segSites2snpCoords: Site frequency spectrum

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

Site frequency spectrum

Description

Make a data.frame of SNP coordinates (1-based) from the SFS of independent replicates.

Usage

segSites2snpCoords(seg.sites, snp.ids, chrom.len, prefix = "chr", verbose = 1)

Arguments

seg.sites	list of haplotypes returned by scrm, each component of which corresponds to a matrix with haplotypes in rows and SNP in columns
snp.ids	vector of identifiers (one per SNP)
chrom.len	chromosome length (same for all)
prefix	character string
verbose	verbosity level (0/1)

Value

data.frame with SNPs in rows and 2 columns (chr, pos)

Author(s)

Timothee Flutre

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