Using Stata with PHASE and Haploview: Commands for importing and exporting data

Abstract

Modern genetics studies require the use of many specialty software programs for various aspects of the statistical analysis. PHASE is a program often used to reconstruct haplotypes from genotype data, and Haploview is a program often used to visualize and analyze single nucleotide polymorphism data. Three new commands are described for performing these three steps: 1) exporting genotype data stored in Stata to PHASE, 2) importing the resulting inferred haplotypes back into Stata, and 3) exporting the haplotype/single nucleotide polymorphism data from Stata to Haploview. © 2010 StataCorp LP.