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Display a color raster image

Source: R/jamba-plots.r
imageDefault.Rd

Display a color raster image

Usage

imageDefault(
  x = seq_len(nrow(z) + 1) - 0.5,
  y = seq_len(ncol(z) + 1) - 0.5,
  z,
  zlim = range(z[is.finite(z)]),
  xlim = range(x),
  ylim = range(y),
  col = grDevices::hcl.colors(12, "YlOrRd", rev = TRUE),
  add = FALSE,
  xaxs = "i",
  yaxs = "i",
  xaxt = "n",
  yaxt = "n",
  xlab,
  ylab,
  breaks,
  flip = c("none", "x", "y", "xy"),
  oldstyle = TRUE,
  useRaster = NULL,
  fixRasterRatio = TRUE,
  maxRatioFix = 10,
  minRasterMultiple = NULL,
  rasterTarget = 200,
  interpolate = getOption("interpolate", TRUE),
  verbose = FALSE,
  ...
)

Arguments

x

numeric location of grid lines at which the intervals in z are measured.

y

numeric location of grid lines at which the intervals in z are measured.

z

numeric or logical matrix containing the values to be plotted, where NA values are allowed.

zlim

numeric range allowed for values in z.

xlim

numeric range to plot on the x-axis, by default the x range.

ylim

numeric range to plot on the y-axis, by default the y range.

col

character vector of colors to be mapped to values in z.

add

logical whether to add to an existing active R plot, or create a new plot window.

xaxs

character value compatible with graphics::par(xaxs), mainly useful for suppressing the x-axis, in order to produce a custom x-axis range, most useful to restrict the axis range expansion done by R by default.

yaxs

character value compatible with graphics::par(yaxs), mainly useful for suppressing the y-axis, in order to produce a custom y-axis range, most useful to restrict the axis range expansion done by R by default.

xaxt

character value compatible with graphics::par(xaxt), mainly useful for suppressing the x-axis, in order to produce a custom x-axis by other mechanisms, e.g. log-scaled x-axis tick marks.

yaxt

character value compatible with graphics::par(yaxt), mainly useful for suppressing the y-axis, in order to produce a custom y-axis by other mechanisms, e.g. log-scaled y-axis tick marks.

xlab

character label for the x-axis

ylab

character label for the y-axis

breaks

numeric vector of breakpoints for colors.

flip

character string, default "none", with optional axis flip:

  • none: perform no axis flip

  • x: flip x-axis orientation

  • y: flip y-axis orientation

  • xy: flip both x- and y-axis orientation

oldstyle

logical whether to delineate axis coordinates with an integer spacing for each column and row. Note: the only allowed parameter is TRUE, since useRaster=TRUE requires it. Therefore, this function for consistency will only output this format.

useRaster

logical whether to force raster image scaling, which is especially useful for large data matrices. In this case a bitmap raster image is created instead of polygons, then the bitmap is scaled to fit the plot space. Otherwise, individual polygons can be obscured on monitor screens, or may result in an extremely large file size when writing to vector image format such as 'PDF' or 'SVG'.

fixRasterRatio

logical whether to implement a simple workaround to the requirement for square pixels, in the event the x- and y-axis dimensions are not roughly equal.

maxRatioFix

integer maximum number of times any axis may be replicated to create a matrix of roughly equal x- and y-axis dimensions.

minRasterMultiple

integer minimum number of times the x- and y-axis will be duplicated, which is mostly useful when creating useRaster=TRUE for small matrix sizes, otherwise the result will be quite blurry. For example, minRasterMultiple=10 will duplicate each axis 10 times. Values are aplied to rows then columns. These values are automatically defined if minRasterMultiple is NULL and rasterTarget is not NULL.

rasterTarget

integer number of cells below which cells are duplicated in order to maintain detail. The default 200 defines minRasterMultiple=c(1,1) if there are 200 rows and 200 columns, or minRasterMultiple=c(1,100) if there are 200 rows but 2 columns.

interpolate

logical whether to implement image interpolation, by default TRUE when useRaster=TRUE.

verbose

logical whether to enable verbose output, useful for debugging.

...

Additional arguments are ignored.

Value

list composed of elements suitable to call graphics::image.default().

Details

This function augments the image function, in that it handles the useRaster parameter for non-symmetric data matrices, in order to minimize the distortion from image-smoothing when pixels are not square.

The function also by default creates the image map using coordinates where each integer represents the center point of one column or row of data, known in the default image function as oldstyle=TRUE. For consistency, imageDefault will only accept oldstyle=TRUE.

See also

image

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

Examples

ps <- plotSmoothScatter(doTest=TRUE)