biplot-geoms: Convenience geoms for row and column matrix factors

In corybrunson/ordr: A Tidyverse Extension for Ordinations and Biplots

Convenience geoms for row and column matrix factors

Description

These geometric element layers (geoms) pair conventional ggplot2 geoms with stat_rows() or stat_cols() in order to render elements for one or the other matrix factor of a tbl_ord. They understand the same aesthetics as their corresponding conventional geoms.

Usage

geom_rows_point(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_point(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_path(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  lineend = "butt",
  linejoin = "round",
  linemitre = 10,
  arrow = NULL,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_path(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  lineend = "butt",
  linejoin = "round",
  linemitre = 10,
  arrow = NULL,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_polygon(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  rule = "evenodd",
  ...,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_polygon(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  rule = "evenodd",
  ...,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_contour(
  mapping = NULL,
  data = NULL,
  stat = "contour",
  position = "identity",
  ...,
  bins = NULL,
  binwidth = NULL,
  breaks = NULL,
  lineend = "butt",
  linejoin = "round",
  linemitre = 10,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_contour(
  mapping = NULL,
  data = NULL,
  stat = "contour",
  position = "identity",
  ...,
  bins = NULL,
  binwidth = NULL,
  breaks = NULL,
  lineend = "butt",
  linejoin = "round",
  linemitre = 10,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_density_2d(
  mapping = NULL,
  data = NULL,
  stat = "density_2d",
  position = "identity",
  ...,
  contour_var = "density",
  lineend = "butt",
  linejoin = "round",
  linemitre = 10,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_density_2d(
  mapping = NULL,
  data = NULL,
  stat = "density_2d",
  position = "identity",
  ...,
  contour_var = "density",
  lineend = "butt",
  linejoin = "round",
  linemitre = 10,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_density_2d_filled(
  mapping = NULL,
  data = NULL,
  stat = "density_2d_filled",
  position = "identity",
  ...,
  contour_var = "density",
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_density_2d_filled(
  mapping = NULL,
  data = NULL,
  stat = "density_2d_filled",
  position = "identity",
  ...,
  contour_var = "density",
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_text(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  parse = FALSE,
  nudge_x = 0,
  nudge_y = 0,
  check_overlap = FALSE,
  size.unit = "mm",
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_text(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  parse = FALSE,
  nudge_x = 0,
  nudge_y = 0,
  check_overlap = FALSE,
  size.unit = "mm",
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_label(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  parse = FALSE,
  nudge_x = 0,
  nudge_y = 0,
  label.padding = unit(0.25, "lines"),
  label.r = unit(0.15, "lines"),
  label.size = 0.25,
  size.unit = "mm",
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_label(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  parse = FALSE,
  nudge_x = 0,
  nudge_y = 0,
  label.padding = unit(0.25, "lines"),
  label.r = unit(0.15, "lines"),
  label.size = 0.25,
  size.unit = "mm",
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_text_repel(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  parse = FALSE,
  ...,
  box.padding = 0.25,
  point.padding = 1e-06,
  min.segment.length = 0.5,
  arrow = NULL,
  force = 1,
  force_pull = 1,
  max.time = 0.5,
  max.iter = 10000,
  max.overlaps = getOption("ggrepel.max.overlaps", default = 10),
  nudge_x = 0,
  nudge_y = 0,
  xlim = c(NA, NA),
  ylim = c(NA, NA),
  na.rm = FALSE,
  show.legend = NA,
  direction = c("both", "y", "x"),
  seed = NA,
  verbose = FALSE,
  inherit.aes = TRUE
)

geom_cols_text_repel(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  parse = FALSE,
  ...,
  box.padding = 0.25,
  point.padding = 1e-06,
  min.segment.length = 0.5,
  arrow = NULL,
  force = 1,
  force_pull = 1,
  max.time = 0.5,
  max.iter = 10000,
  max.overlaps = getOption("ggrepel.max.overlaps", default = 10),
  nudge_x = 0,
  nudge_y = 0,
  xlim = c(NA, NA),
  ylim = c(NA, NA),
  na.rm = FALSE,
  show.legend = NA,
  direction = c("both", "y", "x"),
  seed = NA,
  verbose = FALSE,
  inherit.aes = TRUE
)

geom_rows_label_repel(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  parse = FALSE,
  ...,
  box.padding = 0.25,
  label.padding = 0.25,
  point.padding = 1e-06,
  label.r = 0.15,
  label.size = 0.25,
  min.segment.length = 0.5,
  arrow = NULL,
  force = 1,
  force_pull = 1,
  max.time = 0.5,
  max.iter = 10000,
  max.overlaps = getOption("ggrepel.max.overlaps", default = 10),
  nudge_x = 0,
  nudge_y = 0,
  xlim = c(NA, NA),
  ylim = c(NA, NA),
  na.rm = FALSE,
  show.legend = NA,
  direction = c("both", "y", "x"),
  seed = NA,
  verbose = FALSE,
  inherit.aes = TRUE
)

