plot.VariantAlleleInfo: Plotting the variant allele information
In chedonat/DigitalPicoTools: DIGITAL ANALYSIS OF PICOGRAM QUANTITIES OF DNA

Description Usage Arguments Details Value See Also Examples

This is a generic function to plot different information on the variant allele counts. The information to plot is set by the parameter Value which can be eithe rof the following :

WellsFraction: Wells allele fraction of the variant
WellsCounts: Wells allele counts of the variants
ReadsFraction: Reads allele fraction of the variant
ReadsCounts: Reads allele counts of the variants

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## S3 method for class 'VariantAlleleInfo'
plot(object, region = NULL, samplingRatio = 1,
  value = "WellsFraction", main = "")

`region`	Region to be plotted. If NULL then the whole region covered by the variants will be considered
`samplingRatio`	Ratio of points to plot. Only 1 each samplingRatio points will be plotted.
`main`	The title of the plot. default: None
`x`	an `VariantAlleleInfo` object containing the list of variant and their genomic location and allele count information
`Value`	Information to plot. Can be one of WellsFraction, WellsCounts, ReadsFraction, ReadsCounts.

In both types, the paramater Value allow to specifie which variable will be represented on the y-axis. It can be 'Coverage' for the LFR Average Coverage and 'Length' for the LFR lengths.

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getVariantAlleleInfo, getVariantCoverageTable, VariantAlleleInfo

#Example 1:
vcffile<-system.file('extdata','LFR_11152_Tissue_chr22_1000variants.vcf.gz',package='DigitalPicoTools')
AlleleInfo_df = getVariantAlleleInfo(vcffile)
plot(AlleleInfo_df,'chr22')