ggmanZoom.old: ggmanZoom.old

In veera-dr/ggman: R package for Manhattan Plots

Description

Zoom in to a specific region of the Manhattan Plot

Usage

ggmanZoom.old(ggmanPlot, chromosome, start.position = NA, end.position = NA,
  xlabel = NA, ylabel = NA, title = NA, highlight.group = NA,
  legend.title = "legend", legend.remove = FALSE, ...)

Arguments

ggmanPlot	A ggplot object of class 'ggman'
chromosome	Chromosome identifier
start.position	Starting basepair position
end.position	Ending basepair position
xlabel	X axis label
ylabel	Y axis label
title	Plot title
highlight.group	Name of the column containing grouping variable in the parent data.frame that was used to create main ggplot layer.
legend.title	title for legend; default is 'legend'
legend.remove	if TRUE, the legend will be removed; default is FALSE
...	other arguments to pass to geom_point

Value

A regional association plot

Examples

#specific chromosome
p1 <- ggman(toy.gwas, snp = "snp", bp = "bp", chrom = "chrom",
pvalue = "pvalue")
ggmanZoom(p1, chromosome = 1)

#specific region
ggmanZoom(p1, chromosome = 1, start.position = 215388741, end.position = 238580695)

#add highlights and legend
ggmanZoom(p1, chromosome = 1, start.position = 215388741, end.position = 238580695,
          highlight.group = "gene", legend.title = "Genes")

veera-dr/ggman documentation built on May 3, 2019, 4:59 p.m.