seuratComputeJackStraw: seuratComputeJackStraw Compute jackstraw plot and store the...

In singleCellTK: Comprehensive and Interactive Analysis of Single Cell RNA-Seq Data

Description

seuratComputeJackStraw Compute jackstraw plot and store the computations in the input sce object

Usage

seuratComputeJackStraw(inSCE, useAssay, dims = NULL)

Arguments

inSCE	(sce) object on which to compute and store jackstraw plot
useAssay	Assay containing scaled counts to use in JackStraw calculation.
dims	Number of components to test in Jackstraw. If NULL, then all components are used. Default NULL.

Value

Updated SingleCellExperiment object with jackstraw computations stored in it

Examples

data(scExample, package = "singleCellTK")
## Not run: 
sce <- seuratNormalizeData(sce, useAssay = "counts")
sce <- seuratFindHVG(sce, useAssay = "counts")
sce <- seuratScaleData(sce, useAssay = "counts")
sce <- seuratPCA(sce, useAssay = "counts")
sce <- seuratComputeJackStraw(sce, useAssay = "counts")

## End(Not run)

singleCellTK documentation built on Nov. 8, 2020, 5:21 p.m.