beadarray (version 2.22.2)

plotBeadLocations: Plot bead locations

Description

Can plot where specified beads, or bead types were located on the array surface

Usage

plotBeadLocations(BLData, ProbeIDs = NULL, BeadIDs = NULL, array = 1, SAM = FALSE, xCol = "GrnX", yCol = "GrnY", xlab = "x-coordinate", ylab = "y-coordinate", horizontal = TRUE, main = paste("Bead", ProbeIDs, "locations"), ...)

Arguments

BLData

a beadLevelData object

ProbeIDs

a list of ArrayAddress IDs to plot

BeadIDs

a list of beads (rows in the beadLevelData object) to plot

array

the number of the section to plot

SAM

if TRUE the array is treated as a Sentrix Array Matrix (hexagonal)

xCol

column name for the x coordinates

yCol

column name for the x coordinates

xlab

optional label for the x axis

ylab

optional label for the y axis

horizontal

if TRUE the longest edge of the array surface will be plotted on the x axis

main

an optional title for the plot

...

any arguments to be passed to plots

Value

plot to current graphical device

Examples

if(require(beadarrayExampleData)){

data(exampleBLData)

##Plot location of first 100 beads as they are listed in beadLevelData object

plotBeadLocations(exampleBLData, BeadIDs = 1:100, array=1, horizontal = FALSE)



}