private haplotypes — private

Minor Allele Frequency filter.

Usage

private_haplotypes(data, strata = NULL, verbose = TRUE)

data: A tidy genomic dataframe Used internally in radr and might be of interest for users. How to get a tidy data frame ? Look into genometranslator tidy_genome.
strata: (optional) A strata file or object in the global environment. The strata is a tab-separated data frame with 2 columns: INDIVIDUALS and STRATA. If used, the strata will replace the current STRATA or POP_ID in the dataset. Use this argument if you want to find private haplotypes on another hierarchical level, other than POP_ID.

A list with private haplotypes per markers and strata and a summary of overall number of private haplotypes per strata.