Cluster the cells using a manual cutoff

cluster_manually(ts, value, cutoff, transform = identity)

Arguments

ts	A tissue slide object.
value	The name of the column to use for classification. (enquoted)
cutoff	A value to use as the cutoff point for the manual classification of the cells.
transform	A callable (function) the apply to the data before classification.

Value

The tissue slide object with a value in the "manual_classification" attribute.

Examples

pancreas_slide <- tissue_slide(pancreas)
pancreas_slide <- cluster_manually(pancreas_slide,
  fitc,
  cutoff = 4,
  transform = log10
)
get_manual_classification(pancreas_slide)
#>   [1] 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1 1 1 1 1 2 1 1 1 1 1 1 1 1 1
#>  [38] 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
#>  [75] 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1 1 2 2 1 1 1 1
#>  [ reached getOption("max.print") -- omitted 66931 entries ]
#> attr(,"cutoff")
#> [1] 4
#> attr(,"transform")
#> function (x)  .Primitive("log10")
#> Levels: 1 2