Index

A

• aesthetic attributes
  • about / ggplot2 and the grammar of graphics, Introduction to aesthetic attributes
• aesthetic mapping
  • about / Advanced aesthetic mapping
  • in ggplot2 / Typical aesthetic mappings available in ggplot2
  • to new stat variables / Mapping the aesthetic to new stat variables
• axis
  • transformation / Axis transformations
  • modifying, themes used / Themes for the axis and title
• axis labels
  • about / The plot title and axis labels
  • modifying / The plot title and axis labels
• axis scales
  • about / Axis scales
  • modifying / Axis scales
  • discrete axis / The discrete axis
  • continuous axis / The continuous axis
  • axis, transformation / Axis transformations
• axis tick marks
  • removing / Axis transformations

B

• bar charts
  • about / Bar charts, Bar charts
  • URL / Further reading
• borders() function
  • URL / Further reading
• box plots
  • about / Boxplots, Boxplots
  • URL / Further reading
• bubble charts
  • about / Bubble charts and dot plots
  • URL / Further reading
• bullseye chart / A bullseye chart

C

• categorical variables
  • and mapping continuous, differences / Difference in mapping continuous and categorical variables
• Comprehensive R Archive Network (CRAN)
  • about / Getting ggplot2 up and running
• continuous axis
  • modifying / The continuous axis
• coordinates
  • about / ggplot2 and the grammar of graphics
• coordinate system
  • about / The coordinate system
  • functions / The coordinate system
  • coord_cartesian(xlim, ylim function / The coordinate system
  • coord_fixed(ratio , xlim , ylim) function / The coordinate system
  • coord_flip(…) function / The coordinate system
  • coord_polar(theta , start , direction) function / The coordinate system
• coord_fixed() function / The coordinate system
• coord_map() function
  • URL / Further reading
• coxcomb diagram / A coxcomb diagram

D

• density plots
  • about / Histograms and density plots
  • URL / Further reading
  / Histograms and density plots
• discrete axis
  • modifying / The discrete axis
  • order of discrete variables, reversing / The discrete axis
• dot plots
  • about / Bubble charts and dot plots

E

• Eclipse
  • URL / Eclipse and StatET
  • about / Eclipse and StatET
• Emacs
  • URL / Emacs and ESS
  • about / Emacs and ESS
• Emacs Speaks Statistics (ESS)
  • about / Emacs and ESS
  • URL / Emacs and ESS

F

• faceting
  • about / ggplot2 and the grammar of graphics, Introduction to faceting, Faceting
  • panel orientation, modifying / Introduction to faceting
  • grid faceting / Grid faceting
  • wrap faceting / Wrap faceting
• facets
  • used, for adding text / Add text and reference lines with facets
  • used, for adding reference lines / Add text and reference lines with facets
  • using, with themes / Themes with facets
• facet_grid() function / Grid faceting
• facet_wrap() function / Wrap faceting

