plotBeadLocations {beadarray} | R Documentation |
Shows location of a set of beads on an array. The beads can either be defined to be all beads with particular ProbeIDs or individual beadIDs
plotBeadLocations(BLData, ProbeIDs = NULL, BeadIDs = NULL, array = 1, SAM = FALSE, xlab = "x-coordinate", ylab = "y-coordinate", main = paste("Bead", ProbeIDs,"locations"), ...)
BLData |
a BeadLevelList object |
ProbeIDs |
a vector of ProbeIDs to plot |
BeadIDs |
a vector of beadIDs to plot |
array |
numeric value specifying the array |
SAM |
if TRUE then the data is assumed to be taken from a SAM array and therefore hexagonal |
xlab |
character string specifying x-axis label |
ylab |
character string specifying y-axis label |
main |
character string specifying plot title |
... |
further graphical parameters to plot |
The outline of the hexagonal array is drawn and the locations of the specified beads are overlayed.
Plot is produced on the current graphical device.
Mark Dunning
data(BLData) #plot all beads with ProbeID 2 on array 1 plotBeadLocations(BLData, array=1, ProbeIDs=2, SAM=TRUE) #find all outliers on the first array and plot their locations o=findAllOutliers(BLData, 1) plotBeadLocations(BLData, BeadIDs=o, array=1, SAM=TRUE)