scater_logNormCounts Uses logNormCounts to log normalize input data

scater_logNormCounts Uses logNormCounts to log normalize input data

scater_logNormCounts(
  inSCE,
  logAssayName = "ScaterLogNormCounts",
  useAssay = "counts"
)

Arguments

inSCE	Input SingleCellExperiment object
logAssayName	New assay name for log normalized data
useAssay	Input assay

Value

inSCE Updated SingleCellExperiment object that contains the new log normalized data

Examples

data(sce_chcl, package = "scds")
sce_chcl <- scater_logNormCounts(sce_chcl,"logcounts", "counts")
print(sce_chcl)
#> class: SingleCellExperiment 
#> dim: 2000 2000 
#> metadata(0):
#> assays(2): counts logcounts
#> rownames(2000): C12orf73 RNU6-1256P ... FOXF1 PRR3
#> rowData names(1): gene
#> colnames(2000): CTGCTGTCAGGGTATG CAGTCCTTCGGTTAAC ... GATGCTATCAGCAACT
#>   ATTTCTGGTGATGATA
#> colData names(11): nGene nUMI ... ident doublet_true_labels
#> reducedDimNames(0):
#> spikeNames(0):
#> altExpNames(0):