plotGWAS: A Flexible Function to draw Manhattan Plot

In LeileiCui/ADDO: a comprehensive toolkit to detect, classify and visualise additive and non-additive Quantitative Trait Loci

Description

Manhattan Plot for whole genome association analyses for single or multiple traits

Usage

plotGWAS(chrs = chrs, traitIdx = 1, plotcolor = c("darkgreen"),
  alldat = alldat, y_limit = "", main = "", cex_points = 1,
  cex_lab = 3.1, cex_axis = 3)

Arguments

chrs	A vector of numbers or characters indicating the chromosomes of markers.
traitIdx	A numeric variable indicating the index of trait to plot.
plotcolor	A vector of characters specify the colors used to plot the signatures on each chromosome.
alldat	A dataframe with columns containing SNP, chr, pos and association strength (-log10 P value) of markers for one or more traits.
y_limit	A numeric variable detail the range of y axis.
main	A character specifies the title of the plot.
cex_points	A numeric value specifies the cex of points in the plot.
cex_lab	A numeric value specifies the cex of labels in the plot.
cex_axis	A numeric value specifies the cex of axis in the plot.

Value

a figure

Author(s)

Bin Yang and Leilei Cui

LeileiCui/ADDO documentation built on July 25, 2020, 1:51 a.m.