segSites2allDoses: Site frequency spectrum

In timflutre/rutilstimflutre: Timothee Flutre's personal R code

Site frequency spectrum

Description

Convert the SFS of independent replicates into a matrix of allele doses.

Usage

segSites2allDoses(seg.sites, ind.ids = NULL, snp.ids = NULL, verbose = 0)

Arguments

seg.sites	list of haplotypes returned by scrm::scrm, each component of which corresponds to a matrix with haplotypes in rows and SNP in columns
ind.ids	vector with the identifiers of the genotypes
snp.ids	vector with the identifiers of the SNPs (if NULL, the SNP identifiers from seg.sites will be used if they aren't NULL, too)
verbose	verbosity level (0/1)

Value

matrix with diploid genotypes in rows and SNPs in columns

Author(s)

Timothee Flutre

timflutre/rutilstimflutre documentation built on Feb. 7, 2024, 8:17 a.m.