plot.SpliceSites {splicegear} | R Documentation |
plot objects.
plot.Probes(x, col="black", xlab = "sequence", ylab = "probes", add=FALSE, probepos.yscale=NULL, xlim=NULL, ...) plot.SpliceSites(x, col.typeI = "orange", col.typeI.window = "yellow", col.typeII = "red", add=FALSE, ylim=NULL, ...)
x |
object of class Probes or SpliceSites . |
col |
color argument for the probes. |
col.typeI |
color argument for the type I splice sites |
col.typeI.window |
color argument for the type I `window' |
col.typeII |
color argument for the type II splice sites |
add |
add the plot to an existing plot. Make a new plot if `FALSE' |
probepos.yscale |
scaling argument |
xlim, ylim |
range of plotting window |
xlab, ylab |
labels for the axis |
... |
optional parameters to be passed to the function plot . |
If the parameter main
is not specified, the function tries to
extract the attribute `name' from x
.
The two functions can be combined to display both objects on the same plot.
The range for the y-axis is returned whenever needed (see invisible
).
Laurent
"Standardized output for putative alternative splicing; a R package as an application to combine them with microarray data", Gautier L. Dao C. and Yang U.C., 2003, submitted.
data(spsites) plot(spsites, main=attr(spsites, "name")) sp.pData <- spsites@spsiteIpos.pData ##col <- as.integer(factor(sp.pData$tissue)) ##plot(spsites, col.typeI=col, main=attr("name", spsites))