plotSA {limma} | R Documentation |
Plot log residual standard deviation versus average log expression for a fitted microarray linear model.
plotSA(fit, xlab="Average log-expression", ylab="log2(sigma)", zero.weights=FALSE, pch=16, cex=0.2, ...)
fit |
an MArrayLM object. |
xlab |
character string giving label for x-axis |
ylab |
character string giving label for y-axis |
pch |
vector or list of plotting characters. Default is integer code 16 which gives a solid circle. |
cex |
numeric expansion factor for plotting character. Defaults to 0.2. |
zero.weights |
logical, should spots with zero or negative weights be plotted? |
... |
any other arguments are passed to plot |
This plot is used to check the mean-variance relationship of the expression data, after fitting a linear model.
See points
for possible values for pch
and cex
.
A plot is created on the current graphics device.
Gordon Smyth
An overview of diagnostic functions available in LIMMA is given in 09.Diagnostics.