slingshot (version 2.1.1)

slingBranchGraph: Construct graph of slingshot branch labels

Description

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

Usage

slingBranchGraph(x, ...)
# S4 method for 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

# NOT RUN {
data("slingshotExample")
rd <- slingshotExample$rd
cl <- slingshotExample$cl
pto <- slingshot(rd, cl)
slingBranchGraph(pto)
  
# }