Haploview is designed to simplify and expedite the process of Haplotype analysis by providing a common interface to several tasks relating to such analyses.

Haploview currently supports the following functionalities:

• LD & haplotype block analysis
• haplotype population frequency estimation
• single SNP and haplotype association tests
• permutation testing for association significance
• implementation of Paul de Bakker's Tagger tag SNP selection algorithm.
• automatic download of phased genotype data from HapMap
• visualization and plotting of PLINK whole genome association results including advanced filtering options

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