distConsecutiveSnps: Distance between consecutive SNPs

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

Distance between consecutive SNPs

Description

For each pair of consecutive SNPs, return the number of "blocks" (i.e. nucleotides) between both SNPs (to be coherent with distSnpPairs).

Usage

distConsecutiveSnps(snp.coords, only.chr = NULL, nb.cores = 1)

Arguments

snp.coords	data.frame with SNP identifiers as row names, and with two columns "chr" and "coord" or "pos"
only.chr	identifier of a given chromosome
nb.cores	the number of cores to use

Value

list with one component per chromosome

Author(s)

Timothee Flutre

See Also

estimLd

Examples

## Not run: ## make fake data
snp.coords <- data.frame(chr=c("chr1","chr1","chr1","chr2"),
                         pos=c(150, 131, 171, 17))
rownames(snp.coords) <- paste0("snp", 1:nrow(snp.coords))

distConsecutiveSnps(snp.coords)

## End(Not run)

timflutre/rutilstimflutre documentation built on Feb. 12, 2025, 11:35 p.m.