create_demo_assoc_qt_covar_data: Create a set of 'assoc_qt_covar' parameters to demonstrate...

In richelbilderbeek/plinkr: Interface to PLINK

Create a set of assoc_qt_covar parameters to demonstrate PLINKs --assoc and --covar functionality

Description

This function creates:

• Individuals that have all combinations of SNPs exactly once, as created by the create_demo_ped_table function

• All SNPs that are on different chromosomes as created by the create_demo_map_table function

• Traits that follow different genotype to phenotype mapping:

  • control: a trait that is random

  • additive: a trait that is perfectly additive, see calc_additive_phenotype_values for the exact calculation

  • epistatic: a trait that is epistatic, see calc_epistatic_phenotype_values for the exact calculation

Usage

create_demo_assoc_qt_covar_data(
  n_individuals = 3,
  traits = create_demo_traits()
)

Arguments

n_individuals	the number of individuals. Use check_n_individuals to check if this is a valid value
traits	one or more traits with a clear genetic architecture and a known minor allele frequency, as, for example, created by create_demo_traits.

Note

This function is named after the --assoc and --covar PLINK flags.

Author(s)

Richèl J.C. Bilderbeek

Examples

create_demo_assoc_qt_covar_data()

richelbilderbeek/plinkr documentation built on March 25, 2024, 3:18 p.m.