Haploview is a software tool developed by the Broad Institute and aims to simplify and facilitate the process of haplotype analysis.  The tool supports a wide range of functions including LD & haplotype block analysis, haplotype population frequency estimation, single SNP and haplotype association tests and permutation testing for association significance.  See the HAPLOVIEW home page for a full description of functionality.

For more information see:

The tutorial at http://www.broadinstitute.org/scientific-community/science/programs/medical-and-population-genetics/haploview/tutorial

The user manual at http://www.broadinstitute.org/science/programs/medical-and-population-genetics/haploview/user-manual

Click on the icon below to access the program.