filter_variants {seqCAT}R Documentation

Variant filtering

Description

Filter variants on sequencing depth.

Usage

filter_variants(data, filter_depth = 10)

Arguments

data

The dataframe containing the variant data to be filtered.

filter_depth

Threshold for variant depth (integer; default 10).

Details

This is a function for filtering variants on sequencing depth. Variants with a depth lower than 10 are removed by default, but can be changed in the function call.

Value

A data frame containing the filtered variants.

Examples

# Load test comparisons
data(test_comparison)

# Filter variants
filt_1 <- filter_variants(test_comparison)
filt_2 <- filter_variants(test_comparison, filter_depth = 20)

[Package seqCAT version 1.2.1 Index]