Plot principal component elbow — plotPcElbow • pointillism

Calculate the principal component (PC) cutoff using a heuristic approach.

Usage

plotPcElbow(object, ...)

# S4 method for class 'Seurat'
plotPcElbow(object, minPct = 0.01, maxCumPct = 0.9)

Arguments

object: Object.
minPct: numeric(1) (0-1). Minimum percent standard deviation.
maxCumPct: numeric(1) (0-1). Maximum cumulative percen standard deviation.
...: Additional arguments.

Value

ggplot. Elbow point is saved in attr(object, "elbow").

Details

Automatically return the smallest number of PCs that match the minSD, minPct, and maxCumPct cutoffs.

Note

Updated 2023-08-16.

See also

Seurat::PCElbowPlot().
monocle3::plot_pc_variance_explained().

Examples

data(Seurat, package = "AcidTest")

## Seurat ====
object <- Seurat
plotPcElbow(object)