qq: Creates a QQ plot using ggplot2 and returns the plot object.

In SelectionPredisposed/qqman2: Plots for GWAS

Description

Creates a QQ plot using ggplot2 and returns the plot object.

Usage

qq(x, p = "P", maf = "MAF", typed = NA, thresholdLow = 5,
  thresholdHigh = -log10(5e-08), thresholdLowColor = "blue",
  thresholdHighColor = "red", mafColor = "black", title = Sys.time())

Arguments

x	A data frame with result data
p	P-value column in data frame
typed	the column in the data frame indicating whether the markers are genotyped or imputed (ignored if NA)
thresholdLow	the low threshold value (log10)
thresholdHigh	the high threshold value (log10)
thresholdLowColor	the color of the low threshold
thresholdHighColor	the color of the high threshold
mafColor	the color of the low maf values
title	Title of plot (date by default, ignored if NA)

Value

A manhattan plot (ggplot2 object)

SelectionPredisposed/qqman2 documentation built on May 21, 2019, 1:41 a.m.