Statistical Analysis of Microbiome Data with R

Description

This unique book addresses the statistical modelling and analysis of microbiome data using cutting-edge R software. It includes real-world data from the authors’ research and from the public domain, and discusses the implementation of R for data analysis step by step. The data and R computer programs are publicly available, allowing readers to replicate the model development and data analysis presented in each chapter, so that these new methods can be readily applied in their own research. The book also discusses recent developments in statistical modelling and data analysis in microbiome research, as well as the latest advances in next-generation sequencing and big data in methodological development and applications. This timely book will greatly benefit all readers involved in microbiome, ecology and microarray data analyses, as well as other fields of research. Front Matter ....Pages i-xxiii Bioinformatic Analysis of Microbiome Data (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 1-27 What Are Microbiome Data? (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 29-41 Introductory Overview of Statistical Analysis of Microbiome Data (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 43-75 Introduction to R, RStudio and ggplot2 (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 77-127 Power and Sample Size Calculations for Microbiome Data (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 129-166 Community Diversity Measures and Calculations (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 167-190 Exploratory Analysis of Microbiome Data and Beyond (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 191-249 Univariate Community Analysis (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 251-283 Multivariate Community Analysis (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 285-330 Compositional Analysis of Microbiome Data (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 331-393 Modeling Over-Dispersed Microbiome Data (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 395-451 Modeling Zero-Inflated Microbiome Data (Yinglin Xia, Jun Sun, Ding-Geng Chen)....Pages 453-496 Back Matter ....Pages 497-505