Add serial axes glyphs on scatter plot

To visualize high dimensional data on scatterplot. Each point glyph is surrounded by a serial axes (parallel axes or radial axes) object.

geom_serialaxes_glyph(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  serialaxes.data,
  axes.sequence = character(0L),
  scaling = c("data", "variable", "observation", "none"),
  axes.layout = c("parallel", "radial"),
  andrews = FALSE,
  show.axes = FALSE,
  show.enclosing = FALSE,
  linewidth = 1,
  axescolour = "black",
  bboxcolour = "black",
  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.

...

Other arguments passed on to layer(). These are often aesthetics, used to set an aesthetic to a fixed value, like colour = "red" or size = 3. They may also be parameters to the paired geom/stat.

serialaxes.data

a serial axes numerical data set. If not provided, a point visual (geom_point()) will be displayed.

axes.sequence

A vector to define the axes sequence. In serial axes coordinate, the sequence can be either determined in mapping (function aes()) or by axes.sequence. The only difference is that the mapping aesthetics will omit the duplicated axes (check examples in geom_serialaxes).

scaling

one of data, variable, observation or none (not suggested the layout is the same with data) to specify how the data is scaled.

axes.layout

either "radial" or "parallel"

andrews

Logical; Andrew's plot (a Fourier transformation)

show.axes

boolean to indicate whether axes should be shown or not

show.enclosing

boolean to indicate whether enclosing should be shown or not

linewidth

line width of the "glyph" object

axescolour

axes color

bboxcolour

bounding box color

na.rm

If FALSE, the default, missing values are removed with a warning. If TRUE, missing values are silently removed.

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().

Value

a geom layer

Aesthetics

geom_..._glyph() understands the following aesthetics (required aesthetics are in bold):

  • x

  • y

  • alpha

  • colour

  • fill

  • group

  • size

  • linetype

  • shape

  • stroke

The size unit is cm

Note that the shape and stroke do not have real meanings unless the essential argument serialaxes.data is missing. If so, a point visual will be displayed with corresponding shape and stroke.

Examples

# serial axes glyph
p <- ggplot(data = iris,
            mapping = aes(x = Sepal.Length, y = Sepal.Width, colour = Species)) +
  geom_serialaxes_glyph(serialaxes.data = iris[, -5],
                        axes.layout = "radial")
p