Skip to contents

GC modal QC filter

Source: R/quality_control.R
gc_modal_qc_filter.Rd

Removes cells that have high numbers of NA bins after GC modal correction

Usage

gc_modal_qc_filter(
  sce,
  assay = "counts_gc_modal",
  filter_prop = 0.05,
  verbose = TRUE
)

Arguments

sce

SingleCellExperiment object

assay

Assay containing GC modal corrected counts

filter_prop

Filter proportion to keep cells with less then X% NA

verbose

Logical. Message verbosity

Value

Filtered SingleCellExperiment