image.splitSet: Illustrate Split Sets
In adSplit: Annotation-Driven Clustering

Description Usage Arguments Details Value Author(s) See Also Examples

View source: R/image.splitSet.R

Draws an image of all splits, one per row, of a splitSet object. Each column corresponds to a patient.

## S3 method for class 'splitSet'
image(x, filter.fdr = 1, main = "", max.label.length = 50, 
               full.names = TRUE, xlab = NULL, sample.labels = FALSE, 
               col = c("yellow", "red"), invert = FALSE, 
               outfile = NULL, res = 72, pointsize = 7, ...)

`x`	the object of class `splitSet` to be illustrated.
`filter.fdr`	worst acceptable false discovery rate for the shown set of splits. All splits with q-values below this level are dropped from the image.
`main`	a title for the image.
`max.label.length`	Maximal length of the annotations shown to the right of the image. Longer annotations are truncated.
`full.names`	Show full names for annotations instead of their identifiers only.
`xlab`	additional annotation on the x-axis.
`sample.labels`	whether names of samples are to be shown on the x-axis.
`col`	two strings encoding the colors to be used to illustrate to which group a sample is attributed.
`invert`	whether to draw in white on black background.
`outfile`	the filename on which to draw the image in postscript format. The default is `NULL`, meaning to produce the image interactively.
`res`	resolution for bitmap output on postscript.
`pointsize`	size of font.
`...`	further arguments passed to `image`.

The set of splits given is illustrated as an image. Each row corresponds to an annotation, each column to a patient. In position (x,y), the association of patient x to a group with respect to annotation y is coded as colors (yellow and red by default). The image is ordered by hierarchical clustering such that similar patients and similar splits are brought closer together.

Always returns NULL.

Claudio Lottaz

adSplit