ggmanHighlightGroup: Highlight groups of points in Manhattan plot

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

Description

Highlights groups of points in the ggman Manhattan Plot and add a legend.

Usage

ggmanHighlightGroup(ggmanPlot, highlightDfm, snp = "snp", group = "group",
  legend.title = "legend", legend.remove = FALSE, ...)

Arguments

ggmanPlot	A ggman plot of class 'ggman'; see ggman
highlightDfm	A data frame object; one of the columns should contain snps identifiers
snp	Name of the snp column
group	Name of the grouping column; if all the snps are to be highlighted with same colour use ggmanHighlight
legend.title	Title of the legend.
legend.remove	If TRUE, legend will be removed.
...	other arguments passed to geom_point

Value

A manhattan plot with highlighted markers

Examples

p1 <- ggman(toy.gwas, snp = "snp", bp = "bp", chrom = "chrom",
pvalue = "pvalue")
ggmanHighlightGroup(p1, highlightDfm = toy.highlights.group, snp = "snp", group = "group",
                    size = 0.5, legend.title = "Significant groups")

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