Preface to First Edition - lib

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14.4 Regression relationship between S-Ne criterion and rainfallwith and without seeding. The confidence bands cover thearea within the dashed curves. 26515.1 R output of the summary method for smokingOR. 27415.2 Forest plot of observed effect sizes and 95% confidenceintervals for the nicotine gum studies. 27515.3 R output of the summary method for BCG_OR. 27715.4 R output of the summary method for BCG_DSL. 27815.5 R output of the summary method for BCG_mod. 27915.6 Plot of observed effect size for the BCG vaccine data againstlatitude, with a weighted least squares regression fit shown inaddition. 28015.7 Example funnel plots from simulated data. The asymmetryin the lower plot is a hint that a publication bias might be aproblem. 28115.8 Funnel plot for nicotine gum data. 28216.1 Scatterplot matrix for the heptathlon data (all countries). 28916.2 Scatterplot matrix for the heptathlon data after removingobservations of the PNG competi<strong>to</strong>r. 29116.3 Barplot of the variances explained by the principal components.(with observations for PNG removed). 29416.4 Biplot of the (scaled) first two principal components (withobservations for PNG removed). 29516.5 Scatterplot of the score assigned <strong>to</strong> each athlete in 1988 andthe first principal component. 29617.1 Two-dimensional solution from classical multidimensionalscaling of distance matrix for water vole populations. 30617.2 Minimum spanning tree for the watervoles data. 30817.3 Two-dimensional solution from non-metric multidimensionalscaling of distance matrix for voting matrix. 30917.4 The Shepard diagram for the voting data shows somediscrepancies between the original dissimilarities and themultidimensional scaling solution. 31018.1 Bivariate data showing the presence of three clusters. 31918.2 Example of a dendrogram. 32118.3 Darwin’s Tree of Life. 32218.4 Image plot of the dissimilarity matrix of the pottery data. 32618.5 Hierarchical clustering of pottery data and resulting dendrograms.32718.6 3D scatterplot of the logarithms of the three variablesavailable for each of the exoplanets. 328© 2010 by Taylor and Francis Group, LLC
18.7 Within-cluster sum of squares for different numbers of clustersfor the exoplanet data. 32918.8 Plot of BIC values for a variety of models and a range ofnumber of clusters. 33118.9 Scatterplot matrix of planets data showing a three-clustersolution from Mclust. 33218.10 3D scatterplot of planets data showing a three-cluster solutionfrom Mclust. 333© 2010 by Taylor and Francis Group, LLC
Page 3 and 4: A Handbook ofStatisticalAnalysesUsi
Page 5 and 6: DedicationTo our wives, Mary-Elizab
Page 7 and 8: Preface to First EditionThis book i
Page 9 and 10: List of Figures1.1 Histograms of th
Page 11 and 12: 6.8 Normal probability plot of resi
Page 13: 12.2 R output of the linear mixed-e
Page 17 and 18: 4.6 Lanza data. Misoprostol randomi
Page 19 and 20: 15.2 BCG data. Meta-analysis on BCG
Page 21 and 22: 6 Simple and Multiple Linear Regres
Page 23 and 24: CHAPTER 1An Introduction to R1.1 Wh
Page 25 and 26: INSTALLING R 3One can change the ap
Page 27 and 28: DATA OBJECTS IN R 5http://CRAN.R-pr
Page 29 and 30: DATA OBJECTS IN R 7R> help("Forbes2
Page 31 and 32: DATA IMPORT AND EXPORT 9As a simple
Page 33 and 34: BASIC DATA MANIPULATION 11The funct
Page 35 and 36: BASIC DATA MANIPULATION 13name sale
Page 37 and 38: COMPUTING WITH DATA 15Max. : 20.960
Page 39 and 40: COMPUTING WITH DATA 17Error in quan
Page 41 and 42: COMPUTING WITH DATA 19R> layout(mat
Page 43 and 44: © 2010 by Taylor and Francis Group
Page 45 and 46: SUMMARY 23examples of these functio
Page 47 and 48: 26 DATA ANALYSIS USING GRAPHICAL DI
Page 49 and 50: Table 2.2:CHFLS data. Chinese Healt
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CHAPTER 3Simple Inference: Guessing
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INTRODUCTION 47table. Here there ar
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STATISTICAL TESTS 49Table 3.4:pisto
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STATISTICAL TESTS 51assumed to have
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ANALYSIS USING R 53procedure is McN
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ANALYSIS USING R 551 R> layout(matr
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ANALYSIS USING R 57R> wilcox.test(I
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ANALYSIS USING R 59R> t.test(moorin
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ANALYSIS USING R 61R> cor.test(~ mo
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SUMMARY 63R> mcnemar.test(rearrests
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CHAPTER 4Conditional Inference: Gue
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INTRODUCTION 67Table 4.4:Lanza data
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CONDITIONAL TEST PROCEDURES 69and x
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ANALYSIS USING R 71R> hist(meandiff
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ANALYSIS USING R 73R> wilcox_test(y
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ANALYSIS USING R 75For the first st
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SUMMARY 77R> mh_test(anomalies)Asym
