Retrieve a allele frequency and LD scores for pre-defined lists of variants

Data frame includes 1000 genomes metadata including sample sizes, allele frequency and LD score, separated by 5 super populations (EUR = European, AFR = African, EAS = East Asian, AMR = Admixed American, SAS = South Asian)

Usage

afl2_list(variantlist = c("reduced", "hapmap3")[1])

Arguments

variantlist

Choose pre-defined list. reduced = ~20k SNPs that are common in all super populations (default). hapmap3 = ~1.3 million hm3 SNPs

Value

Data frame containing ancestry specific LD scores and allele frequencies for each variant