gr.flatmap: gr.flatmap

In mskilab/gTrack: Plotting multiple tracks of complex genomic data across multiple genomic windows

gr.flatmap

Description

Takes GRanges pile and maps onto a flattened coordinate system defined by windows (GRanges object) a provided "gap" (in sequence units). If squeeze == TRUE then will additionally squeeze ranges into xlim.

Usage

gr.flatmap(
  gr,
  windows,
  gap = 0,
  strand.agnostic = TRUE,
  squeeze = FALSE,
  xlim = c(0, 1)
)

Arguments

gr	GRanges pile to flatten
windows	GRanges pile of windows defining the coordinate system
gap	TODO
strand.agnostic	TODO
squeeze	TODO
xlim	TODO

Details

output is list with two fields corresponding to data frames: $grl.segs = data frame of input gr's "lifted" onto new flattened coordinate space (NOTE: nrow of this not necessarily equal to length(gr)) $window.segs = the coordinates of input windows in the new flattened (and squeezed) space

Value

TODO

mskilab/gTrack documentation built on March 28, 2024, 6:18 p.m.