plotPlate {prada}R Documentation

Plot a well statistic in false color representation.

Description

Plot a well statistic in false color representation. The plot is supposed to resemble the physical geometry of a microtitre plate.

Usage

plotPlate(x, nrow=8, ncol=12, main, xrange, col, 
  device, file, width, na.action="zero")

Arguments

x Numeric vector of length ncol*nrow
nrow Numeric of length 1. The number of rows of the plate.
ncol Numeric of length 1. The number of columns of the plate.
main Character of length 1. Plot title. This arguments gets passed on to text as the argument labels.
xrange Range of x that is mapped into the color scale.
col Character vector. Usually the names of two or three colors between which the color map is interpolated, using the function colorramp.
device Character. Name of a valid graphics device, e.g. x11, png, pdf.
file The file argument of the call to device, i.e. the name of the graphics output file.
width The width argument of the call to device, i.e. the width of the graphic.
na.action Character. One of "zero" or "omit". How should the wells for which x is NA be treated? For "zero", they are plotted as if the value were 0. For "omit", they are omitted.

Details

Value

The function produces a plot in the graphics device specified by the device argument.
It returns a list with two elements. The element which is a vector with the indices of those elements in x that were plotted (see argument na.action). The element coord is a length(which) by 4 matrix in which each row specifies the corners of a rectangle that contains a well. It is intended to be use as an argument to a subsequent call to imageMap.

Author(s)

Wolfgang Huber http://www.dkfz.de/abt0840/whuber

See Also

imageMap

Examples

  plotPlate(runif(96), main="example 1", col=c("#0000e0", "#e00000"), width=7)
  plotPlate(runif(384), nrow=16, ncol=24,  
     main="example 2", col=c("#0000e0", "white", "#e00000"), width=7)

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