Discrete Data Analysis with R : Visualization and Modeling Techniques for Categorical and Count Data.

545 Pages·2015·177.19 MB·English

by  Friendly

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Discrete Data Analysis with R
Visualization and Modeling Techniques for
Categorical and Count Data
CHAPMAN & HALL/CRC
Texts in Statistical Science Series
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Julian J. Faraway, University of Bath, UK
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Texts in Statistical Science
Discrete Data Analysis with R
Visualization and Modeling Techniques for
Categorical and Count Data
Michael Friendly David Meyer
York University UAS Technikum Wien
Toronto, Canada Vienna, Austria
with contributions by
Achim Zeileis
University of Innsbruck
Innsbruck, Austria 1Introduc- 2Working
tion with
Categorical
Data
3Discrete
Distribu-
tions
I.Getting
Started
7Logistic
Regression
8Polyto- Models
mous
Responses
III. Discrete
9Loglinear Model- Data
andLogit building Analysis
Models
Methods with R
10
Extending
Loglinear 11
Models Generalized
Linear
Models
II.
Exploratory
4Two-way
Methods
Contin-
gency
Tables
6Corre- 5Mosaic
spondence Displays
Analysis
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Contents
Preface xiii
I Getting Started 1
1 Introduction 3
1.1 Datavisualizationandcategoricaldata: Overview . . . . . . . . . . . . . . 3
1.2 Whatiscategoricaldata? . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4
1.2.1 Caseformvs.frequencyform . . . . . . . . . . . . . . . . . . . . . . 5
1.2.2 Frequencydatavs.countdata . . . . . . . . . . . . . . . . . . . . . 6
1.2.3 Univariate,bivariate,andmultivariatedata . . . . . . . . . . . . . . . 7
1.2.4 Explanatoryvs.responsevariables . . . . . . . . . . . . . . . . . . . 7
1.3 Strategiesforcategoricaldataanalysis . . . . . . . . . . . . . . . . . . . . 8
1.3.1 Hypothesistestingapproaches . . . . . . . . . . . . . . . . . . . . . 8
1.3.2 Modelbuildingapproaches . . . . . . . . . . . . . . . . . . . . . . . 10
1.4 Graphicalmethodsforcategoricaldata . . . . . . . . . . . . . . . . . . . . 13
1.4.1 Goalsanddesignprinciplesforvisualdatadisplay . . . . . . . . . . 13
1.4.2 Categoricaldatarequiredifferentgraphicalmethods . . . . . . . . . 17
1.4.3 Effectorderingandrenderingfordatadisplay . . . . . . . . . . . . . 18
1.4.4 Interactiveanddynamicgraphics . . . . . . . . . . . . . . . . . . . . 21
1.4.5 Visualization=Graphing+Fitting+Graphing... . . . . . . . . . . . 22
1.4.6 Dataplots,modelplots,anddata+modelplots . . . . . . . . . . . . 25
1.4.7 The80–20rule . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26
1.5 Chaptersummary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 28
1.6 Labexercises . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 29
2 WorkingwithCategoricalData 31
2.1 WorkingwithRdata: vectors,matrices,arrays,anddataframes . . . . . . 32
2.1.1 Vectors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 32
2.1.2 Matrices . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 33
2.1.3 Arrays . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 35
2.1.4 Dataframes. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 37
2.2 Formsofcategoricaldata: caseform,frequencyform,andtableform . . . 39
2.2.1 Caseform . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 39
vii
viii Contents
2.2.2 Frequencyform . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 40
2.2.3 Tableform. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 41
2.3 Orderedfactorsandreorderedtables . . . . . . . . . . . . . . . . . . . . . 43
2.4 Generatingtables: tableandxtabs . . . . . . . . . . . . . . . . . . . . . . . 44
2.4.1 table() . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 44
2.4.2 xtabs() . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 46
2.5 Printingtables: structableandftable . . . . . . . . . . . . . . . . . . . . . . 47
2.5.1 Textoutput . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 47
2.6 Subsettingdata . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 48
2.6.1 Subsettingtables . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 48
2.6.2 Subsettingstructables . . . . . . . . . . . . . . . . . . . . . . . . . . 49
2.6.3 Subsettingdataframes . . . . . . . . . . . . . . . . . . . . . . . . . 50
2.7 Collapsingtables . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 51
2.7.1 Collapsingovertablefactors . . . . . . . . . . . . . . . . . . . . . . 51
2.7.2 Collapsingtablelevels . . . . . . . . . . . . . . . . . . . . . . . . . . 53
2.8 Convertingamongfrequencytablesanddataframes . . . . . . . . . . . . 53
2.8.1 Tableformtofrequencyform . . . . . . . . . . . . . . . . . . . . . . 54
2.8.2 Caseformtotableform . . . . . . . . . . . . . . . . . . . . . . . . . 55
2.8.3 Tableformtocaseform . . . . . . . . . . . . . . . . . . . . . . . . . 55
2.8.4 PublishingtablestoLATEXorHTML . . . . . . . . . . . . . . . . . . . 56
2.9 Acomplexexample: TVviewingdata(cid:63) . . . . . . . . . . . . . . . . . . . . . 58
2.9.1 Creatingdataframesandarrays . . . . . . . . . . . . . . . . . . . . 58
2.9.2 Subsettingandcollapsing . . . . . . . . . . . . . . . . . . . . . . . . 60
2.10 Labexercises . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 60
3 FittingandGraphingDiscreteDistributions 65
3.1 Introductiontodiscretedistributions . . . . . . . . . . . . . . . . . . . . . . 66
3.1.1 Binomialdata . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 66
3.1.2 Poissondata . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 69
3.1.3 Type-tokendistributions . . . . . . . . . . . . . . . . . . . . . . . . . 72
3.2 Characteristicsofdiscretedistributions . . . . . . . . . . . . . . . . . . . . 73
3.2.1 Thebinomialdistribution . . . . . . . . . . . . . . . . . . . . . . . . . 74
3.2.2 ThePoissondistribution . . . . . . . . . . . . . . . . . . . . . . . . . 76
3.2.3 Thenegativebinomialdistribution . . . . . . . . . . . . . . . . . . . 82
3.2.4 Thegeometricdistribution . . . . . . . . . . . . . . . . . . . . . . . . 85
3.2.5 Thelogarithmicseriesdistribution . . . . . . . . . . . . . . . . . . . 86
3.2.6 Powerseriesfamily . . . . . . . . . . . . . . . . . . . . . . . . . . . 86
3.3 Fittingdiscretedistributions . . . . . . . . . . . . . . . . . . . . . . . . . . . 87
3.3.1 Rtoolsfordiscretedistributions . . . . . . . . . . . . . . . . . . . . . 89
3.3.2 Plotsofobservedandfittedfrequencies . . . . . . . . . . . . . . . . 92
3.4 Diagnosingdiscretedistributions: Ordplots . . . . . . . . . . . . . . . . . . 95
3.5 Poissonnessplotsandgeneralizeddistributionplots . . . . . . . . . . . . . 99
3.5.1 FeaturesofthePoissonnessplot . . . . . . . . . . . . . . . . . . . . 100
3.5.2 Plotconstruction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 100
3.5.3 Thedistplotfunction . . . . . . . . . . . . . . . . . . . . . . . . . . . 101
3.5.4 Plotsforotherdistributions . . . . . . . . . . . . . . . . . . . . . . . 102
3.6 Fittingdiscretedistributionsasgeneralizedlinearmodels(cid:63) . . . . . . . . . 104
3.6.1 Covariates,overdispersion,andexcesszeros . . . . . . . . . . . . . 107
3.7 Chaptersummary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 109