match_ind_maf {fcfdr}

Function to downsample independent SNPs to match MAF distribution of whole set.

Description

Matches MAF distribution of independent set of SNPs to MAF distribution of whole set of SNPs to avoid MAF-based confounding.

Usage

match_ind_maf(maf, indep_index)

Arguments

maf

minor allele frequencies of (all) SNPs

indep_index

indices of independent SNPs

Details

Must supply maf values from the whole data set, not just the independent SNPs.

Value

indices of independent SNP in chosen in sample