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| Preface | |
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| Basics | |
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| First steps | |
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| An overgrown calculator | |
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| Assignments | |
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| Vectorized arithmetic | |
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| Standard procedures | |
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| Graphics | |
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| R language essentials | |
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| Expressions and objects | |
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| Functions and arguments | |
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| Vectors | |
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| Missing values | |
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| Functions that create vectors | |
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| Matrices and arrays | |
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| Factors | |
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| Lists | |
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| Data frames | |
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| Indexing | |
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| Conditional selection | |
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| Indexing of data frames | |
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| subset and transform | |
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| Grouped data and data frames | |
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| Sorting | |
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| Implicit loops | |
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| The graphics subsystem | |
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| Plot layout | |
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| Building a plot from pieces | |
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| Using par | |
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| Combining plots | |
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| R programming | |
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| Flow control | |
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| Classes and generic functions | |
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| Session management | |
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| The workspace | |
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| Getting help | |
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| Packages | |
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| Built-in data | |
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| attach and detach | |
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| Data entry | |
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| Reading from a text file | |
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| The data editor | |
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| Interfacing to other programs | |
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| Exercises | |
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| Probability and distributions | |
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| Random sampling | |
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| Probability calculations and combinatorics | |
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| Discrete distributions | |
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| Continuous distributions | |
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| The built-in distributions in R | |
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| Densities | |
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| Cumulative distribution functions | |
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| Quantiles | |
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| Random numbers | |
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| Exercises | |
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| Descriptive statistics and graphics | |
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| Summary statistics for a single group | |
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| Graphical display of distributions | |
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| Histograms | |
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| Empirical cumulative distribution | |
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| Q-Q plots | |
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| Boxplots | |
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| Summary statistics by groups | |
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| Graphics for grouped data | |
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| Histograms | |
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| Parallel boxplots | |
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| Stripcharts | |
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| Tables | |
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| Generating tables | |
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| Marginal tables and relative frequency | |
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| Graphical display of tables | |
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| Bar plots | |
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| Dotcharts | |
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| Pie charts | |
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| Exercises | |
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| One- and two-sample tests | |
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| One-sample t test | |
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| Wilcoxon signed-rank test | |
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| Two-sample t test | |
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| Comparison of variances | |
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| Two-sample Wilcoxon test | |
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| The paired t test | |
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| The matched-pairs Wilcoxon test | |
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| Exercises | |
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| Regression and correlation | |
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| Simple linear regression | |
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| Residuals and fitted values | |
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| Prediction and confidence bands | |
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| Correlation | |
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| Pearson correlation | |
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| Spearman's � | |
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| Kendall's � | |
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| Exercises | |
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| ANOVA and Kruskal-Wallis | |
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| One-way analysis of variance | |
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| Pairwise comparisons and multiple testing | |
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| Relaxing the variance assumption | |
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| Graphical presentation | |
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| Bartlett's test | |
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| Kruskal-Wallis test | |
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| Two-way analysis of variance | |
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| Graphics for repeated measurements | |
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| The Friedman test | |
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| The ANOVA table in regression analysis | |
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| Exercises | |
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| Tabular data | |
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| Single proportions | |
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| Two independent proportions | |
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| k proportions, test for trend | |
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| r � c tables | |
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| Exercises | |
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| Power and the computation of sample size | |
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| The principles of power calculations | |
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| The power of one-sample and paired t tests | |
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| Power of two-sample t test | |
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| Approximate methods | |
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| Power of comparisons of proportions | |
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| Two-sample problems | |
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| One-sample problems and paired tests | |
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| Comparison of proportions | |
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| Exercises | |
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| Multiple regression | |
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| Plotting multivariate data | |
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| Model specification and output | |
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| Model search | |
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| Exercises | |
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| Linear models | |
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| Polynomial regression | |
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| Regression through the origin | |
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| Design matrices and dummy variables | |
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| Linearity over groups | |
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| Interactions | |
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| Two-way ANOVA with replication | |
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| Analysis of covariance | |
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| Graphical description | |
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| Comparison of regression lines | |
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| Diagnostics | |
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| Exercises | |
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| Logistic regression | |
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| Generalized linear models | |
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| Logistic regression on tabular data | |
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| The analysis of deviance table | |
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| Connection to test for trend | |
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| Logistic regression using raw data | |
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| Prediction | |
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| Model checking | |
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| Exercises | |
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| Survival analysis | |
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| Essential concepts | |
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| Survival objects | |
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| Kaplan-Meier estimates | |
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| The log-rank test | |
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| The Cox proportional hazards model | |
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| Exercises | |
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| Obtaining and installing R | |
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| Data sets in the ISwR package | |
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| Compendium | |
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| Index | |