freq: Calculate allele frequencies by marker or sample

In andrewparkermorgan/argyle: Basic interface and QC for genotypes from Illumina Infinium arrays

Description

Calculate allele frequencies by marker or sample

Usage

freq(gty, by = c("markers", "samples"), na.rm = TRUE, counts = FALSE, ...)

Arguments

gty	a genotypes object with numeric allele encoding
by	margin over which to calculate frequencies (usually "markers")
na.rm	skip over missing genotypes in frequency calculations
counts	logical; if TRUE, report allele counts instead of relative frequencies
...	ignored

Value

a named vector of allele frequencies

andrewparkermorgan/argyle documentation built on May 10, 2019, 11:08 a.m.