% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/geom_slabinterval.R
\name{geom_slabinterval}
\alias{geom_slabinterval}
\title{Slab + point + interval meta-geom}
\usage{
geom_slabinterval(
  mapping = NULL,
  data = NULL,
  stat = "identity",
  position = "identity",
  ...,
  orientation = NA,
  subscale = "thickness",
  normalize = "all",
  fill_type = "segments",
  interval_size_domain = c(1, 6),
  interval_size_range = c(0.6, 1.4),
  fatten_point = 1.8,
  arrow = NULL,
  show_slab = TRUE,
  show_point = TRUE,
  show_interval = TRUE,
  subguide = "slab",
  na.rm = FALSE,
  show.legend = NA,
  inherit.aes = TRUE
)
}
\arguments{
\item{mapping}{Set of aesthetic mappings created by \code{\link[ggplot2:aes]{aes()}}. If specified and
\code{inherit.aes = TRUE} (the default), it is combined with the default mapping
at the top level of the plot. You must supply \code{mapping} if there is no plot
mapping.}

\item{data}{The data to be displayed in this layer. There are three
options:

If \code{NULL}, the default, the data is inherited from the plot
data as specified in the call to \code{\link[ggplot2:ggplot]{ggplot()}}.

A \code{data.frame}, or other object, will override the plot
data. All objects will be fortified to produce a data frame. See
\code{\link[ggplot2:fortify]{fortify()}} for which variables will be created.

A \code{function} will be called with a single argument,
the plot data. The return value must be a \code{data.frame}, and
will be used as the layer data. A \code{function} can be created
from a \code{formula} (e.g. \code{~ head(.x, 10)}).}

\item{stat}{The statistical transformation to use on the data for this layer.
When using a \verb{geom_*()} function to construct a layer, the \code{stat}
argument can be used the override the default coupling between geoms and
stats. The \code{stat} argument accepts the following:
\itemize{
\item A \code{Stat} ggproto subclass, for example \code{StatCount}.
\item A string naming the stat. To give the stat as a string, strip the
function name of the \code{stat_} prefix. For example, to use \code{stat_count()},
give the stat as \code{"count"}.
\item For more information and other ways to specify the stat, see the
\link[ggplot2:layer_stats]{layer stat} documentation.
}}

\item{position}{<\link[ggplot2:ggplot2-ggproto]{Position} | \link[=character]{string}> Position adjustment,
either as a string, or the result of a call to a position adjustment function.
Setting this equal to \code{"dodge"} (\code{\link[ggplot2:position_dodge]{position_dodge()}}) or
\code{"dodgejust"} (\code{\link[=position_dodgejust]{position_dodgejust()}}) can be useful if you have overlapping geometries.}

\item{...}{Other arguments passed to \code{\link[ggplot2:layer]{layer()}}. These are often aesthetics, used to set an aesthetic
to a fixed value, like \code{colour = "red"} or \code{linewidth = 3} (see \strong{Aesthetics}, below). They may also be
parameters to the paired geom/stat.}

\item{orientation}{<\link[=character]{string}> Whether this geom is drawn horizontally or vertically. One of:
\itemize{
\item \code{NA} (default): automatically detect the orientation based on how the aesthetics
are assigned. Automatic detection works most of the time.
\item \code{"horizontal"} (or \code{"y"}): draw horizontally, using the \code{y} aesthetic to identify different
groups. For each group, uses the \code{x}, \code{xmin}, \code{xmax}, and \code{thickness} aesthetics to
draw points, intervals, and slabs.
\item \code{"vertical"} (or \code{"x"}): draw vertically, using the \code{x} aesthetic to identify different
groups. For each group, uses the \code{y}, \code{ymin}, \code{ymax}, and \code{thickness} aesthetics to
draw points, intervals, and slabs.
}
For compatibility with the base ggplot naming scheme for \code{orientation}, \code{"x"} can be used as an alias
for \code{"vertical"} and \code{"y"} as an alias for \code{"horizontal"} (\pkg{ggdist} had an \code{orientation} parameter
before base ggplot did, hence the discrepancy).}

