GSP {gscramble}

Example Genomic Simulation Pedigree, GSP, with 13 members

Description

A GSP is a pedigree with no inbreeding which specifies This is a relatively complex GSP. The tibble GSP specifies its structure using the following columns:

• ind: the numeric identifier for the individual specific to the row (we will call that the "focal individual").

• par1: numeric identifier of the first parent of the focal individual. Must be NA for pedigree founders.

• par2: numeric identifier of the second parent of the focal individual. Must be NA for pedigree founders.

• ipar1: the number of gametes that will be incoming from the first parent to the focal individual. Must be NA for pedigree founders. Note that this must be equal to ipar2.

• ipar2: the number of gametes that will be incoming from the second parent to the focal individual. Must be NA for pedigree founders. Note that this must be equal to ipar1.

• hap1: character name for the first haplotype of a founder (if the focal individual is a founder). Must be NA for pedigree non-founders.

• hap2: character name for the second haplotype of a founder (if the focal individual is a founder). Must be NA for pedigree non-founders.

• hpop1: character ID of the population from which haplotype 1 comes from. Must be NA for pedigree non-founders.

• hpop2: character ID of the population from which haplotype 2 comes from. Must be NA for pedigree non-founders.

• sample: character ID for the sample from the focal individual. NA if no samples are taken from the focal individual, and must be NA for any pedigree founders.

• osample: numeric value giving the number or samples that are taken from this individual. osample must be less than or equal to ipar1 and ipar2. If osample is less than ipar1 and ipar2, then some gametes must get passed on to descendants of the focal individual.

Format

A tibble

Details

The CSV version of this is in extdata/13-member-ped.csv.

Source

Created by the developers.