Check SNPs mapped to the same position — check.snp.same.position • SNPtools

Identifies groups of SNPs that are mapped to the exact same genomic position on each chromosome. Returns a list where each element corresponds to one group of overlapping SNPs.

Identifies SNPs that share the same position on the same chromosome.

check.snp.same.position(snpmap)

check.snp.same.position(snpmap)

Arguments

snpmap: Data frame with columns `Chromosome`, `Position`, and `Name`.

Value

A list of character vectors, each with names of SNPs found at the same position.

List of SNP groups sharing positions.

Examples

df <- data.frame(Chromosome = c(1, 1, 2),
                 Position = c(100, 100, 200),
                 Name = c("SNP1", "SNP2", "SNP3"))
check.snp.same.position(df)
#> Analyzing chromosome 1
#> Analyzing chromosome 2
#> [[1]]
#> [1] "SNP1" "SNP2"
#>