Pedigree structure file


SeqSIMLA can simulate the same pedigree structures as specified in the pedigree structure file. The format in the pedigree structure file is the same as the format in the PLINK fam file. The file has six columns separated by spaces or tabs:
Family_ID (a string or a number for the ID of the family)
Individual_ID (a string or a number for the ID of the individual)
Father_ID (a string or a number for the ID of the father)
Mother_ID (a string or a number for the ID of the mother)
Sex (1=male; 2=female)
Affection_status (1=unaffected; 2=affected)
For example,

FAM1 1 0 0 1 1
FAM1 2 0 0 2 1
FAM1 3 1 2 1 2
FAM1 4 0 0 2 1
FAM1 5 3 4 1 2
FAM2 1 0 0 1 1
FAM2 2 0 0 2 1
FAM2 3 1 2 1 2

Note that SeqSIMLA will ignore the affection status specified in the 6th column. If a person needs to be simulated with a pre-specified affection status, the proband file should be used.

Related options: -famfile