical models have become ubiquitous across the engineering disciplines and throughout the physical sciences. Successful use of a simulation model, however, requires careful interrogation of the model through systematic computer experiments. While specific theoretical/mathematical examinations of computer experiment design are available, those interested in applying proposed methodologies need a practical presentation and straightforward guidance on analyzing and interpreting experiment results. Written by authors with strong academic reputations and real-world practical experience, Design and Modeling for Computer Experiments is exactly the kind of treatment you need. The authors blend a sound, modern statistical approach with extensive engineering applications and clearly delineate the steps required to successfully model a problem and provide an analysis that will help find the solution. Part I introduces the design and modeling of computer experiments and the basic concepts used throughout the book. Part II focuses on the design of computer experiments. The authors present the most popular space-filling designs - like Latin hypercube sampling and its modifications and uniform design - including their definitions, properties, construction and related generating algorithms. Part III discusses the modeling of data from computer experiments. Here the authors present various modeling techniques and discuss model interpretation, including sensitivity analysis. An appendix reviews the statistics and mathematics concepts needed, and numerous examples clarify the techniques and their implementation. The complexity of real physical systems means that there is usually no simple analytic formula that sufficiently describes the phenomena. Useful both as a textbook and professional reference, this book presents the techniques you need to design and model computer experiments for practical problem solving.
The subject of this conference was recent developments in p-adic mathematical physics and related areas. The field of p-Adic mathematical physics was conceived in 1987 as a result of attempts to find non-Archimedean approaches to space-time at the Planck scale as well as to strings. Since then, many applications of p-adic numbers and adeles in physics and related sciences have emerged. Some of them are p-adic and adelic string theory, p-adic and adelic quantum mechanics and quantum field theory, ultrametricity of spin glasses, biological and hierarchical systems, p-adic dynamical systems, p-adic probability theory, p-adic models of cognitive processes and cryptography, as well as p-adic and adelic cosmology.
Author: Steven P. Abney
Publisher: CRC Press
Release Date: 2008
Genre: Business & Economics
Computational linguistics is a form of artificial intelligence that involves machines that understands speech/text. Semi-supervised learning methods play an increasingly important role in computational linguistics, as neither supervised nor unsupervised learning techniques are appropriate for the data involved. With a balance between theory and application approaches, "Semi-Supervised Learning in Computational Linguistics" provides an overview of these methods, focusing on applications in speech/pattern recognition, information extraction, and image processing. The book includes pseudocode to enable practical applications and critically evaluates each technique described in the text.
Quantification of categorical, or non-numerical, data is a problem that scientists face across a wide range of disciplines. Exploring data analysis in various areas of research, such as the social sciences and biology, Multidimensional Nonlinear Descriptive Analysis presents methods for analyzing categorical data that are not necessarily sampled randomly from a normal population and often involve nonlinear relations. This reference not only provides an overview of multidimensional nonlinear descriptive analysis (MUNDA) of discrete data, it also offers new results in a variety of fields. The first part of the book covers conceptual and technical preliminaries needed to understand the data analysis in subsequent chapters. The next two parts contain applications of MUNDA to diverse data types, with each chapter devoted to one type of categorical data, a brief historical comment, and basic skills peculiar to the data types. The final part examines several problems and then concludes with suggestions for future progress. Covering both the early and later years of MUNDA research in the social sciences, psychology, ecology, biology, and statistics, this book provides a framework for potential developments in even more areas of study.
Interactive Graphics for Data Analysis: Principles and Examples discusses exploratory data analysis (EDA) and how interactive graphical methods can help gain insights as well as generate new questions and hypotheses from datasets. Fundamentals of Interactive Statistical Graphics The first part of the book summarizes principles and methodology, demonstrating how the different graphical representations of variables of a dataset are effectively used in an interactive setting. The authors introduce the most important plots and their interactive controls. They also examine various types of data, relations between variables, and plot ensembles. Case Studies Illustrate the Principles The second section focuses on nine case studies. Each case study describes the background, lists the main goals of the analysis and the variables in the dataset, shows what further numerical procedures can add to the graphical analysis, and summarizes important findings. Wherever applicable, the authors also provide the numerical analysis for datasets found in Cox and Snell’s landmark book. Understand How to Analyze Data through Graphical Means This full-color text shows that interactive graphical methods complement the traditional statistical toolbox to achieve more complete, easier to understand, and easier to interpret analyses.