mPopTag: The Multi-Population Tag SNP Picker
Zongli Xu, Norman Kaplan, and Jack A. Taylor
National Institute of Environmental Health
Division of Intramural Research
Environmental Diseases & Medicine
Epidemiology & Biostatistics Branches
The Multi-Population Tag Single Nucleotide Polymorphism (SNP) Picker (mPopTag) is a tool used to select or evaluate linkage disequilibrium (LD) tag SNPs for multiple populations. The program analyzes patterns of LD--measured by composite linkage disequilibrium (CLD) or r2--between polymorphic sites in a genome region for multiple populations. It also uses an agreedy algorithm to select a single set of near-minimum numbers of LD tag SNPs for multiple populations.
The mPopTag was developed in and is maintained at the NIEHS by Zongli Xu, Norman L. Kaplan and Jack A Taylor.
Xu Z, Kaplan NL, Taylor JA. Tag SNP selection for candidate gene association studies using HapMap and gene resequencing data. Eur J Hum Genet 2007 Oct;15(10):1063-70.
It can be run on Linux operating system.