branchpointDetailsVisitTsne: Investigate Branchpoint - tSNE Visitation Groups

In farrellja/URD: URD

Description

For a given pair of segments, this shows the branchpoint fusion details in the form of a series of tSNE plots. Each moving window through pseudotime that was considered is rendered as a plot, in order of pseudotime. (So, the first plots are near the root.) Cells within the window are colored according to their visitation frequency from the two segments in a dual color plot. Red is visitation from one segment, green is visitation from the other segment. Cells that are visited equally will be yellow.

Usage

branchpointDetailsVisitTsne(
  object,
  seg.1,
  seg.2,
  file = NULL,
  file.width = 750,
  file.height = 600
)

Arguments

object	An URD object
seg.1	(Character) Segment 1 of fusion
seg.2	(Character) Segment 2 of fusion
file	(Character) Path to save plot to. (If NULL, will display live)
file.width	(Numeric) Width per plot (in pixels) if saving file.
file.height	(Numeric) Height per plot (in pixels) if saving file.

Value

Nothing. If file==NULL, will display a plot, otherwise will produce a file.

farrellja/URD documentation built on June 17, 2020, 4:48 a.m.