admixr: An Interface for Running 'ADMIXTOOLS' Analyses

count_snps

R Documentation

Count the number/proportion of present/missing sites in each sample

Description

Count the number/proportion of present/missing sites in each sample

Usage

count_snps(data, missing = FALSE, prop = FALSE)

Arguments

`data`	EIGENSTRAT data object.
`missing`	Count present SNPs or missing SNPs?
`prop`	Calculate the proportion instead of counts?

Value

A data.frame object with SNP counts/proportions.

Examples

## Not run: snps <- eigenstrat(download_data(dirname = tempdir()))

present_count <- count_snps(snps)
missing_count <- count_snps(snps, missing = TRUE)

present_proportion <- count_snps(snps, prop = TRUE)
missing_proportion <- count_snps(snps, missing = TRUE, prop = TRUE)

## End(Not run)

bodkan/admixr documentation built on Feb. 20, 2025, 4:45 p.m.