barplot-lattice-support: lattice barplot inner functions for ASEset objects
In AllelicImbalance: Investigates Allele Specific Expression

Description Usage Arguments Details Author(s) See Also Examples

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.

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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.

sampleColourUser 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="+")