plotRidges: Plot ridges density plots for numeric matrix input
In jmw86069/jamba: Jam Base Methods

plotRidges

R Documentation

Plot ridges density plots for numeric matrix input

Description

Plot ridges density plots for numeric matrix input

Usage

plotRidges(
  x,
  xScale = c("none", "-log10", "log10"),
  xlab = NULL,
  ylab = NULL,
  title = ggplot2::waiver(),
  subtitle = ggplot2::waiver(),
  caption = ggplot2::waiver(),
  xlim = NULL,
  color_sub = NULL,
  rel_min_height = 0,
  bandwidth = NULL,
  adjust = 1,
  scale = 1,
  share_bandwidth = TRUE,
  ...
)

Arguments

`x`	`matrix` with numeric values, or a `list` of `numeric` vectors. In either case the data is converted to long-tall format before plotting.
`xScale`	`character` string indicating whether to transform the x-axis values: `"none"`: no transformation `"-log10"`: values are transformed with `log10(x)` and x-axis labels are adjusted accordingly. `"log10"`: values are transformed with `log10(1 + x)` except that negative values are transformed with `-log10(1 - x)`. The x-axis labels are plotted to account for the `log10(1 + x)` offset.
`xlab`, `ylab`	`character` strings optionally used as x-axis and y-axis labels.
`title`, `subtitle`, `caption`	`character` string values optionally passed to the relevant downstream `ggplot2` functions.
`xlim`	passed to `ggplot2::xlim()` to define the x-axis range.
`color_sub`	`character` vector named by `colnames(x)`, or when `x` is a `list`, `names(color_sub)` should contain `names(x)`, used to define specific colors for each ridge plot.
`rel_min_height`	`numeric` values passed to `ggridges::geom_density_ridges2()`
`bandwidth`	`numeric` value used to define the bandwidth density when `share_bandwidth=TRUE` which is default. The bandwidth affects the level of detail presented in each ridgeline, and when shared across ridgelines `share_bandwidth=TRUE` then each ridgeline will use the same consistent level of detail. In this case, it is passed to `ggridges::geom_density_ridges2()`. Note when `bandwidth=NULL` a default value is derived from the range of data to be plotted.
`adjust`	`numeric` used to adjust the default bandwidth only when `bandwidth=NULL`. It is intended as a convenient method to adjust the level of detail.
`scale`	`numeric` passed directly to `ggridges::geom_density_ridges2()`.
`share_bandwidth`	`logical` indicating whether to supply `ggridges::geom_density_ridges2()` a specific `bandwidth` to use for all ridgelines. When `share_bandwidth=FALSE` then each ridgeline is presented using the default bandwidth in `ggridges::geom_density_ridges2()`.
`...`	additional arguments are ignored.

Details

This function is a convenient wrapper for ggridges::geom_density_ridges2(), intended to be analogous to plotPolygonDensity() which differs by plotting each item in a separate plot panel using base graphics. This function plots each item as a ridgeline plot in the same plot window using ggplot2::ggplot().

Other jam plot functions: adjustAxisLabelMargins(), coordPresets(), decideMfrow(), drawLabels(), getPlotAspect(), groupedAxis(), imageByColors(), imageDefault(), minorLogTicksAxis(), nullPlot(), plotPolygonDensity(), plotSmoothScatter(), shadowText_options(), shadowText(), showColors(), smoothScatterJam(), sqrtAxis(), usrBox()