ElbowPlot

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

A toolkit for quality control, analysis, and exploration of single cell RNA sequencing data. 'Seurat' aims to enable users to identify and interpret sources of heterogeneity from single cell transcriptomic measurements, and to integrate diverse types of single cell data. See Satija R, Farrell J, Gennert D, et al (2015) <doi:10.1038/nbt.3192>, Macosko E, Basu A, Satija R, et al (2015) <doi:10.1016/j.cell.2015.05.002>, Stuart T, Butler A, et al (2019) <doi:10.1016/j.cell.2019.05.031>, and Hao, Hao, et al (2020) <doi:10.1101/2020.10.12.335331> for more details.

Paul Hoffman

Seurat

Tools for Single Cell Genomics

Andrew Butler

Saket Choudhary

Charlotte Darby

Jeff Farrell

Christoph Hafemeister

Yuhan Hao

Austin Hartman

Jaison Jain

Madeline Kowalski

Efthymia Papalexi

Patrick Roelli

Rahul Satija

Karthik Shekhar

Avi Srivastava

Tim Stuart

Kristof Torkenczy

Shiwei Zheng

Satija Lab and Collaborators 

ElbowPlot function

<dl><dt>object</dt>
<dd>Seurat object</dd>
<dt>ndims</dt>
<dd>Number of dimensions to plot standard deviation for</dd>
<dt>reduction</dt>
<dd>Reduction technique to plot standard deviation for</dd></dl>

Arguments

Quickly Pick Relevant Dimensions — ElbowPlot

<dl>

<dt>object</dt>
<dd>Seurat object</dd>


<dt>ndims</dt>
<dd>Number of dimensions to plot standard deviation for</dd>


<dt>reduction</dt>
<dd>Reduction technique to plot standard deviation for</dd>

</dl>

Quickly Pick Relevant Dimensions

ElbowPlot: Quickly Pick Relevant Dimensions

Description

Usage

Value

Arguments

Examples