plotScanpyPCA

plotScanpyPCA

plotScanpyPCA(
  inSCE,
  reducedDimName = "scanpyPCA",
  color = NULL,
  title = "",
  legend = "right margin"
)

Arguments

inSCE

Input SingleCellExperiment object.

reducedDimName

Name of new reducedDims object containing Scanpy PCA.

color

Keys for annotations of observations/cells or variables/genes.

title

Provide title for panels either as string or list of strings

legend

Location of legend, either 'on data', 'right margin' or a valid keyword for the loc parameter of Legend.

Value

plot object

Examples

data(scExample, package = "singleCellTK")
if (FALSE) {
sce <- runScanpyNormalizeData(sce, useAssay = "counts")
sce <- runScanpyFindHVG(sce, useAssay = "scanpyNormData", method = "seurat")
sce <- runScanpyScaleData(sce, useAssay = "scanpyNormData")
sce <- runScanpyPCA(sce, useAssay = "scanpyScaledData")
plotScanpyPCA(sce)
}