geom_cols_label_repel(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  parse = FALSE,
  ...,
  box.padding = 0.25,
  label.padding = 0.25,
  point.padding = 1e-06,
  label.r = 0.15,
  label.size = 0.25,
  min.segment.length = 0.5,
  arrow = NULL,
  force = 1,
  force_pull = 1,
  max.time = 0.5,
  max.iter = 10000,
  max.overlaps = getOption("ggrepel.max.overlaps", default = 10),
  nudge_x = 0,
  nudge_y = 0,
  xlim = c(NA, NA),
  ylim = c(NA, NA),
  na.rm = FALSE,
  show.legend = NA,
  direction = c("both", "y", "x"),
  seed = NA,
  verbose = FALSE,
  inherit.aes = TRUE
)

geom_rows_axis(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  axis_labels = TRUE,
  axis_ticks = TRUE,
  axis_text = TRUE,
  by = NULL,
  num = NULL,
  tick_length = 0.025,
  text_dodge = 0.03,
  label_dodge = 0.03,
  ...,
  axis.colour = NULL,
  axis.color = NULL,
  axis.alpha = NULL,
  label.angle = 0,
  label.colour = NULL,
  label.color = NULL,
  label.alpha = NULL,
  tick.linewidth = 0.25,
  tick.colour = NULL,
  tick.color = NULL,
  tick.alpha = NULL,
  text.size = 2.6,
  text.angle = 0,
  text.hjust = 0.5,
  text.vjust = 0.5,
  text.family = NULL,
  text.fontface = NULL,
  text.colour = NULL,
  text.color = NULL,
  text.alpha = NULL,
  parse = FALSE,
  check_overlap = FALSE,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_axis(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  axis_labels = TRUE,
  axis_ticks = TRUE,
  axis_text = TRUE,
  by = NULL,
  num = NULL,
  tick_length = 0.025,
  text_dodge = 0.03,
  label_dodge = 0.03,
  ...,
  axis.colour = NULL,
  axis.color = NULL,
  axis.alpha = NULL,
  label.angle = 0,
  label.colour = NULL,
  label.color = NULL,
  label.alpha = NULL,
  tick.linewidth = 0.25,
  tick.colour = NULL,
  tick.color = NULL,
  tick.alpha = NULL,
  text.size = 2.6,
  text.angle = 0,
  text.hjust = 0.5,
  text.vjust = 0.5,
  text.family = NULL,
  text.fontface = NULL,
  text.colour = NULL,
  text.color = NULL,
  text.alpha = NULL,
  parse = FALSE,
  check_overlap = FALSE,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_bagplot(
  mapping = NULL,
  data = NULL,
  stat = "bagplot",
  position = "identity",
  ...,
  bag.linewidth = sync(),
  bag.linetype = sync(),
  bag.colour = "black",
  bag.color = NULL,
  bag.fill = sync(),
  bag.alpha = NA,
  median.shape = 21L,
  median.stroke = sync(),
  median.size = 5,
  median.colour = sync(),
  median.color = NULL,
  median.fill = "white",
  median.alpha = NA,
  fence.linewidth = 0.25,
  fence.linetype = 0L,
  fence.colour = sync(),
  fence.color = NULL,
  fence.fill = sync(),
  fence.alpha = 0.25,
  outlier.shape = sync(),
  outlier.stroke = sync(),
  outlier.size = sync(),
  outlier.colour = sync(),
  outlier.color = NULL,
  outlier.fill = NA,
  outlier.alpha = NA,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_bagplot(
  mapping = NULL,
  data = NULL,
  stat = "bagplot",
  position = "identity",
  ...,
  bag.linewidth = sync(),
  bag.linetype = sync(),
  bag.colour = "black",
  bag.color = NULL,
  bag.fill = sync(),
  bag.alpha = NA,
  median.shape = 21L,
  median.stroke = sync(),
  median.size = 5,
  median.colour = sync(),
  median.color = NULL,
  median.fill = "white",
  median.alpha = NA,
  fence.linewidth = 0.25,
  fence.linetype = 0L,
  fence.colour = sync(),
  fence.color = NULL,
  fence.fill = sync(),
  fence.alpha = 0.25,
  outlier.shape = sync(),
  outlier.stroke = sync(),
  outlier.size = sync(),
  outlier.colour = sync(),
  outlier.color = NULL,
  outlier.fill = NA,
  outlier.alpha = NA,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_interpolation(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  new_data = NULL,
  type = c("centroid", "sequence"),
  arrow = default_arrow,
  ...,
  point.fill = NA,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_interpolation(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  new_data = NULL,
  type = c("centroid", "sequence"),
