Filter cells based on the number of genes and mitochondrial reads.

Filter out cells based on minimum and maximum number of genes and maximum percentage mitochondrial reads. If cutoffs are not provided, the min_genes will be the 0.02 quantile, and the max genes will be 0.98 quantile and the mitochondrial percentage will be 10

Usage

filter_data(
  data,
  log_file = NULL,
  min_genes = NULL,
  max_genes = NULL,
  max_mt = 10
)

Arguments

data: A tibble with metadata.
log_file: Log file.
min_genes: Minimum number of genes per cell.
max_genes: Maximim number of genes per cell.
max_mt: Maximum percentage of mitochondrial reads per cell.

Value

Filtered data