GWAS_data: Creates a 'GWAS_data' object

In hidecan: Create HIDECAN Plots for Visualising Genome-Wide Association Studies and Differential Expression Results

Creates a GWAS_data object

Description

Creates a GWAS_data object from a tibble or data-frame of GWAS results.

Usage

GWAS_data(dat, keep_rownames_as = NULL)

Arguments

dat	Tibble, results from a GWAS analysis. See Details.
keep_rownames_as	Character, the name of the column in which to save the rownames of the input data-frame. Default value is NULL, i.e. rownames will be discarded.

Details

The input data should have one row per marker, and at least the following columns:

• chromosome: character column, chromosome on which the marker is located.

• position: numeric, the physical position of the marker along the chromosome (in bp).

• score or padj: numeric, the GWAS score or adjusted p-value of the marker. If column score column is missing, will be constructed as -log10(padj).

Value

A GWAS_data object, i.e. a tibble.

Examples

x <- get_example_data()

GWAS_data(x[["GWAS"]])

hidecan documentation built on Feb. 16, 2023, 6:22 p.m.