runSeuratScaleData Scales the input sce object according to the input parameters

runSeuratScaleData(
  inSCE,
  useAssay = "seuratNormData",
  scaledAssayName = "seuratScaledData",
  model = "linear",
  scale = TRUE,
  center = TRUE,
  scaleMax = 10,
  verbose = TRUE
)

Arguments

inSCE: (sce) object to scale
useAssay: Assay containing normalized counts to scale.
scaledAssayName: Name of new assay containing scaled data. Default seuratScaledData.
model: selected model to use for scaling data. Default "linear".
scale: boolean if data should be scaled or not. Default TRUE.
center: boolean if data should be centered or not. Default TRUE
scaleMax: maximum numeric value to return for scaled data. Default 10.
verbose: Logical value indicating if informative messages should be displayed. Default is TRUE.

Value

Scaled SingleCellExperiment object

Examples

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