imageScreen: Experiment-wide quality control plot of a cellHTS object
Description
Experiment-wide quality control plot of a scored cellHTS object.
Usage
imageScreen(x, ar = 3/5, zrange, map = FALSE, anno)
Arguments
x
a cellHTS object that has already been scored (i.e. containing the slot score).
ar
the desired aspect ration for the image plot (i.e. number of columns per number of rows)
zrange
the range of values to be mapped into the color
scale. If missing, zrange will be set to the range of x$score.
map
a logical value that determines whether an image map should be created using tooltips to indicate the annotation at each position. It only makes sense to set it to TRUE when the function is called from writeReport, so the default is FALSE.
anno
optional input giving the annotation information for the mapping. It should be a vector of the same size as
x$score. See details.
Details
This function creates an image plot that gives an overview of the whole set of score values
from the cellHTS object x, x$score.
When the annotation mapping is performed, by default, anno is set to:
The content of x$geneAnno$GeneSymbol (or x$geneAnno$GeneID, if the former is not available), if x is annotated;
The position within the plate, if x is not annotated yet.
data(KcViabSmall)
x <- KcViabSmall
x <- normalizePlates(x, normalizationMethod="median", zscore="-")
x <- summarizeReplicates(x)
imageScreen(x, zrange=c(-5,5))