plotSeuratJackStraw Computes the plot object for jackstraw plot from the pca slot in the input sce object

plotSeuratJackStraw Computes the plot object for jackstraw plot from the pca slot in the input sce object

plotSeuratJackStraw(
  inSCE,
  dims = NULL,
  xmax = 0.1,
  ymax = 0.3,
  externalReduction = NULL
)

Arguments

inSCE

(sce) object from which to compute the jackstraw plot (pca should be computed)

dims

Number of components to plot in Jackstraw. If NULL, then all components are plotted Default NULL.

xmax

X-axis maximum on each QQ plot. Default 0.1.

ymax

Y-axis maximum on each QQ plot. Default 0.3.

externalReduction

Pass DimReduc object if PCA/ICA computed through other libraries. Default NULL.

Value

plot object

Examples

data(scExample, package = "singleCellTK")
if (FALSE) {
sce <- runSeuratNormalizeData(sce, useAssay = "counts")
sce <- runSeuratFindHVG(sce, useAssay = "counts")
sce <- runSeuratScaleData(sce, useAssay = "counts")
sce <- runSeuratPCA(sce, useAssay = "counts")
sce <- runSeuratJackStraw(sce, useAssay = "counts")
plotSeuratJackStraw(sce)
}