% Generated by roxygen2: do not edit by hand
 % Please edit documentation in R/seuratFunctions.R

 \name{plotSeuratElbow}
 \alias{plotSeuratElbow}
 \title{plotSeuratElbow

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

 \usage{

 plotSeuratElbow(

   inSCE,
   significantPC = NULL,
   reduction = "pca",

   ndims = 20,

   externalReduction = NULL,

   interactive = FALSE

 )

 }
 \arguments{

 \item{inSCE}{(sce) object from which to compute the elbow plot (pca should
 be computed)}

 \item{significantPC}{Number of significant principal components to plot.
 This is used to alter the color of the points for the corresponding PCs.
 If \code{NULL}, all points will be the same color. Default \code{NULL}.}

 \item{reduction}{Reduction to use for elbow plot generation. Either
 \code{"pca"} or \code{"ica"}. Default \code{"pca"}.}

 \item{ndims}{Number of components to use. Default \code{20}.}
 

 \item{externalReduction}{Pass DimReduc object if PCA/ICA computed through
 other libraries. Default \code{NULL}.}

 
 \item{interactive}{Logical value indicating if the returned object should
 be an interactive plotly object if \code{TRUE} or a ggplot object if

 set to \code{FALSE}. Default is \code{FALSE}.}

 }
 \value{
 plot object
 }
 \description{

 plotSeuratElbow

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

 }

 \examples{
 data(scExample, package = "singleCellTK")
 \dontrun{

 sce <- runSeuratNormalizeData(sce, useAssay = "counts")
 sce <- runSeuratFindHVG(sce, useAssay = "counts")
 sce <- runSeuratScaleData(sce, useAssay = "counts")
 sce <- runSeuratPCA(sce, useAssay = "counts")
 plotSeuratElbow(sce)

 }
 }