plotSpatial3d.MicroarrayData: Plots a 3-dimensional spatial representation of a field

In HenrikBengtsson/aroma: An R Object-oriented Microarray Analysis package

Description

Plots a 3-dimensional spatial representation of a field.

Usage

## S3 method for class 'MicroarrayData'
plotSpatial3d(this, field, slide=1, pch=176, phi=40, theta=-25, xlab="x", ylab="y", zlab=field, log=NULL, ...)

Arguments

field	Name of the field to be plotted.
slide	Slide number to be plotted.
pch	Default value is 176 (small circle).
theta, phi	Angles defining the viewing direction. theta gives the azimuthal direction and phi the colatitude.
xlab,ylab,zlab	Labels for the x, the y, and the z axis.
log	The base of logarithm to be used for the z dimension. If NULL, the logarithm is not calculated.
...	Other arguments accepted by plot3d.

See Also

*plotXY() and *plotSpatial(), which are called by plot. plot3d. For more information see MicroarrayData.

Examples

  SMA$loadData("mouse.data")
  layout <- Layout$read("MouseArray.Layout.dat", path=system.file("data-ex", package="aroma"))
  raw <- RawData(mouse.data, layout=layout)
  ma <- getSignal(raw)
  subplots(4)
  plotSpatial3d(raw, "Rb", pch=".", col="red")
  plotSpatial3d(raw, "Gb", pch=".", col="green")
  plotSpatial3d(ma, "M", pch=".")
  plotSpatial3d(ma, "A", pch=".")

HenrikBengtsson/aroma documentation built on May 7, 2019, 12:56 a.m.