seuratElbowPlot: seuratElbowPlot Computes the plot object for elbow plot from...

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

Description

seuratElbowPlot Computes the plot object for elbow plot from the pca slot in the input sce object

Usage

seuratElbowPlot(inSCE, significantPC = NULL, reduction = "pca")

Arguments

inSCE	(sce) object from which to compute the elbow plot (pca should be computed)
significantPC	Number of significant principal components to plot. This is used to alter the color of the points for the corresponding PCs. If NULL, all points will be the same color. Default NULL.
reduction	Reduction to use for elbow plot generation. Either "pca" or "ica". Default "pca".

Value

plot object

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")
seuratElbowPlot(sce)

## End(Not run)

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