shared_genotypes_relatedness: shared_genotypes_relatedness

In bjstewart1/GenotypeMixtures: Get donors from a set of souporcell outputs and an experimental design

shared_genotypes_relatedness

Description

Function that compares genotype calls across two experiments and calculates a "relatedness" score as a reimplementation of the Somalier approach Pedersen et al. 2020 (10.1186/s13073-020-00761-2)

Usage

shared_genotypes_relatedness(
  vcf1,
  vcf2,
  shared,
  experiment_1_name,
  experiment_2_name
)

Arguments

vcf1	the first vcf
vcf2	the second vcf
shared	numeric- the number of shared genotypes between the experiments
experiment_1_name	the name of experiment 1
experiment_2_name	the name of experiment 2

Value

a data frame of the shared genotype clusters between the two experiments, returning the relatedness score.

Examples

#' shared_genotypes_relatedness()

bjstewart1/GenotypeMixtures documentation built on Aug. 27, 2022, 2:01 p.m.