igxgman: igxgman

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

Description

Create interactive heatmap plots for SNPxSNP or GxG interaction Dependencies: ggplot2

Usage

igxgman(d, me, symmetric = TRUE, highlight_p = 0.05, legend = "p-value",
  title = NULL, high = "#02021e", low = "#1A0F99",
  highlight_high = "yellow", highlight_low = "#fffcd3", dbSNP,
  moreinfo = FALSE, file = "igxgman", hgt = 7, wi = 7.5, res = 300)

Arguments

d	data frame, must contain SNP1, CHR1, POS1, SNP2, CHR2, POS2, pvalue columns, optional Info column
me	optional main effect data frame containing SNP, CHR, POS, pvalue columns, optional Shape and Info column
symmetric	boolean, should the plot be symmetric
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
moreinfo	includes more information on hover, refers to Info column
file	file name of saved image
hgt	height of plot in inches
wi	width of plot in inches
db	database to connect to (GWAScatalog or dbSNP), only used when 'me' is provided

Value

html file

Examples

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

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