QTDT - Input Files
QTDT takes as input a family data set. For each individual
a set of marker genotypes, quantitative phenotypes and covariates
may be specified. The data is then analysed with the association
model you specify.
QTDT obtains all input data from three files:
Describes family relationships and includes marker genotypes,
quantitative phenotypes and covariates. See also the important
information on encoding missing data.
Describes the organization of the pedigree file.
List the IBD state probabilities at each marker. These may be
calculated an external application such as simwalk2, using the
included applications prelude and finale.
Input file names are specified on the command line using the
-d (datafile), -p (pedigree) and -i (ibd)
options. For example to use the files sibpair.dat, sibpair.ped
and sibpair.ibd as input run the command:
prompt> qtdt -d sibpair.dat -p sibpair.ped -i sibpair.ibd
The -x option is used to specify the missing