# haploview

## Summary

+ **Module Name:** haploview
+ **Support Level:** Secondary Support
+ **Software Access Level:** Open Access
+ **Home Page:** [http://www.broad.mit.edu/mpg/haploview/index.php](http://www.broad.mit.edu/mpg/haploview/index.php)

## Software Description

Haploview is a graphical program for haplotype analysis. It can analyze
thousands of SNPs (tens of thousands in command line mode) in thousands
of individuals. It 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.
## General Linux

Haploview requires a large amount of memory so it is recommended that
you request more memory through the srun command line:

    srun --pty --mem=6G bash
    module load haploview
    haploview

To run haploview with more memory (in megabytes) use the -memory option:

    haploview -memory 2000

For additional information:

[http://www.broad.mit.edu/mpg/haploview/index.php](http://www.broad.mit.edu/mpg/haploview/index.php)