  arrow = default_arrow,
  ...,
  point.fill = NA,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_lineranges(
  mapping = NULL,
  data = NULL,
  stat = "center",
  position = "identity",
  ...,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_lineranges(
  mapping = NULL,
  data = NULL,
  stat = "center",
  position = "identity",
  ...,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_pointranges(
  mapping = NULL,
  data = NULL,
  stat = "center",
  position = "identity",
  ...,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_pointranges(
  mapping = NULL,
  data = NULL,
  stat = "center",
  position = "identity",
  ...,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_isoline(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  isoline_text = TRUE,
  by = NULL,
  num = NULL,
  text_dodge = 0.03,
  ...,
  text.size = 3,
  text.angle = 0,
  text.colour = NULL,
  text.color = NULL,
  text.alpha = NULL,
  parse = FALSE,
  check_overlap = FALSE,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_isoline(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  isoline_text = TRUE,
  by = NULL,
  num = NULL,
  text_dodge = 0.03,
  ...,
  text.size = 3,
  text.angle = 0,
  text.colour = NULL,
  text.color = NULL,
  text.alpha = NULL,
  parse = FALSE,
  check_overlap = FALSE,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_rule(
  mapping = NULL,
  data = NULL,
  stat = "rule",
  position = "identity",
  axis_labels = TRUE,
  axis_ticks = TRUE,
  axis_text = TRUE,
  by = NULL,
  num = NULL,
  snap_rule = TRUE,
  tick_length = 0.025,
  text_dodge = 0.03,
  label_dodge = 0.03,
  ...,
  axis.colour = NULL,
  axis.color = NULL,
  axis.alpha = NULL,
  label.angle = 0,
  label.colour = NULL,
  label.color = NULL,
  label.alpha = NULL,
  tick.linewidth = 0.25,
  tick.colour = NULL,
  tick.color = NULL,
  tick.alpha = NULL,
  text.size = 2.6,
  text.angle = 0,
  text.hjust = 0.5,
  text.vjust = 0.5,
  text.family = NULL,
  text.fontface = NULL,
  text.colour = NULL,
  text.color = NULL,
  text.alpha = NULL,
  parse = FALSE,
  check_overlap = FALSE,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_rule(
  mapping = NULL,
  data = NULL,
  stat = "rule",
  position = "identity",
  axis_labels = TRUE,
  axis_ticks = TRUE,
  axis_text = TRUE,
  by = NULL,
  num = NULL,
  snap_rule = TRUE,
  tick_length = 0.025,
  text_dodge = 0.03,
  label_dodge = 0.03,
  ...,
  axis.colour = NULL,
  axis.color = NULL,
  axis.alpha = NULL,
  label.angle = 0,
  label.colour = NULL,
  label.color = NULL,
  label.alpha = NULL,
  tick.linewidth = 0.25,
  tick.colour = NULL,
  tick.color = NULL,
  tick.alpha = NULL,
  text.size = 2.6,
  text.angle = 0,
  text.hjust = 0.5,
  text.vjust = 0.5,
  text.family = NULL,
  text.fontface = NULL,
  text.colour = NULL,
  text.color = NULL,
  text.alpha = NULL,
  parse = FALSE,
  check_overlap = FALSE,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_text_radiate(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  parse = FALSE,
  check_overlap = FALSE,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_text_radiate(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  parse = FALSE,
  check_overlap = FALSE,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_rows_vector(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  arrow = default_arrow,
  lineend = "round",
  linejoin = "mitre",
  vector_labels = TRUE,
  ...,
  label.colour = NULL,
  label.color = NULL,
  label.alpha = NULL,
  parse = FALSE,
  check_overlap = FALSE,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_vector(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  arrow = default_arrow,
  lineend = "round",
  linejoin = "mitre",
  vector_labels = TRUE,
  ...,
  label.colour = NULL,
  label.color = NULL,
  label.alpha = NULL,
  parse = FALSE,
  check_overlap = FALSE,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

