Remove top loci in a GRanges column by mean of specified values — .remove_top_by_mean • wigglescout

Remove top loci in a GRanges column by mean of specified values

Usage

.remove_top_by_mean(granges, quantile, columns)

Arguments

granges: GRanges object. Must have numerical mcols, and names of those needs to match with columns.
quantile: Top quantile. Must be a number between zero and 1.
columns: Which columns to use. If more than one, quantile will be selected according to means.

Value

A named list, fields ranges for the resulting GRanges, plus calculated values: quantile_value, filtered, na_values.