barplot-lattice-support {AllelicImbalance} | R Documentation

## lattice barplot inner functions for ASEset objects

### Description

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.

### Usage

    barplotLatticeFraction(identifier, ...)

    barplotLatticeCounts(identifier, ...)

### Arguments

`identifier,` | the single snp name to plot
`...` | used to pass on variables

### Details

`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.

### Author(s)

Jesper R. Gadin, Lasse Folkersen

### See Also

- The `ASEset` class which the barplot function can be called up on.

### Examples

    a <- ASEset
    name <- rownames(a)[1]

    barplotLatticeFraction(identifier=name, x=a, astrand="+")
    barplotLatticeCounts(identifier=name,  x=a, astrand="+")

[Package AllelicImbalance version 1.22.0 Index]