3.2 Sample pedcheck parameter file

Files for pedcheck may be found in the `Pedcheck' subdirectory of `MORGAN_Examples'. Below is the sample parameter file `check.par' for pedcheck:

input pedigree file `check.ped' input pedigree size 30 input pedigree record gender absent input pedigree record observed present assign gender output pedigree chronological output pedigree file `check.oped'

The `assign gender' statement requests that pedcheck determine gender, when possible, and output that information to the output pedigree file. The gender determination is made based on the default order for the listing of parents, which is father followed by mother. Individuals who are not parents will be assigned missing gender, `0'. `output pedigree chronological' causes the pedigree to be sorted into chronological order in the output pedigree file, first by component, then by individual name. MORGAN refers to each connected pedigree (i.e., distinct family) in a file as a component. The first individual in the input listing who is not genealogically connected to individual 1 defines component 2, and the first who is not connected to either of these defines component 3, etc. Although pedcheck groups individuals by their MORGAN--assigned component numbers in the output pedigree file, it does not list the component numbers. That is, the first three columns of the output file are just as they were in the input file: individual name, father's name, mother's name.