Filter by mean UMI count threshold on GTsummary — filter_redeemR_by

Keeps variants with mean(Freq) >= mean_count_cutoff across rows in @GTsummary.filtered, enforces a minimum number of rows per variant, updates @V.fitered, and rebuilds matrices and depth matrix.

Usage

filter_redeemR_by_meancount(
  redeemR_obj,
  mean_count_cutoff = 2,
  min_cells_per_variant = 2,
  QualifiedTotalCts = NULL,
  filter_name = NULL
)

Arguments

redeemR_obj: A redeemR object.
mean_count_cutoff: Numeric mean UMI threshold (default 2).
min_cells_per_variant: Integer; minimum rows per variant (default 2).
QualifiedTotalCts: Optional “QualifiedTotalCts” for depth rebuilding.
filter_name: Optional label for matrix-dimension printing.

Value

The updated redeemR object.