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

In 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_text(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  parse = FALSE,
  nudge_x = 0,
  nudge_y = 0,
  check_overlap = FALSE,
  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,
  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,
  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,
  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,
  ...,
  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,
  ...,
  parse = FALSE,
  check_overlap = FALSE,
  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,
  label_dodge = 0.03,
  ...,
  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,
  label_dodge = 0.03,
  ...,
  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,
  ...,
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)

geom_cols_vector(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  arrow = default_arrow,
  ...,
  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, either as a ggproto Geom subclass or as a string naming the stat stripped of the stat_ prefix (e.g. "count" rather than "stat_count")
position	Position adjustment, either as a string naming the adjustment (e.g. "jitter" to use position_jitter), or the result of a call to a position adjustment function. Use the latter if you need to change the settings of the adjustment.
...	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.
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().
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 that overlap too many things. 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 the text from the axis, as a proportion of the minimum of the plot width and height.
label_dodge	Numeric; the orthogonal distance of the text from the axis or isoline, as a proportion of the minimum of the plot width and height.
isoline_text	Logical; whether to include text value marks along the isolines.

Value

A ggproto layer.

See Also

Other biplot layers: biplot-stats, stat_rows()

ordr documentation built on Oct. 21, 2022, 1:07 a.m.