runSeuratNormalizeData Wrapper for NormalizeData() function from seurat library Normalizes the sce object according to the input parameters

runSeuratNormalizeData Wrapper for NormalizeData() function from seurat library Normalizes the sce object according to the input parameters

runSeuratNormalizeData(
  inSCE,
  useAssay,
  normAssayName = "seuratNormData",
  normalizationMethod = "LogNormalize",
  scaleFactor = 10000,
  verbose = TRUE
)

Arguments

inSCE

(sce) object to normalize

useAssay

Assay containing raw counts to use for normalization.

normAssayName

Name of new assay containing normalized data. Default seuratNormData.

normalizationMethod

selected normalization method. Default "LogNormalize".

scaleFactor

numeric value that represents the scaling factor. Default 10000.

verbose

Logical value indicating if informative messages should be displayed. Default is TRUE.

Value

Normalized SingleCellExperiment object

Examples

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