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CHAPTER 5Analysis of Variance: Weig
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INTRODUCTION 81The data in Table 5.
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ANALYSIS USING R 83set out in the f
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ANALYSIS USING R 85being far more t
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ANALYSIS USING R 87R> plot.design(f
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ANALYSIS USING R 89always be the ca
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ANALYSIS USING R 91The cbind statem
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ANALYSIS USING R 93Df Roy approx F
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SUMMARY 95Table 5.4:schooldays data
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CHAPTER 6Simple and Multiple Linear
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SIMPLE LINEAR REGRESSION 99hours be
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MULTIPLE LINEAR REGRESSION 101The e
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ANALYSIS USING R 1036.3.1 Regressio
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ANALYSIS USING R 105R> layout(matri
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ANALYSIS USING R 107R> data("clouds
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ANALYSIS USING R 109R> summary(clou
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ANALYSIS USING R 111R> psymb plot(
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SUMMARY 113R> plot(clouds_fitted, c
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SUMMARY 115R> plot(clouds_lm)Cook's
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CHAPTER 7Logistic Regression and Ge
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INTRODUCTION 119Table 7.2:womensrol
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LOGISTIC REGRESSION AND GENERALISED
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ANALYSIS USING R 123R> data("plasma
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ANALYSIS USING R 125R> summary(plas
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ANALYSIS USING R 1277.3.2 Women’s
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ANALYSIS USING R 129R> myplot(role.
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ANALYSIS USING R 131R> role.fitted2
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ANALYSIS USING R 133R> summary(poly
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ANALYSIS USING R 1357.3.4 Driving a
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SUMMARY 137Table 7.5:bladdercancer
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CHAPTER 8Density Estimation: Erupti
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DENSITY ESTIMATION 141The Hertzspru
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DENSITY ESTIMATION 143rectangular:
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DENSITY ESTIMATION 1451 R> plot(xgr
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ANALYSIS USING R 1478.3 Analysis Us
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2.2ANALYSIS USING R 149R> library("
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ANALYSIS USING R 1510.360891 54.612
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ANALYSIS USING R 153The results are
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SUMMARY 155R> layout(matrix(1:2, nc
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SUMMARY 157Table 8.4: birthdeathrat
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SUMMARY 159Table 8.5:schizophrenia
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162 RECURSIVE PARTITIONINGTable 9.1
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164 RECURSIVE PARTITIONINGBoth sets
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166 RECURSIVE PARTITIONINGR> librar
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168 RECURSIVE PARTITIONINGR> DEXfat
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170 RECURSIVE PARTITIONINGOne way o
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172 RECURSIVE PARTITIONINGR> librar
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174 RECURSIVE PARTITIONINGR> plot(g
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CHAPTER 10Scatterplot Smoothers and
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INTRODUCTION 179Table 10.2:USairpol
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SMOOTHERS AND GENERALISED ADDITIVE
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ANALYSIS USING R 187R> plot(time ~
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ANALYSIS USING R 189R> x y men150
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ANALYSIS USING R 191R> USair_gam l
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ANALYSIS USING R 193R> layout(matri
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ANALYSIS USING R 195ter 9) where th
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198 SURVIVAL ANALYSISTable 11.1:gli
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200 SURVIVAL ANALYSISspect to time
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202 SURVIVAL ANALYSISHazard0.00 0.0
