recode_gametes: A function to assign each allele to a haplotype or an NA if...

In mccoy-lab/rhapsodi: R haploid sperm/oocyte data imputation

A function to assign each allele to a haplotype or an NA if not enough information is known

Description

This function reads along each gametes and replaces its read (0 or 1) with the corresponding haplotype (h1 or h2) based on the allele in each donor haplotype; alternatively, the read may be replaced with an NA if not enough information was known for phasing

Usage

recode_gametes(dt, complete_haplotypes)

Arguments

dt	Input matrix of gamete reads
complete_haplotypes	Inferred donor haplotypes

Value

dt matrix of gametes coded by haplotype at each position

mccoy-lab/rhapsodi documentation built on July 27, 2022, 3:56 a.m.