plotMA {limma} | R Documentation |
Creates an MA-plot with color coding for various sort of control spots.
plotMA(MA,array=1,pch=16,status=NULL, values=c("gene","blank","buffer","utility","negative","calibration","ratio"), col=c("black","yellow","orange","pink","brown","blue","red"), cex=c(0.1,0.6,0.6,0.6,0.6,0.6,0.6))
MA |
list with components M containing log-ratios and A containing average intensities |
array |
integer giving the array to be plotted. Corresponds to columns of M and A . |
pch |
vector or list of plotting characters |
status |
character vector giving the control status of each spot on the array.
If NULL then subsequent arguments are ignored. |
values |
character vector giving unique values of status corresponding to control states of interest |
col |
vector of colors, of the same length as values |
cex |
numeric vector of the same length as values giving sizes for plot symbols |
See points
for possible values for pch
, col
and cex
.
A plot is created on the current graphics device.
Gordon Smyth
An overview of diagnostic functions available in LIMMA is given in 6.Diagnostics.