Summarize SCtkExperiment

Creates a table of summary metrics from an input SCtkExperiment.

summarizeTable(inSCE, useAssay = "counts", expressionCutoff = 1700)

Arguments

inSCE

Input SCtkExperiment object. Required

useAssay

Indicate which assay to summarize. Default is "counts"

expressionCutoff

Count number of samples with fewer than expressionCutoff genes. The default is 1700.

Value

A data.frame object of summary metrics.

Examples

data("mouseBrainSubsetSCE")
summarizeTable(mouseBrainSubsetSCE)
#>                                      Metric Value
#> 1                           Number of Cells    30
#> 2                           Number of Genes 19972
#> 3          Average number of reads per cell  8008
#> 4          Average number of genes per cell  2395
#> 5           Cells with <1700 detected genes     6
#> 6 Genes with no expression across all cells  7923