densityByProbeType {missMethyl} | R Documentation |
Plot the overall density distribution of beta values and the density distributions of the Infinium I and II probe types.
densityByProbeType(data, legendPos = "top", colors = c("black", "red", "blue"), main = "", lwd = 3, cex.legend = 1)
data |
A |
legendPos |
The x and y co-ordinates to be used to position the
legend. They can be specified by keyword or in any way which is
accepted by |
colors |
Colors to be used for the different beta value density distributions. Must be a vector of length 3. |
main |
Plot title. |
lwd |
The line width to be used for the different beta value density distributions. |
cex.legend |
The character expansion factor for the legend text. |
The density distribution of the beta values for a single sample is
plotted. The density distributions of the Infinium I and II probes are
then plotted individually, showing how they contribute to the overall
distribution. This is useful for visualising how using
SWAN
affects the data.
Jovana Maksimovic jovana.maksimovic@mcri.edu.au.
No return value. Plot is produced as a side-effect.
densityPlot
, densityBeanPlot
,
par
, legend
if (require(minfi) & require(minfiData)) { dat <- preprocessRaw(RGsetEx) datSwan <- SWAN(dat) par(mfrow=c(1,2)) densityByProbeType(dat[,1], main="Raw") densityByProbeType(datSwan[,1], main="SWAN") }