Arguments

mapping	Set of aesthetic mappings created by aes(). If specified and inherit.aes = TRUE (the default), it is combined with the default mapping at the top level of the plot. You must supply mapping if there is no plot mapping.
data	The data to be displayed in this layer. There are three options: If NULL, the default, the data is inherited from the plot data as specified in the call to ggplot(). A data.frame, or other object, will override the plot data. All objects will be fortified to produce a data frame. See fortify() for which variables will be created. A function will be called with a single argument, the plot data. The return value must be a data.frame, and will be used as the layer data. A function can be created from a formula (e.g. ~ head(.x, 10)).
stat	The statistical transformation to use on the data for this layer. When using a ⁠geom_*()⁠ function to construct a layer, the stat argument can be used the override the default coupling between geoms and stats. The stat argument accepts the following: A Stat ggproto subclass, for example StatCount. A string naming the stat. To give the stat as a string, strip the function name of the stat_ prefix. For example, to use stat_count(), give the stat as "count". For more information and other ways to specify the stat, see the layer stat documentation.
position	A position adjustment to use on the data for this layer. This can be used in various ways, including to prevent overplotting and improving the display. The position argument accepts the following: The result of calling a position function, such as position_jitter(). This method allows for passing extra arguments to the position. A string naming the position adjustment. To give the position as a string, strip the function name of the position_ prefix. For example, to use position_jitter(), give the position as "jitter". For more information and other ways to specify the position, see the layer position documentation.
...	Additional arguments passed to ggplot2::layer().
na.rm	Passed to ggplot2::layer().
show.legend	logical. Should this layer be included in the legends? NA, the default, includes if any aesthetics are mapped. FALSE never includes, and TRUE always includes. It can also be a named logical vector to finely select the aesthetics to display.
inherit.aes	If FALSE, overrides the default aesthetics, rather than combining with them. This is most useful for helper functions that define both data and aesthetics and shouldn't inherit behaviour from the default plot specification, e.g. borders().
lineend	Line end style (round, butt, square).
linejoin	Line join style (round, mitre, bevel).
linemitre	Line mitre limit (number greater than 1).
arrow	Arrow specification, as created by grid::arrow().
rule	Either "evenodd" or "winding". If polygons with holes are being drawn (using the subgroup aesthetic) this argument defines how the hole coordinates are interpreted. See the examples in grid::pathGrob() for an explanation.
bins	Number of contour bins. Overridden by breaks.
binwidth	The width of the contour bins. Overridden by bins.
breaks	One of: Numeric vector to set the contour breaks A function that takes the range of the data and binwidth as input and returns breaks as output. A function can be created from a formula (e.g. ~ fullseq(.x, .y)). Overrides binwidth and bins. By default, this is a vector of length ten with pretty() breaks.
contour_var	Character string identifying the variable to contour by. Can be one of "density", "ndensity", or "count". See the section on computed variables for details.
parse	If TRUE, the labels will be parsed into expressions and displayed as described in ?plotmath.
nudge_x, nudge_y	Horizontal and vertical adjustment to nudge labels by. Useful for offsetting text from points, particularly on discrete scales. Cannot be jointly specified with position.
check_overlap	If TRUE, text that overlaps previous text in the same layer will not be plotted. check_overlap happens at draw time and in the order of the data. Therefore data should be arranged by the label column before calling geom_text(). Note that this argument is not supported by geom_label().
size.unit	How the size aesthetic is interpreted: as millimetres ("mm", default), points ("pt"), centimetres ("cm"), inches ("in"), or picas ("pc").
label.padding	Amount of padding around label. Defaults to 0.25 lines.
label.r	Radius of rounded corners. Defaults to 0.15 lines.
label.size	Size of label border, in mm.
box.padding	Amount of padding around bounding box, as unit or number. Defaults to 0.25. (Default unit is lines, but other units can be specified by passing unit(x, "units")).
point.padding	Amount of padding around labeled point, as unit or number. Defaults to 0. (Default unit is lines, but other units can be specified by passing unit(x, "units")).
min.segment.length	Skip drawing segments shorter than this, as unit or number. Defaults to 0.5. (Default unit is lines, but other units can be specified by passing unit(x, "units")).
force	Force of repulsion between overlapping text labels. Defaults to 1.
force_pull	Force of attraction between a text label and its corresponding data point. Defaults to 1.
max.time	Maximum number of seconds to try to resolve overlaps. Defaults to 0.5.
max.iter	Maximum number of iterations to try to resolve overlaps. Defaults to 10000.
max.overlaps	Exclude text labels when they overlap too many other things. For each text label, we count how many other text labels or other data points it overlaps, and exclude the text label if it has too many overlaps. Defaults to 10.
xlim, ylim	Limits for the x and y axes. Text labels will be constrained to these limits. By default, text labels are constrained to the entire plot area.
direction	direction of stairs: 'vh' for vertical then horizontal, 'hv' for horizontal then vertical, or 'mid' for step half-way between adjacent x-values.
seed	Random seed passed to set.seed. Defaults to NA, which means that set.seed will not be called.
verbose	If TRUE, some diagnostics of the repel algorithm are printed
axis_labels, axis_ticks, axis_text	Logical; whether to include labels, tick marks, and text value marks along the axes.
by, num	Intervals between elements or number of elements; specify only one.
tick_length	Numeric; the length of the tick marks, as a proportion of the minimum of the plot width and height.
text_dodge	Numeric; the orthogonal distance of tick mark text from the axis, as a proportion of the minimum of the plot width and height.
label_dodge	Numeric; the orthogonal distance of the axis label from the axis, as a proportion of the minimum of the plot width and height.
axis.colour, axis.color, axis.alpha	Default aesthetics for axes. Set to NULL to inherit from the data's aesthetics.
label.angle, label.colour, label.color, label.alpha	Default aesthetics for labels. Set to NULL to inherit from the data's aesthetics.
tick.linewidth, tick.colour, tick.color, tick.alpha	Default aesthetics for tick marks. Set to NULL to inherit from the data's aesthetics.
text.size, text.angle, text.hjust, text.vjust, text.family, text.fontface, text.colour, text.color, text.alpha	Default aesthetics for tick mark labels. Set to NULL to inherit from the data's aesthetics.
bag.linetype, bag.linewidth, bag.colour, bag.color, bag.fill, bag.alpha	Default aesthetics for bags. Set to sync() to inherit from the data's aesthetics or to NULL to use the data's aesthetics.
median.shape, median.stroke, median.size, median.colour, median.color, median.fill, median.alpha	Default aesthetics for medians. Set to sync() to inherit from the data's aesthetics or to NULL to use the data's aesthetics.
fence.linetype, fence.linewidth, fence.colour, fence.color, fence.fill, fence.alpha	Default aesthetics for fences. Set to sync() to inherit from the data's aesthetics or to NULL to use the data's aesthetics.
outlier.shape, outlier.stroke, outlier.size, outlier.colour, outlier.color, outlier.fill, outlier.alpha	Default aesthetics for outliers. Set to sync() to inherit from the data's aesthetics or to NULL to use the data's aesthetics.
new_data	A list (best structured as a data.frame) of row (geom_cols_interpolation()) or column (geom_rows_interpolation()) values to interpolate.
type	Character value matched to "centroid" or "sequence"; the type of operations used to visualize interpolation.
point.fill	Default aesthetics for markers. Set to NULL to inherit from the data's aesthetics.
isoline_text	Logical; whether to include text value marks along the isolines.
snap_rule	Logical; whether to snap rule segments to grid values.
vector_labels	Logical; whether to include labels radiating outward from the vectors.