\item{subscale}{<\link{function} | \link[=character]{string}> Sub-scale used to scale values of the
\code{thickness} aesthetic within the groups determined by \code{normalize}. One of:
\itemize{
\item A function that takes an \code{x} argument giving a numeric vector
of values to be scaled and then returns a \link{thickness} vector representing
the scaled values, such as \code{\link[=subscale_thickness]{subscale_thickness()}} or \code{\link[=subscale_identity]{subscale_identity()}}.
\item A string giving the name of such a function when prefixed
with \code{"subscale_"}; e.g. \code{"thickness"} or \code{"identity"}. The value
\code{"thickness"} using the default subscale, which can be modified by
setting \code{\link{subscale_thickness}}; see the documentation for that
function.
}
For a comprehensive discussion and examples of slab scaling and normalization, see the
\href{https://mjskay.github.io/ggdist/articles/thickness.html}{\code{thickness} scale article}.}

\item{normalize}{<\link[=character]{string}> Groups within which to scale values of the \code{thickness} aesthetic. One of:
\itemize{
\item \code{"all"}: normalize so that the maximum height across all data is \code{1}.
\item \code{"panels"}: normalize within panels so that the maximum height in each panel is \code{1}.
\item \code{"xy"}: normalize within the x/y axis opposite the \code{orientation} of this geom so
that the maximum height at each value of the opposite axis is \code{1}.
\item \code{"groups"}: normalize within values of the opposite axis and within each
group so that the maximum height in each group is \code{1}.
\item \code{"none"}: values are taken as is with no normalization (this should probably
only be used with functions whose values are in [0,1], such as CDFs).
}
For a comprehensive discussion and examples of slab scaling and normalization, see the
\href{https://mjskay.github.io/ggdist/articles/thickness.html}{\code{thickness} scale article}.}

\item{fill_type}{<\link[=character]{string}> What type of fill to use when the fill color or alpha varies within a slab.
One of:
\itemize{
\item \code{"segments"}: breaks up the slab geometry into segments for each unique combination of fill color and
alpha value. This approach is supported by all graphics devices and works well for sharp cutoff values,
but can give ugly results if a large number of unique fill colors are being used (as in gradients,
like in \code{\link[=stat_gradientinterval]{stat_gradientinterval()}}).
\item \code{"gradient"}: a \code{grid::linearGradient()} is used to create a smooth gradient fill. This works well for
large numbers of unique fill colors, but requires R >= 4.1 and is not yet supported on all graphics devices.
As of this writing, the \code{png()} graphics device with \code{type = "cairo"}, the \code{svg()} device, the \code{pdf()}
device, and the \code{ragg::agg_png()} devices are known to support this option. On R < 4.1, this option
will fall back to \code{fill_type = "segments"} with a message.
\item \code{"auto"}: attempts to use \code{fill_type = "gradient"} if support for it can be auto-detected. On R >= 4.2,
support for gradients can be auto-detected on some graphics devices; if support is not detected, this
option will fall back to \code{fill_type = "segments"} (in case of a false negative, \code{fill_type = "gradient"}
can be set explicitly). On R < 4.2, support for gradients cannot be auto-detected, so this will always
fall back to \code{fill_type = "segments"}, in which case you can set \code{fill_type = "gradient"} explicitly
if you are using a graphics device that support gradients.
}}

\item{interval_size_domain}{<length-2 \link{numeric}> Minimum and maximum of the values of the \code{size} and \code{linewidth} aesthetics
that will be translated into actual sizes for intervals drawn according to \code{interval_size_range} (see the
documentation for that argument.)}

