barplot-lattice-support {AllelicImbalance} | R Documentation |
Generates lattice barplots for ASEset objects. Two levels of plotting detail are provided: a detailed barplot of read counts by allele useful for fewer samples and SNPs, and a less detailed barplot of the fraction of imbalance, useful for more samples and SNPs.
barplotLatticeFraction(identifier, ...) barplotLatticeCounts(identifier, ...)
identifier, |
the single snp name to plot |
... |
used to pass on variables |
filter.pValue.fraction
is intended to remove p-value annotation with
very large difference in frequency, which could just be a sequencing
mistake. This is to avoid p-values like 1e-235 or similar.
sampleColour
User specified colours, either given as named colours
('red', 'blue', etc) or as hexadecimal code. Can be either length 1 for all
samples, or else of a length corresponding to the number of samples for
individual colouring.
Jesper R. Gadin, Lasse Folkersen
The ASEset
class which the barplot
function can be called up on.
a <- ASEset name <- rownames(a)[1] barplotLatticeFraction(identifier=name, x=a, astrand="+") barplotLatticeCounts(identifier=name, x=a, astrand="+")