Function reference • VplotR

Plotting fragment density graphs
`plotVmat()`	A function to plot a Vmat
`computeVmat()`	A function to compute Vmat.
`scaleVmat()`	A function to scale a Vmat.
`normalizeVmat()`	A function to normalized a Vmat to a given background.
`shuffleVmat()`	A function to shuffle a Vmat
Computing flanking nucleosome enrichment scores
`nucleosomeEnrichment()`	A function to compute nucleosome enrichment over a set of GRanges
`computeNucleosomeEnrichmentOverBackground()`	A function to compute nucleosome enrichment of a Vmat. Should only be used internally.
Helpers
`importPEBamFiles()`	A function to import paired end bam files as GRanges. Can be quite lengthy for .bam files with 5+ millions fragments.
`shiftATACGranges()`	A function to shift GRanges fragments by 5/-4. This is useful when dealing with fragments coming from ATAC-seq.
`getFragmentsDistribution()`	A function to compute sizes distribution for PE fragments

Reference