\item{interval_size_range}{<length-2 \link{numeric}> This geom scales the raw size aesthetic values when drawing interval
and point sizes, as they tend to be too thick when using the default settings of \code{\link[ggplot2:scale_size]{scale_size_continuous()}},
which give sizes with a range of \code{c(1, 6)}. The \code{interval_size_domain} value indicates the
input domain of raw size values (typically this should be equal to the value of the \code{range}
argument of the \code{\link[ggplot2:scale_size]{scale_size_continuous()}} function), and
\code{interval_size_range} indicates the desired output range of the size values (the min and max
of the actual sizes used to draw intervals). Most of the time it is not recommended to change
the value of this argument, as it may result in strange scaling of legends; this argument is
a holdover from earlier versions that did not have size aesthetics targeting the point and
interval separately. If you want to adjust the size of the interval or points separately,
you can also use the \code{linewidth} or \code{point_size} aesthetics; see \link{sub-geometry-scales}.}

\item{fatten_point}{<scalar \link{numeric}> A multiplicative factor used to adjust the size of the point relative to the
size of the thickest interval line. If you wish to specify point sizes directly, you can also use
the \code{point_size} aesthetic and \code{\link[=scale_point_size_continuous]{scale_point_size_continuous()}} or \code{\link[=scale_point_size_discrete]{scale_point_size_discrete()}};
sizes specified with that aesthetic will not be adjusted using \code{fatten_point}.}

\item{arrow}{<\link{arrow} | \link{NULL}> Type of arrow heads to use on the interval, or \code{NULL} for no arrows.}

\item{show_slab}{<scalar \link{logical}> Should the slab portion of the geom be drawn?}

\item{show_point}{<scalar \link{logical}> Should the point portion of the geom be drawn?}

\item{show_interval}{<scalar \link{logical}> Should the interval portion of the geom be drawn?}

\item{subguide}{<\link{function} | \link[=character]{string}> Sub-guide used to annotate the \code{thickness} scale. One of:
\itemize{
\item A function that takes a \code{scale} argument giving a \link[ggplot2:ggplot2-ggproto]{ggplot2::Scale}
object and an \code{orientation} argument giving the orientation of the
geometry and then returns a \link[grid:grid.grob]{grid::grob} that will draw the axis
annotation, such as \code{\link[=subguide_axis]{subguide_axis()}} (to draw a traditional axis) or
\code{\link[=subguide_none]{subguide_none()}} (to draw no annotation). See \code{\link[=subguide_axis]{subguide_axis()}}
for a list of possibilities and examples.
\item A string giving the name of such a function when prefixed
with \code{"subguide_"}; e.g. \code{"axis"} or \code{"none"}. The values \code{"slab"},
\code{"dots"}, and \code{"spike"} use the default subguide for their geom
families (no subguide), which can be modified by setting
\code{\link{subguide_slab}}, \code{\link{subguide_dots}}, or \code{\link{subguide_spike}};
see the documentation for those functions.
}}

\item{na.rm}{<scalar \link{logical}> If \code{FALSE}, the default, missing values are removed with a warning. If \code{TRUE},
missing values are silently removed.}

\item{show.legend}{logical. Should this layer be included in the legends?
\code{NA}, the default, includes if any aesthetics are mapped.
\code{FALSE} never includes, and \code{TRUE} always includes.
It can also be a named logical vector to finely select the aesthetics to
display.}

\item{inherit.aes}{If \code{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. \code{\link[ggplot2:borders]{borders()}}.}
}
\value{
A \link[ggplot2:ggplot2-ggproto]{ggplot2::Geom} representing a slab or combined slab+interval geometry which can
be added to a \code{\link[ggplot2:ggplot]{ggplot()}} object.
}
\description{
This meta-geom supports drawing combinations of functions (as slabs, aka ridge plots or joy plots), points, and
intervals. It acts as a meta-geom for many other \pkg{ggdist} geoms that are wrappers around this geom, including
eye plots, half-eye plots, CCDF barplots, and point+multiple interval plots, and supports both horizontal and
vertical orientations, dodging (via the \code{position} argument), and relative justification of slabs with their
corresponding intervals.
}
\details{
\code{\link[=geom_slabinterval]{geom_slabinterval()}} is a flexible meta-geom that you can use directly or through a variety of "shortcut"
geoms that represent useful combinations of the various parameters of this geom. In many cases you will want to
use the shortcut geoms instead as they create more useful mnemonic primitives, such as eye plots,
half-eye plots, point+interval plots, or CCDF barplots.

