Usage
plotGoldenGate4OPA(object, cn.sum = NULL, sample = 1, plotRaw = FALSE, main = NULL, interact = FALSE, ...)
plotGenomePanels(object, cn.sum = NULL, sample = 1, plotRaw = FALSE, main = NULL, interact = FALSE, allLair=FALSE, panels = list(p1 = c(1, 2, 3, 22), p2 = c(5, 6, 7, 8, 9), p3 = c(10, 11, 12, 13, 14, 15, 21), p4 = c(4, 16, 17, 18, 19, 20, 98, 99)), ...)
Arguments
object
class SnpSetIllumina
cn.sum
list containing genomic states, see createCNSummary
sample
identifier to select the sample within the object
plotRaw
logical, plot raw data points
main
character, Title of plot
interact
logical, plot should be usable for interactive copy number determination interactiveCNselect
allLair
logical, TRUE: plot all LAIR values, FALSE: only plot LAIR values from probes that are heterozygous in the paired normal sample
panels
list, vectors of chromosomes for each panel
...
extra arguments are formwarded to plot