Value

A ggproto layer.

See Also

Other biplot layers: biplot-stats, stat_referent(), stat_rows()

Examples

# compute log-ratio analysis of Freestone primary class composition measurements
glass %>%
  ordinate(cols = c(SiO2, Al2O3, CaO, FeO, MgO),
           model = lra, compositional = TRUE) %>%
  confer_inertia("rows") %>%
  print() -> glass_lra

# row-principal biplot with ordinate-wise standard deviations
glass_lra %>%
  ggbiplot(aes(color = Site), sec.axes = "cols") +
  theme_biplot() +
  scale_color_brewer(type = "qual", palette = 6) +
  geom_cols_text(stat = "chull", aes(label = name), color = "#444444") +
  geom_rows_lineranges(fun.data = mean_sdl, linewidth = .75) +
  geom_rows_point(alpha = .5) +
  ggtitle(
    "Row-principal LRA biplot of Freestone glass measurements",
    "Ranges 2 sample standard deviations from centroids"
  )
# principal components analysis of glass composition measurements
glass[, c(5L, 7L, 8L, 10L, 11L)] %>%
  princomp(cor = TRUE) %>%
  as_tbl_ord() %>%
  cbind_rows(site = glass$Site, form = glass$Form) %>%
  augment_ord() %>%
  print() -> glass_pca

# note that column standard coordinates are unit vectors
rowSums(get_cols(glass_pca) ^ 2)

# plot column standard coordinates with a unit circle underlaid
glass_pca %>%
  ggbiplot(aes(label = name), sec.axes = "cols") +
  theme_biplot() +
  geom_rows_point(aes(color = site, shape = form), elements = "score") +
  geom_unit_circle(alpha = .5, scale.factor = 3) +
  geom_cols_vector()

corybrunson/ordr documentation built on Feb. 24, 2025, 6:34 a.m.