The \emph{slab} portion of the geom is much like a ridge or "joy" plot: it represents the value of a function
scaled to fit between values on the \code{x} or \code{y} axis (depending on the value of \code{orientation}). Values of
the functions are specified using the \code{thickness} aesthetic and are scaled to fit into \code{scale}
times the distance between points on the relevant axis. E.g., if \code{orientation} is \code{"horizontal"},
\code{scale} is \code{0.9}, and \code{y} is a discrete variable, then the \code{thickness} aesthetic specifies the
value of some function of \code{x} that is drawn for every \code{y} value and scaled to fit into \code{0.9} times
the distance between points on the \code{y} axis.

For the \emph{interval} portion of the geom, \code{x} and \code{y} aesthetics specify the location of the
point, and \code{ymin}/\code{ymax} or \code{xmin}/\code{xmax} (depending on the value of \code{orientation})
specify the endpoints of the interval. A scaling factor for interval line width and point size is applied
through the \code{interval_size_domain}, \code{interval_size_range}, and \code{fatten_point} parameters.
These scaling factors are designed to give multiple uncertainty intervals reasonable
scaling at the default settings for \code{\link[ggplot2:scale_size]{scale_size_continuous()}}.

As a combination geom, this geom expects a \code{datatype} aesthetic specifying which part of the geom a given
row in the input data corresponds to: \code{"slab"} or \code{"interval"}. However, specifying this aesthetic
manually is typically only necessary if you use this geom directly; the numerous wrapper geoms will
usually set this aesthetic for you as needed, and their use is recommended unless you have a very custom
use case.

Wrapper geoms include:
\itemize{
\item \code{\link[=geom_pointinterval]{geom_pointinterval()}}
\item \code{\link[=geom_interval]{geom_interval()}}
\item \code{\link[=geom_slab]{geom_slab()}}
}

In addition, the \code{\link[=stat_slabinterval]{stat_slabinterval()}} family of stats uses geoms from the
\code{\link[=geom_slabinterval]{geom_slabinterval()}} family, and is often easier to use than using these geoms
directly. Typically, the \verb{geom_*} versions are meant for use with already-summarized data (such as intervals) and the
\verb{stat_*} versions are summarize the data themselves (usually draws from a distribution) to produce the geom.
}
\section{Aesthetics}{

The slab+interval \code{stat}s and \code{geom}s have a wide variety of aesthetics that control
the appearance of their three sub-geometries: the \strong{slab}, the \strong{point}, and
the \strong{interval}.

\strong{Positional aesthetics}

\itemize{
\item{\code{x}: x position of the geometry}
\item{\code{y}: y position of the geometry}
}

