A tool for exploring multi-locus associations in candidate genes and regions.
Highlights:
hapConstructor automatically builds multi-locus SNP-sets to test for association in a case-control framework.
The multi-SNP sets considered need not be contiguous; they are built based on significance.
An important feature is that missing data imputation is carried out based on the full data, for maximal information and consistency.
HapConstructor is implemented in a Monte Carlo framework and naturally extends to allow for significance testing and false discovery rates that account for the construction process and to related individuals.