G

• geom attributes / Boxplots
• geometric objects
  • about / ggplot2 and the grammar of graphics
• geom functions
  • names, searching / Geometric
• geom functions, geometry attributes
  • geom_abline / Geometric
  • geom_area / Geometric
  • geom_bar / Geometric
  • geom_blank / Geometric
  • geom_boxplot / Geometric
  • geom_density / Geometric
  • geom_dotplot / Geometric
  • geom_errorbar / Geometric
  • geom_errorbarh / Geometric
  • geom_histogram / Geometric
  • geom_hline / Geometric
  • geom_jitter / Geometric
  • geom_line / Geometric
  • geom_path / Geometric
  • geom_point / Geometric
  • geom_pointrange / Geometric
  • geom_ribbon / Geometric
  • geom_smooth / Geometric
  • geom_text / Geometric
  • geom_tile / Geometric
  • geom_vline / Geometric
• geom_tile() function
  • URL / Further reading
• GGally
  • scatterplot matrix with / Scatterplot matrix with GGally
• ggmap
  • used, for plotting maps / Plotting maps with ggplot2 and ggmap
  • used, for representing maps / Representing maps with ggmap
• ggpairs() function
  • URL / Further reading
• ggplot() function
  • and qplot() function, equivalent coding / Equivalent coding between qplot and ggplot
• ggplot2
  • about / Getting ggplot2 up and running
  • running / Getting ggplot2 up and running
  • packages / Packages in R
  • grammar, of graphics / ggplot2 and the grammar of graphics
  • layers / Layers in ggplot2
  • aesthetic mappings / Typical aesthetic mappings available in ggplot2
  • URL / Adding text and reference lines to plots, Further reading, Exploring scales
  • references / Further reading
  • used, for plotting maps / Plotting maps with ggplot2 and ggmap
  • used, for representing mapping / Mapping representations with ggplot2 and maps
  • used, for plotting heatmaps / Plotting heatmaps with ggplot2
• grammar, of graphics
  • about / ggplot2 and the grammar of graphics
• Graphical User Interface (GUI)
  • about / The Integrated Development Environment
• graphics package
  • about / Graphics and standard plots
  • implementing / Graphics and standard plots
  • scatter plot, generating with points of all data / Scatterplots with individual data points
  • scatter plot, generating with line of one tree / Scatterplots with the line of one tree
  • scatter plot, generating with line and points of one tree / Scatterplots with the line and points of one tree
  • boxplot, generating / Boxplots of the orange dataset
  • boxplot, generating with observations / Boxplots with individual observations
  • histogram, generating / Histograms of the orange dataset
  • histogram, generating with vertical bar on median value / Histograms with the reference line at the median value in red
• graphics tools
  • reference link / The plotting environments in R
• grayscale plots
  • creating / Exploring scales
• grid-based graphics
  • about / Standard graphics and grid-based graphics
• grid faceting / Grid faceting

H

• heatmaps
  • plotting, with ggplot2 / Plotting heatmaps with ggplot2
• histograms
  • about / Histograms and density plots, Histograms and density plots
  • URL / Further reading

I

• I() function / Introduction to aesthetic attributes
• Integrated Development Environment (IDE)
  • about / The Integrated Development Environment
  • RStudio / RStudio
  • Eclipse / Eclipse and StatET
  • StatET / Eclipse and StatET
  • Emacs / Emacs and ESS
  • Emacs Speaks Statistics (ESS) / Emacs and ESS
• Inter-Quartile Range (IQR) / Boxplots

L

• lattice package
  • about / Lattice and Trellis plots
  • example / Lattice and Trellis plots
  • scatter plot, generating with points / Scatterplots with individual observations
  • scatter plot, generating with faceting / Scatterplots of the orange dataset with faceting
  • scatter plot, faceting with line and points / Faceting scatterplots with line and points
  • scatter plot, generating with grouping data / Scatterplots with grouping data
  • boxplot, generating / Boxplots of the orange dataset
  • histogram, generating with default options / Histograms of the orange dataset
  • histogram, generating with vertical bar on median value / Histograms with the reference line at the median value in red
• layered grammar
  • components / Components of layered grammar
• layers, ggplot2
  • about / Layers in ggplot2
  • data / Data
  • aesthetic mapping / Aesthetic mapping
  • geometry attributes / Geometric
  • stat / Stat
  • position adjustment / Position adjustment
• legends
  • about / Legends
  • modifying / Legends
  • title, modifying / The legend title
  • keys, modifying / Legend keys and key labels
  • key labels, modifying / Legend keys and key labels
  • modifying, themes used / Themes for the legend
• linear regression
  • about / Linear regression
  • statistics, with faceting / Statistics with faceting

M

• mapping continuous
  • and categorical variables, differences / Difference in mapping continuous and categorical variables
• mapproject() function / Further reading
• maps
  • plotting, with ggplot2 / Plotting maps with ggplot2 and ggmap
  • plotting, with ggmap / Plotting maps with ggplot2 and ggmap
  • representing, with ggplot2 / Mapping representations with ggplot2 and maps
  • representing, with ggmap / Representing maps with ggmap
• map_data() function
  • URL / Further reading
• multiple plots, in one page
  • arranging / Multiple plots in one page
  • plots, arranging in rows and columns / Arranging plots in rows and columns
  • plot position, specifying / Specifying the plot position

