MAplot {affy} | R Documentation |
Relative M vs. A plots
Description
Create boxplots of M or M vs A plots. Where M is determined relative
to a specified chip or to a pseudo-median reference chip.
Usage
MAplot(object,...)
Mbox(object,...)
ma.plot(A, M, subset = sample(1:length(M), min(c(10000, length(M)))),
show.statistics=TRUE, span=2/3, family.loess="gaussian", cex = 2,plot.method=c("normal","smoothScatter","add"),add.loess = TRUE,lwd = 1, lty = 1, loess.col = "red",...)
Arguments
object |
An AffyBatch-class |
... |
Additional parameters for the routine |
A |
A vector to plot along the horizonal axis |
M |
A vector to plot along vertical axis |
subset |
A set of indices to use when drawing the loess curve |
show.statistics |
If true some summary statistics of the M values
are drawn |
span |
span to be used for loess fit. |
family.loess |
"guassian" or "symmetric" as in
loess . |
cex |
Size of text when writing summary statistics on plot |
plot.method |
a string specifying how the plot is to be
drawn. "normal" plots points, "smoothScatter" uses the
smoothScatter function. Specifying
"add" means that the MAplot should be added to the current
plot |
add.loess |
add a loess line to the plot |
lwd |
width of loess line |
lty |
line type for loess line |
loess.col |
color for loess line |
See Also
mva.pairs
Examples
if (require(affydata)) {
data(Dilution)
MAplot(Dilution)
Mbox(Dilution)
}
[Package
affy version 1.22.1
Index]