vcf_stats

calculates basic stats of each samples from vcfR format data

high heterozygosity is indicative of potential contamination

average read depth per individual

missing data per individual

Usage

vcf_stats(vcf, res_path, project)

Arguments

vcf

-> vcfR object

Value

table of statistics

Details

This function calculates average read depth, heterozygosity number of heterozygotes, number of reference and alternative homozygotes, missing data and total number SNPs of each sample in an vcfR object

Author

Tomas Hrbek August 2024

Examples

vcf_stats(vcf = my_vcf)
#> Error: object 'my_vcf' not found
vcf_stats(my_vcf)
#> Error: object 'my_vcf' not found