SlingshotDataSet: Extract Slingshot output

In slingshot: Tools for ordering single-cell sequencing

Description

This is a convenience function to extract a SlingshotDataSet from an object containing slingshot output.

Usage

SlingshotDataSet(data, ...)

## S4 method for signature 'SingleCellExperiment'
SlingshotDataSet(data)

## S4 method for signature 'SlingshotDataSet'
SlingshotDataSet(data)

Arguments

data	an object containing slingshot output.
...	additional arguments to pass to object-specific methods.

Value

A SlingshotDataSet object containing the output of slingshot.

Examples

data("slingshotExample")
rd <- slingshotExample$rd
cl <- slingshotExample$cl
library(SingleCellExperiment)
u <- matrix(rpois(140*50, 5), nrow = 50)
sce <- SingleCellExperiment(assays = list(counts = u), 
                            reducedDims = SimpleList(PCA = rd),
                            colData = data.frame(clus = cl))
sce <- slingshot(sce, clusterLabels = 'clus', reducedDim = 'PCA')
SlingshotDataSet(sce)

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