old_gg_Manhattan_Zoom — old_gg_Manhattan

Creates a manhattan plot zoomed in to a particular region. Note: this function is meant for the old version of GAPIT.

Usage

old_gg_Manhattan_Zoom(
  folder,
  trait,
  chr,
  start,
  end,
  title = trait,
  markers = NULL,
  labels = markers,
  vlines = markers,
  vline.color = "red",
  models = c("GLM", "MLM", "CMLM", "MLMM", "SUPER", "FarmCPU", "Blink"),
  colors = c("darkgreen", "darkgoldenrod3", "darkgreen", "darkgoldenrod3", "darkgreen",
    "darkgoldenrod3", "darkgreen")
)

Arguments

folder: Folder containing GWAS results.
trait: The trait to read.
chr: Chromosome to plot.
start: Start position on chromosome.
end: End position on chromosome.
title: A title for the plot.
markers: Markers to be labelled.
labels: Labels to be used for markers.
vlines: Markers which will be used as a location for a vertical lines.
vline.color: color for each vertical line.
models: Models to read.
colors: Colors for each chromosome

Value

A manhattan plot.