load_GWAS_data {PAST}R Documentation

Load GWAS data

Description

Load GWAS data

Usage

load_GWAS_data(association_file, effects_file,
  association_columns = c("Trait", "Marker", "Locus", "Site", "p",
  "marker_R2"), effects_columns = c("Trait", "Marker", "Locus", "Site",
  "Effect"))

Arguments

association_file

The association file

effects_file

The effects file

association_columns

The names of the columns in your association data for Trait, Marker, Chromosome, Site, F, p, and marker_Rsquared

effects_columns

The names of the columns in your effects data for Trait, Marker, Chromosome, Site, and effect

Value

The association data and the effects data merged into a dataframe with one row for each SNP

Examples

demo_association_file = system.file("extdata", "association.txt.xz",
  package = "PAST", mustWork = TRUE)
demo_effects_file = system.file("extdata", "effects.txt.xz",
  package = "PAST", mustWork = TRUE)
gwas_data <- load_GWAS_data(demo_association_file, demo_effects_file)

[Package PAST version 1.0.1 Index]