qc_filter: Filter cells based on QC results

In jmonlong/scCNAutils: Functions to analyze copy number aberrations in single-cell data

Filter cells based on QC results

Description

Filter cells based on QC results

Usage

qc_filter(
  ge_df,
  qc_df,
  max_mito_prop = 0.2,
  min_total_exp = 0,
  cells_sel = NULL
)

Arguments

ge_df	the input gene expression with a 'symbol' column and then one column per cell.
qc_df	the output data.frame from qc_cells
max_mito_prop	the maximum proportion of mitochondrial RNA.
min_total_exp	the minimum total cell expression
cells_sel	consider only these cells. Other cells filtered no matter what.

Value

ge_df with only the cells that passed the filters

Author(s)

Jean Monlong

jmonlong/scCNAutils documentation built on Feb. 8, 2025, 8:09 a.m.