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st: RE: Haplotype Estimation


From   "Huber, Chuck" <JHuber@sph.uth.tmc.edu>
To   <statalist@hsphsun2.harvard.edu>
Subject   st: RE: Haplotype Estimation
Date   Tue, 19 Aug 2003 10:21:55 -0500

Hi Andrea,

I use Stata for a variety of genetic tests and I am not aware of any
implementations of Shaid's score tests in Stata (that doesn't mean they
don't exist though).

You might check David Clayton and Adrian Mander's websites - they've
both written some very useful programs and may have links to others.

Please let us know if you find anything.

Chuck Huber
Human Genetics Center
University of Texas Health Science Center at Houston
Houston, Texas, USA


-----Original Message-----
From: Andrea Baccarelli [mailto:andreastata5@hotmail.com] 
Sent: Monday, August 18, 2003 7:25 PM
To: statalist@hsphsun2.harvard.edu
Subject: st: Haplotype Estimation

Two questions related to the estimation of haplotypes from genotype data

from phase uncertainty:

1. Schaid (Am J Hum Gen 2002) proposed the use of the score test for 
assessing the association between haplotype data estimated using the 
EM-algorithm and any given trait assessed in the same subject. Does
Stata 
allow to perform a Score test?

2. Is there any way to perform the such Score test using the command 
qhapipf?

Thanks,
Andrea

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