slingshot (version 2.1.1)

slingBranchID: Get slingshot branch labels

Description

Summarizes the lineage assignment weights from slingshot results as a single vector. This is represented by a categorical variable indicating which lineage (or combination of lineages) each cell is assigned to.

Usage

slingBranchID(x, ...)
# S4 method for ANY
slingBranchID(x, thresh = NULL)

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 at least this value (default = 1/L, for L lineages).

Value

a factor variable that assigns each cell to a particular lineage or set of lineages.

Examples

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

# }