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Re: st: Manhattan Plots in Stata (Genetics)


From   Phil Schumm <pschumm@uchicago.edu>
To   statalist@hsphsun2.harvard.edu
Subject   Re: st: Manhattan Plots in Stata (Genetics)
Date   Thu, 22 Sep 2011 10:47:08 -0500

On Sep 22, 2011, at 10:16 AM, irishcocacola wrote:
> Anyone out there using Stata for genome wide association studies (GWAS)?


Yes, e.g.,

    http://www.stata.com/meeting/chicago11/abstracts.html#huber

with hopefully more in the future.


> Do you have an interest in an ado file program that allows you to create manhattan plots in Stata?


This is a very useful thing to have, if for no other reason than that many GWAS authors make their results available in summary form (e.g., for each SNP, the allele frequencies for cases and controls); these can then easily be read into Stata and the p-values recalculated in different ways.  Your program would then allow people to plot the results.


> I have written one and would like to distribute it and get feedback.


I'll give it a try and let you know if I have any comments.


-- Phil


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