Derive the cuts a specification places within parent populations

For each parent named in the specification's cut_scope (see resolve_population_parents()), the parent is scored in this sample and every marker a child places within it is cut on the parent's events alone, with the same rule the CD45+ cuts use (resolve). Bounds for bright and intermediate requirements are derived within the parent too. Parents are processed outermost first, so a parent that is itself scoped is scored with its own scoped cuts.

Usage

derive_scoped_cuts(
  tmat,
  thr,
  parent,
  spec,
  hi_thr = NULL,
  resolve = NULL,
  min_events = 200L
)

Arguments

tmat

transformed marker matrix.

thr

named CD45+ cuts.

parent

the CD45+ mask.

spec

resolved specification.

hi_thr

CD45+ upper bounds, from derive_intermediate_bounds().

resolve

function(marker, x) returning a resolve_threshold() result for values x. Default: resolve_threshold() with its defaults.

min_events

fewest parent events a cut is derived from. Default 200, the least the tail rule accepts.

Value

list keyed by parent population, each list(thr, hi, details, n_parent), or NULL when the specification scopes nothing.

Details

A parent with fewer than min_events events gives no cut: its children are reported unavailable in that sample rather than cut on a handful of cells.