atSNP
atSNP (Affinity Test for regulatory SNP detection) is an R package for computing and testing large-scale motif-SNP interactions. It provides three main functions: (1) Computing the binding affinity scores for both the reference and the SNP alleles based on position weight matrices; (2) Computing the p-values of the affinity scores for each allele; (3) Computing the p-values of the affinity score changes between the reference and the SNP alleles.