\strong{Slab-specific aesthetics}

\itemize{
\item{\code{thickness}: The thickness of the slab at each \code{x} value (if \code{orientation = "horizontal"}) or
\code{y} value (if \code{orientation = "vertical"}) of the slab.}
\item{\code{side}: Which side to place the slab on. \code{"topright"}, \code{"top"}, and \code{"right"} are synonyms
which cause the slab to be drawn on the top or the right depending on if \code{orientation} is \code{"horizontal"}
or \code{"vertical"}. \code{"bottomleft"}, \code{"bottom"}, and \code{"left"} are synonyms which cause the slab
to be drawn on the bottom or the left depending on if \code{orientation} is \code{"horizontal"} or
\code{"vertical"}. \code{"topleft"} causes the slab to be drawn on the top or the left, and \code{"bottomright"}
causes the slab to be drawn on the bottom or the right. \code{"both"} draws the slab mirrored on both
sides (as in a violin plot).}
\item{\code{scale}: What proportion of the region allocated to this geom to use to draw the slab. If \code{scale = 1},
slabs that use the maximum range will just touch each other. Default is \code{0.9} to leave some space
between adjacent slabs. For a comprehensive discussion and examples of slab scaling and normalization,
see the \href{https://mjskay.github.io/ggdist/articles/thickness.html}{\code{thickness} scale article}.}
\item{\code{justification}: Justification of the interval relative to the slab, where \code{0} indicates bottom/left
justification and \code{1} indicates top/right justification (depending on \code{orientation}). If \code{justification}
is \code{NULL} (the default), then it is set automatically based on the value of \code{side}: when \code{side} is
\code{"top"}/\code{"right"} \code{justification} is set to \code{0}, when \code{side} is \code{"bottom"}/\code{"left"}
\code{justification} is set to \code{1}, and when \code{side} is \code{"both"} \code{justification} is set to 0.5.}
\item{\code{datatype}: When using composite geoms directly without a \code{stat} (e.g. \code{\link[=geom_slabinterval]{geom_slabinterval()}}), \code{datatype} is used to
indicate which part of the geom a row in the data targets: rows with \code{datatype = "slab"} target the
slab portion of the geometry and rows with \code{datatype = "interval"} target the interval portion of
the geometry. This is set automatically when using ggdist \code{stat}s.}
}

\strong{Interval-specific aesthetics}

\itemize{
\item{\code{xmin}: Left end of the interval sub-geometry (if \code{orientation = "horizontal"}).}
\item{\code{xmax}: Right end of the interval sub-geometry (if \code{orientation = "horizontal"}).}
\item{\code{ymin}: Lower end of the interval sub-geometry (if \code{orientation = "vertical"}).}
\item{\code{ymax}: Upper end of the interval sub-geometry (if \code{orientation = "vertical"}).}
}

\strong{Point-specific aesthetics}

\itemize{
\item{\code{shape}: Shape type used to draw the \strong{point} sub-geometry.}
}

\strong{Color aesthetics}

\itemize{
\item{\code{colour}: (or \code{color}) The color of the \strong{interval} and \strong{point} sub-geometries.
Use the \code{slab_color}, \code{interval_color}, or \code{point_color} aesthetics (below) to
set sub-geometry colors separately.}
\item{\code{fill}: The fill color of the \strong{slab} and \strong{point} sub-geometries. Use the \code{slab_fill}
or \code{point_fill} aesthetics (below) to set sub-geometry colors separately.}
\item{\code{alpha}: The opacity of the \strong{slab}, \strong{interval}, and \strong{point} sub-geometries. Use the \code{slab_alpha},
\code{interval_alpha}, or \code{point_alpha} aesthetics (below) to set sub-geometry colors separately.}
\item{\code{colour_ramp}: (or \code{color_ramp}) A secondary scale that modifies the \code{color}
scale to "ramp" to another color. See \code{\link[=scale_colour_ramp]{scale_colour_ramp()}} for examples.}
\item{\code{fill_ramp}: A secondary scale that modifies the \code{fill}
scale to "ramp" to another color. See \code{\link[=scale_fill_ramp]{scale_fill_ramp()}} for examples.}
}

