plotMiami: Miami plot

In oncogenetics/oncofunco: Custom function for Oncogenetics team

Miami plot

Description

Miami plot - WORK IN PROGRESS...

Usage

plotMiami(
  dat = NULL,
  hits = NULL,
  hitsName = hits,
  hitsLabel = TRUE,
  hitsColour = NULL,
  pMinFilter = 0.05,
  pMaxCap = 1/10^50,
  yRange = c(-50, 50),
  yRangeBy = 5,
  colP1 = c("green", "limegreen"),
  colP2 = c("lightblue", "blue"),
  title = c("My Main Title", "My Top Title", "My Bottom Title")
)

Arguments

dat	SNP association results, data.frame object with c("SNP","BP","P") columns. Required.
hits	SNP names to label in the plot. Must be present in assoc data.frame.
hitsName	alternative SNP names to label in the plot. Default same as 'hits'
hitsLabel	Default is TRUE, set to FALSE not to show SNP names on the plot.
hitsColour	Default NULL, uses ggplot colours.
yRange
yRangeBy	y-axis ticks, setting to 5 means ticks will be placed at 'c(0, 5, 10, ...)'.
title	character string for plot title. Default is NULL, i.e.: no plot title.
yMin, yMax	y-axis range limits.

Value

a ggplot object

Author(s)

Tokhir Dadaev, Edward J. Saunders

oncogenetics/oncofunco documentation built on March 9, 2024, 5:23 p.m.