SummarizeFilters — SummarizeFilters • SpatialMap

Find QC metrics and summarize the results for each Region

Usage

SummarizeFilters(
  object,
  group.variable = "Region",
  across = NA,
  qc.var = ".qc_result",
  plot = F,
  other.threshold = 50
)

object: SpatialMap object
group.variable: What to group the data by. The default is SpatialMap Regions.
across: Deprecated. Alias for group.variable.
qc.var: The name of the QC results column in cellMetadata that will detail the QC results for each cell. Should represent a categorical variable, with values including "pass" and comma-separated reasons for why a cell failed QC (e.g., "DNA, signal sum").
plot: Whether to return a plot
other.threshold: An integer. If a category in qc.var has fewer cells than this number, it's represented as "Other" in the plots and data frame.