N

• Normalized Parent Coordinates (NPC) / Specifying the plot position

P

• packages
  • about / Packages in R
• pie chart / A pie chart
• plot background
  • modifying, themes used / Themes for the plot background
• plot layer by layer
  • creating, with qplot() function / Creating a plot layer by layer with the ggplot function
• plot output
  • multiple plots, in one page / Multiple plots in one page
  • plots, saving to file / Saving plots to a file
  • references / Further reading
• plots
  • reference lines, adding / Adding text and reference lines to plots
  • text, adding / Adding text and reference lines to plots
  • with polar coordinates / Plots with polar coordinates
  • pie chart / A pie chart
  • bullseye chart / A bullseye chart
  • coxcomb diagram / A coxcomb diagram
• plots, saving to file
  • about / Saving plots to a file
  • saving manually / Saving the plot manually
  • without rendering plot / Saving the plot to a file without rendering it
  • single plot, saving / Saving a single plot
  • multiple plots, saving on same PDF file / Saving multiple plots on the same PDF file
  • after rendering plot / Saving the plot after rendering it
• plotting environments
  • about / The plotting environments in R
• plot title
  • about / The plot title and axis labels
  • modifying / The plot title and axis labels
  • splitting / The plot title and axis labels
• polar coordinates
  • plots, with / Plots with polar coordinates
• position adjustment
  • about / Position adjustment
  • of categorical data / Position adjustment of categorical data
  • of continuous data / Position adjustment of continuous data
• position adjustment, of categorical data
  • about / Position adjustment of categorical data
  • dodge / Position adjustment of categorical data
  • fill / Position adjustment of categorical data
  • stack / Position adjustment of categorical data
• position_stack() function / Position adjustment of categorical data
• pushViewport() function / Arranging plots in rows and columns

Q

• qplot() basic function
  • about / General aspects
  • components / General aspects
• qplot() function
  • URL / General aspects
  • used, for creating plot layer by layer / Creating a plot layer by layer with the ggplot function
  • and ggplot() function, equivalent coding / Equivalent coding between qplot and ggplot
• qplot function
  • URL / Further reading

R

• reference lines
  • adding, to plots / Adding text and reference lines to plots
  • adding, facets used / Add text and reference lines with facets
• R project
  • URL / Getting ggplot2 up and running
• RStudio
  • about / RStudio
  • URL / RStudio
  • scripting area / RStudio
  • console area / RStudio
  • workspace/history area / RStudio
  • visualization area / RStudio
• RStudio Server
  • about / RStudio

S

• scales
  • about / ggplot2 and the grammar of graphics, Scales, Exploring scales
  • exploring / Exploring scales
• scale_color_hue() function / Aesthetic mapping
• scale_x_discrete() function, arguments
  • name / The discrete axis
  • breaks / The discrete axis
  • labels / The discrete axis
  • na.value / The discrete axis
  • limits / The discrete axis
  • guide / The discrete axis
• scatterplot matrix
  • with GGally / Scatterplot matrix with GGally
• scatterplots
  • about / Scatterplots, Scatterplots
  • URL / Further reading
• smooth lines
  • about / Smooth lines
• standard graphics
  • about / Standard graphics and grid-based graphics
• standard plots
  • about / Graphics and standard plots
• StatET
  • about / Eclipse and StatET
  • URL / Eclipse and StatET
• stat functions
  • stat_bin / Stat
  • stat_bindot / Stat
  • stat_boxplot / Stat
  • stat_density / Stat
  • stat_function / Stat
  • stat_identity / Stat
  • stat_quantile / Stat
  • stat_smooth / Stat
  • stat_sum / Stat
  • stat_summary / Stat
  • stat_unique / Stat
• statistical transformations
  • about / ggplot2 and the grammar of graphics
• statistics
  • adding / Adding statistics
• stat variables
  • aesthetic mapping to / Mapping the aesthetic to new stat variables
• subset() function / Grid faceting

T

• text
  • adding, to plots / Adding text and reference lines to plots
  • adding, facets used / Add text and reference lines with facets
• themes
  • about / Themes
  • URL / Themes
  • using / Themes
  • used, for modifying legends / Themes for the legend
  • used, for modifying title / Themes for the axis and title
  • used, for modifying axis / Themes for the axis and title
  • used, for modifying plot background / Themes for the plot background
  • facets, using / Themes with facets
• time series
  • about / Time series
• title
  • modifying, themes used / Themes for the axis and title
• Trellis plots
  • about / Lattice and Trellis plots

W

• wrap faceting / Wrap faceting