admixr (version 0.9.1)

count_snps: 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)
# }
# NOT RUN {
# }