get_anc_alleles: Get ancestral state of alleles

In Snitkin-Lab-Umich/snitkitr: Functions Commonly Used in the Snitkin Lab

Description

Rereference alleles based on rooted tree

Usage

get_anc_alleles(tree, mat, seed_int = 1, parallelization = "multisession")

Arguments

tree	rooted tree
mat	allele matrix (rows are variants, columns are samples)
seed_int	Number to use as seed for future.apply(). Default = 1.
parallelization	Input to future::plan; either "multisession" (default) or "multicore" (always sets to 2 cores aka "workers")

Value

matrix of most likely ancestral allele for each row in allele matrix and probability that that is the ancestral state

Snitkin-Lab-Umich/snitkitr documentation built on April 21, 2021, 10:48 a.m.