create_phe_table_from_plink_text_data: Create a single-phenotype table from pedigree ('.ped') table...

In richelbilderbeek/plinkr: Interface to PLINK

Create a single-phenotype table from pedigree (.ped) table within the PLINK text data.

Description

Create a single-phenotype table from pedigree (.ped) table within the PLINK text data. The individuals' family and within-family ID's are copied. The case_control_code is copied as well, but renamed to trait and divided by then. In this way, PLINK treats the phenotype table as having quantitative traits.

Usage

create_phe_table_from_plink_text_data(plink_text_data)

Arguments

plink_text_data

the genetic and phenotypic data for PLINK to work on, in PLINK text format, as created by create_plink_text_data.

Value

a single-phenotype tibble, with columns:

• FID the family ID

• IID the within-family ID

• P1 the phenotype

The column names match the PLINK names, see https://www.cog-genomics.org/plink/1.9/input#pheno

Author(s)

Richèl J.C. Bilderbeek

Examples

create_phe_table_from_plink_text_data(create_test_plink_text_data())

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