CubeX is a python CGI and standalone script for the estimation of pairwise haplotype frequncies for biallelic genetic variants. The original paper in BMC Bioinformatics provides detail on the mathematics underlying this approach.
- cubex_web contains the cgi script and an html form (plus associated image)
- cubex-cl.py is the standalone python script that can be run at the command line
Please cite the following publication if you use this software in your published work
- Tom R Gaunt, Santiago Rodríguez and Ian NM Day. Cubic exact solutions for the estimation of pairwise haplotype frequencies: implications for linkage disequilibrium analyses and a web tool 'CubeX'. BMC Bioinformatics20078:428. DOI: 10.1186/1471-2105-8-428