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

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  • J. Charles Huber Jr.

    () (Texas A&M Health Science Center School of Rural Public Health)

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    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 geno- type 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. Copyright 2010 by StataCorp LP.

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    Bibliographic Info

    Article provided by StataCorp LP in its journal Stata Journal.

    Volume (Year): 10 (2010)
    Issue (Month): 3 (September)
    Pages: 359-368

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    Handle: RePEc:tsj:stataj:v:10:y:2010:i:3:p:359-368

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    Related research

    Keywords: phaseout; phasein; haploviewout; genetics; haplotypes; SNPs; PHASE; haploview;

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