\strong{Line aesthetics}

\itemize{
\item{\code{linewidth}: Width of the line used to draw the \strong{interval} (except with \code{\link[=geom_slab]{geom_slab()}}: then
it is the width of the \strong{slab}). With composite geometries including an interval and slab,
use \code{slab_linewidth} to set the line width of the \strong{slab} (see below). For \strong{interval}, raw
\code{linewidth} values are transformed according to the \code{interval_size_domain} and \code{interval_size_range}
parameters of the \code{geom} (see above).}
\item{\code{size}: Determines the size of the \strong{point}. If \code{linewidth} is not provided, \code{size} will
also determines the width of the line used to draw the \strong{interval} (this allows line width and
point size to be modified together by setting only \code{size} and not \code{linewidth}). Raw
\code{size} values are transformed according to the \code{interval_size_domain}, \code{interval_size_range},
and \code{fatten_point} parameters of the \code{geom} (see above). Use the \code{point_size} aesthetic
(below) to set sub-geometry size directly without applying the effects of
\code{interval_size_domain}, \code{interval_size_range}, and \code{fatten_point}.}
\item{\code{stroke}: Width of the outline around the \strong{point} sub-geometry.}
\item{\code{linetype}: Type of line (e.g., \code{"solid"}, \code{"dashed"}, etc) used to draw the \strong{interval}
and the outline of the \strong{slab} (if it is visible). Use the \code{slab_linetype} or
\code{interval_linetype} aesthetics (below) to set sub-geometry line types separately.}
}

\strong{Slab-specific color and line override aesthetics}

\itemize{
\item{\code{slab_fill}: Override for \code{fill}: the fill color of the slab.}
\item{\code{slab_colour}: (or \code{slab_color}) Override for \code{colour}/\code{color}: the outline color of the slab.}
\item{\code{slab_alpha}: Override for \code{alpha}: the opacity of the slab.}
\item{\code{slab_linewidth}: Override for \code{linwidth}: the width of the outline of the slab.}
\item{\code{slab_linetype}: Override for \code{linetype}: the line type of the outline of the slab.}
}

\strong{Interval-specific color and line override aesthetics}

\itemize{
\item{\code{interval_colour}: (or \code{interval_color}) Override for \code{colour}/\code{color}: the color of the interval.}
\item{\code{interval_alpha}: Override for \code{alpha}: the opacity of the interval.}
\item{\code{interval_linetype}: Override for \code{linetype}: the line type of the interval.}
}

\strong{Point-specific color and line override aesthetics}

\itemize{
\item{\code{point_fill}: Override for \code{fill}: the fill color of the point.}
\item{\code{point_colour}: (or \code{point_color}) Override for \code{colour}/\code{color}: the outline color of the point.}
\item{\code{point_alpha}: Override for \code{alpha}: the opacity of the point.}
\item{\code{point_size}: Override for \code{size}: the size of the point.}
}

\strong{Deprecated aesthetics}

\itemize{
\item{\code{slab_size}: Use \code{slab_linewidth}.}
\item{\code{interval_size}: Use \code{interval_linewidth}.}
}

\strong{Other aesthetics} (these work as in standard \code{geom}s)

\itemize{
\item{\code{width}}
\item{\code{height}}
\item{\code{group}}
}

See examples of some of these aesthetics in action in \code{vignette("slabinterval")}.
Learn more about the sub-geom override aesthetics (like \code{interval_color}) in the
\link[ggdist]{scales} documentation. Learn more about basic ggplot aesthetics in
\code{vignette("ggplot2-specs")}.
}

\examples{

# geom_slabinterval() is typically not that useful on its own.
# See vignette("slabinterval") for a variety of examples of the use of its
# shortcut geoms and stats, which are more useful than using
# geom_slabinterval() directly.

}
\seealso{
See \code{\link[=geom_lineribbon]{geom_lineribbon()}} for a combination geom designed for fit curves plus probability bands.
See \code{\link[=geom_dotsinterval]{geom_dotsinterval()}} for a combination geom designed for plotting dotplots with intervals.
See \code{\link[=stat_slabinterval]{stat_slabinterval()}} for families of stats
built on top of this geom for common use cases (like \code{\link[=stat_halfeye]{stat_halfeye()}}).
See \code{vignette("slabinterval")} for a variety of examples of use.
}
\author{
Matthew Kay
}
