ElbowPlot: Quickly Pick Relevant Dimensions

In satijalab/seurat: Tools for Single Cell Genomics

Quickly Pick Relevant Dimensions

Description

Plots the standard deviations (or approximate singular values if running PCAFast) of the principle components for easy identification of an elbow in the graph. This elbow often corresponds well with the significant dims and is much faster to run than Jackstraw

Usage

ElbowPlot(object, ndims = 20, reduction = "pca")

Arguments

object	Seurat object
ndims	Number of dimensions to plot standard deviation for
reduction	Reduction technique to plot standard deviation for

Value

A ggplot object

Examples

data("pbmc_small")
ElbowPlot(object = pbmc_small)

satijalab/seurat documentation built on May 11, 2024, 4:04 a.m.