seuratReductionPlot: seuratReductionPlot Plots the selected dimensionality...

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

Description

seuratReductionPlot Plots the selected dimensionality reduction method

Usage

seuratReductionPlot(
  inSCE,
  useReduction = c("pca", "ica", "tsne", "umap"),
  showLegend = FALSE
)

Arguments

inSCE	(sce) object which has the selected dimensionality reduction algorithm already computed and stored
useReduction	Dimentionality reduction to plot. One of "pca", "ica", "tsne", or "umap". Default "umap".
showLegend	Select if legends should be shown on the output plot or not. Either "TRUE" or "FALSE". Default FALSE.

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")
seuratReductionPlot(sce, useReductionPlot = "pca")
## End(Not run)

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