GOLD - Pedigree File Format

Pedigree files should be in the standard pre-makeped linkage format. Each line describes a single individual, and has the following format:

<famid> <pid> <fatid> <motid> <sex> <genotype_1> ... <genotype_n>

<famid> is a unique identifier for each family, and within each family <pid> is a unique identifier for an individual. <fatid> and <motid> identify the individuals father and mother (if this line refers to a founder, these should be set to zero). <sex> denotes the individuals sex, using the convention 1=male, 2=female. Each <genotype> is encoded as two integer allele numbers. The pedigree columns should be separated by spaces.

An example pedigree file fragment, describing a single nuclear family genotyped at 3 markers would be:

100 1 0 0 1  1 2  1 2  1 2
100 2 0 0 2  1 2  1 2  1 2
100 3 1 2 1  1 1  2 2  1 1

This describes a family (labelled 100), contains two founders (1 and 2), and their single offspring (3). The founders are heterozygous at all marker loci, while the offspring is homozygous at all loci.