PlotRelDistDistribution: Plot distribution of relative distances.
In mevers/RNAModR: Functional Analysis of RNA Modifications

Description Usage Arguments Details Value Author(s)

Plot distribution of relative distances between sites from two txLoc objects. See 'Details'.

1 2	PlotRelDistDistribution(txLoc, txLocRef, flank = 1000, binWidth = 20, doBootstrap = TRUE)

`txLoc`	A `txLoc` object.
`txLocRef`	A `txLoc` object.
`flank`	An integer scalar or an integer vector of length 2; specifies the absolute maximum relative distance(s) used as a cutoff; by specifying `flank` as a vector, a non-symmetric window can be defined; e.g. 'flank = c(1000, 2000)' corresponds to a window defined by 1000 nt downstream and 2000 nt upstream of the reference site. Default is 1000.
`binWidth`	An `integer` scalar; specifies the spatial width in nt by which distances will be binned; default is 20.
`doBootstrap`	A `logical` scalar; if `YES` calculate 95 transcript region; default is `TRUE`.

The function calculates minimum distances per transcript region, between entries from txLoc relative to txLocRef. Relative distances are shown within a window (-flank, flank), where negative distances correspond to a feature from txLoc that is upstream of a site from txLocRef, and positive distances indicate a feature from txLoc that is downstream of a site from txLocRef. Relative distances are binned in bins of binWidth nt, and shown as an abundance histogram. If doBootstrap = TRUE, 95 are calculated and shown, based on an empirical bootstrap of relative distances.