seuratFindHVG: seuratFindHVG Find highly variable genes and store in the...

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

Description

seuratFindHVG Find highly variable genes and store in the input sce object

Usage

seuratFindHVG(inSCE, useAssay, hvgMethod = "vst", hvgNumber = 2000)

Arguments

inSCE	(sce) object to compute highly variable genes from and to store back to it
useAssay	Normalized assay inside the SCE object to use for hvg computation.
hvgMethod	selected method to use for computation of highly variable genes. One of 'vst', 'dispersion', or 'mean.var.plot'. Default "vst".
hvgNumber	numeric value of how many genes to select as highly variable. Default 2000.

Value

Updated SingleCellExperiment object with highly variable genes computation stored

Examples

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

## End(Not run)

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