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204 SURVIVAL ANALYSISIn the Cox mod
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206 SURVIVAL ANALYSISExact Logrank
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208 SURVIVAL ANALYSISR> summary(GBS
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210 SURVIVAL ANALYSISR> layout(matr
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212 SURVIVAL ANALYSISmodels includi
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214 ANALYSING LONGITUDINAL DATA Iti
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216 ANALYSING LONGITUDINAL DATA ITa
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218 ANALYSING LONGITUDINAL DATA Iot
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220 ANALYSING LONGITUDINAL DATA IR>
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226 ANALYSING LONGITUDINAL DATA IKe
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228 ANALYSING LONGITUDINAL DATA Ido
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CHAPTER 13Analysing Longitudinal Da
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METHODS FOR NON-NORMAL DISTRIBUTION
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ANALYSIS USING R: GEE 239R> summary
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ANALYSIS USING R: GEE 245R> layout(
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ANALYSIS USING R: RANDOM EFFECTS 24
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ANALYSIS USING R: RANDOM EFFECTS 24
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SUMMARY 251Table 13.3:schizophrenia
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254 SIMULTANEOUS INFERENCE AND MULT
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CHAPTER 15Meta-Analysis: Nicotine G
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SYSTEMATIC REVIEWS AND META-ANALYSI
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STATISTICS OF META-ANALYSIS 271Sele
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ANALYSIS USING R 273the parameters
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ANALYSIS USING R 275R> plot(smoking
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PUBLICATION BIAS 277R> summary(BCG_
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SUMMARY 279R> summary(BCG_mod)Call:
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SUMMARY 2811 / standard error2 4 6
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Table 15.4:aspirin data. Meta-analy
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CHAPTER 16Principal Component Analy
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PRINCIPAL COMPONENT ANALYSIS 287nie
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ANALYSIS USING R 289R> score plot(
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ANALYSIS USING R 291R> score plot(
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ANALYSIS USING R 293Yuping (CHN) Ha
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SUMMARY 295R> biplot(heptathlon_pca
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SUMMARY 297rainJuly: rainfall in Ju
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Table 17.1:watervoles data. Water v
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302 MULTIDIMENSIONAL SCALINGn in nu
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304 MULTIDIMENSIONAL SCALINGwill be
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306 MULTIDIMENSIONAL SCALINGR> x y
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308 MULTIDIMENSIONAL SCALINGR> libr
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310 MULTIDIMENSIONAL SCALINGR> plot
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Table 17.3:eurodist data (package d
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CHAPTER 18Cluster Analysis: Classif
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INTRODUCTION 317mass, mass), the pe
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CLUSTER ANALYSIS 319x 20 2 4 6 8 10
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CLUSTER ANALYSIS 32141031678925Figu
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CLUSTER ANALYSIS 3231. Find some in
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ANALYSIS USING R 32518.3 Analysis U
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ANALYSIS USING R 327R> pottery_sing
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ANALYSIS USING R 329R> rge planet.
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ANALYSIS USING R 331R> plot(planet_
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ANALYSIS USING R 333R> scatterplot3
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BibliographyAdler, D. and Murdoch,
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BIBLIOGRAPHY 337Chambers, J. M. and
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BIBLIOGRAPHY 339Everitt, B. S. and
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BIBLIOGRAPHY 341Heitjan, D. F. (199
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BIBLIOGRAPHY 343Leisch, F. and Ross
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BIBLIOGRAPHY 345Proudfoot, J., Gold
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BIBLIOGRAPHY 347Stevens, J. (2001),
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