gxeman: gxeman

In anastasia-lucas/nightlight: An 'omic Interaction Heatmap Package

Description

Create heatmap plots for SNPxE or GxE interaction Dependencies: ggplot2

Usage

gxeman(d, snpme, envme, highlight_p = 0.05, legend = "p-value",
  title = NULL, high = "#02021e", low = "#1A0F99",
  highlight_high = "yellow", highlight_low = "#fffcd3", file = "gxgman",
  hgt = 7, wi = 7.5, res = 300)

Arguments

d	data frame, must contain SNP, ENV, CHR, POS, pvalue columns, optional Group column (for grouping ENV)
snpme	optional main effect data frame containing SNP, CHR, POS, pvalue columns, optional Shape column
envme	optional main effect data frame containing ENV and pvalue columns, optional Group column (for grouping ENV)
highlight_p	threshold to diverge gradient color scale, default 0.05, set to "off" for no threshold
legend	title for color legend, default "p-value"
title	optional string for plot title
high	color for high values
low	color for low values
highlight_high	if highlight_p given, color for max of highlight range
highlight_low	if highlight_p given, color for min of highlight range
file	file name of saved image
hgt	height of plot in inches
wi	width of plot in inches
res	resolution of plot in pixels per inch

Value

png image

Examples

gxeman(d, me, symmetric, highlight_p, legend, title, high, low, highlight_high, highlight_low, file, hgt, wi, res)

anastasia-lucas/nightlight documentation built on May 14, 2019, 6:09 a.m.