get_wsaf: Get within-sample allele frequencies

In mrc-ide/MIPanalyzer: Filtering and analysis of MIP data

Get within-sample allele frequencies

Description

Get within-sample allele frequencies from coverage and count data. Missing values can optionally be imputed by applying a summary function to the non NA values at each locus. The default summary function takes the mean of the non NA values.

Usage

get_wsaf(x, impute = TRUE, FUN = median, ...)

Arguments

x	object of class mipanalyzer_biallelic.
impute	whether to impute missing values.
FUN	function used to impute missing values. Default = 'median'
...	other arguments to pass to FUN.

mrc-ide/MIPanalyzer documentation built on Jan. 17, 2024, 7:16 p.m.