slingBranchGraph: Construct graph of slingshot branch labels

In kstreet13/slingshot: Tools for ordering single-cell sequencing

Construct graph of slingshot branch labels

Description

Builds a graph describing the relationships between the different branch assignments.

Usage

slingBranchGraph(x, ...)

## S4 method for signature 'ANY'
slingBranchGraph(x, thresh = NULL, max_node_size = 100)

Arguments

x	an object containing slingshot output, generally either a PseudotimeOrdering or SingleCellExperiment.
...	additional arguments passed to object-specific methods.
thresh	weight threshold for assigning cells to lineages. A cell's weight on a certain lineage must be greater than this value (default = 1/L, for L lineages).
max_node_size	the size of the largest node in the graph, for plotting (all others will be drawn proportionally). Default is 100. See igraph.plotting for more details.

Value

an igraph object representing the relationships between lineages.

Examples

data("slingshotExample")
rd <- slingshotExample$rd
cl <- slingshotExample$cl
pto <- slingshot(rd, cl)
slingBranchGraph(pto)
  

kstreet13/slingshot documentation built on April 6, 2023, 11:12 p.m.