QTDT - Quantitative TDT 2.2.1
(c) 1998-2001 Goncalo Abecasis (goncalo@well.ox.ac.uk)
This program implements tests described by
Abecasis et al, Am J Hum Genet 66:279-292 (2000)
Abecasis et al, Eur J Hum Genet 8:545-551 (2000)
and others
The following parameters are in effect:
QTDT Data File : keavney.dat (-dname)
QTDT Pedigree File : keavney.ped (-pname)
QTDT IBD Status File : merlin.ibd (-iname)
Missing Value Code : -99.999 (-xname)
Covariates : USER SPECIFIED (-c{p|s|u|-|})
Association Model : NONE (-a[a|d|f|m|o|p|r|t|w|-])
Full Model Variances : NON SHARED (-v{e|c|g|n|t|a|d|-|})
& POLYGENIC
& ADDITIVE
Null Model Variances : NON SHARED (-w{e|c|g|n|t|a|d|-|})
& POLYGENIC
Parent of Origin Effects : NONE (-o[f|t|m|p|-])
Monte-Carlo Permutations : 0 (-m9999)
Numeric Minimizer : NELDER AND MEAD (-n[n|p])
Transmission Scoring : FULL PEDIGREE (-t[n|p])
Additional Options
--dominance, --snp, --multi-allelic, --references,
--exclude-founder-phenotypes
Online documentation http://www.well.ox.ac.uk/asthma/QTDT
Comments, bugs: goncalo@well.ox.ac.uk
The following models will be evaluated...
NULL MODEL
Means = Mu
Variances = Ve + Vg
FULL MODEL
Means = Mu
Variances = Ve + Vg + Va
Testing trait: Angiotensin
=============================================
Testing marker: t-5491c
---------------------------------------------
Allele df(0) LnLk(0) df(V) LnLk(V) ChiSq p
1 : 398 540.73 397 523.96 33.54 7e-09 (401 probands)
Testing marker: a-5466c
---------------------------------------------
Allele df(0) LnLk(0) df(V) LnLk(V) ChiSq p
1 : 398 540.73 397 523.96 33.54 7e-09 (401 probands)
Testing marker: t-3892c
---------------------------------------------
Allele df(0) LnLk(0) df(V) LnLk(V) ChiSq p
1 : 398 540.73 397 523.96 33.53 7e-09 (401 probands)
Testing marker: a-240t
---------------------------------------------
Allele df(0) LnLk(0) df(V) LnLk(V) ChiSq p
1 : 398 540.73 397 523.97 33.52 7e-09 (401 probands)
Testing marker: t-93c
---------------------------------------------
Allele df(0) LnLk(0) df(V) LnLk(V) ChiSq p
1 : 398 540.73 397 523.97 33.52 7e-09 (401 probands)
Testing marker: t-1237c
---------------------------------------------
Allele df(0) LnLk(0) df(V) LnLk(V) ChiSq p
1 : 398 540.73 397 523.99 33.49 7e-09 (401 probands)
Testing marker: g2215a
---------------------------------------------
Allele df(0) LnLk(0) df(V) LnLk(V) ChiSq p
1 : 398 540.73 397 523.99 33.49 7e-09 (401 probands)
Testing marker: i/d
---------------------------------------------
Allele df(0) LnLk(0) df(V) LnLk(V) ChiSq p
1 : 398 540.73 397 523.99 33.49 7e-09 (401 probands)
Testing marker: g2350a
---------------------------------------------
Allele df(0) LnLk(0) df(V) LnLk(V) ChiSq p
1 : 398 540.73 397 523.99 33.48 7e-09 (401 probands)
Testing marker: 4656ct
---------------------------------------------
Allele df(0) LnLk(0) df(V) LnLk(V) ChiSq p
1 : 398 540.73 397 523.81 33.84 6e-09 (401 probands)