slingAdjacency: Extract Slingshot adjacency matrix

In slingshot: Tools for ordering single-cell sequencing

Description

Extract the adjacency matrix from an object containing slingshot output.

Usage

slingAdjacency(x)

## S4 method for signature 'SlingshotDataSet'
slingAdjacency(x)

## S4 method for signature 'SingleCellExperiment'
slingAdjacency(x)

Arguments

x	an object containing slingshot output.

Value

the matrix of connections between clusters, inferred by the MST.

Methods (by class)

• SlingshotDataSet: returns the adjacency matrix between clusters from a SlingshotDataSet object.

• SingleCellExperiment: returns the adjacency matrix between clusters from a SingleCellExperiment object.

Examples

data("slingshotExample")
rd <- slingshotExample$rd
cl <- slingshotExample$cl
sds <- getLineages(rd, cl)
slingAdjacency(sds)

slingshot documentation built on Nov. 8, 2020, 5:51 p.m.