plotROIFrequencies: Generates plot of wcRatios
In drashley/InvertR: Finds putative inversions in Strand-seq sequencing data

Description Usage Arguments Author(s)

Generates single plot of wcRatios for fileFrequencies

plotROIFrequencies(fileLocation, fileName, fileFrequencies, chr, binSize,
  startLoc, endLoc, ROIname = "wholeChr", gapfile = 0,
  callingThreshold = 0.66, ROI = 0, padding = 0, strand = TRUE,
  png = TRUE)

`fileLocation`	Specifies directory to save file
`fileName`	Unique identifier of input file
`fileFrequencies`	Dataframe of wcRatio used to generate histrogram
`chr`	Genomic coordinate chromosome
`binSize`	The number of reads in each bin used to calculate wcRatio
`startLoc`	Genomic coordinate start position
`endLoc`	Genomic coordinate end position
`ROIname`	Genomic coordinate number
`gapfile`	Input file of gaps to plot
`callingThreshold`	Threshold line used to find ROIs
`ROI`	ROI location table
`padding`	Number of bases to extend beyond genomic coordinates listed in regionTable e.g. [10000]
`strand`	if`TRUE` plot reads above histrogram
`png`	if`TRUE` Save png