manhattanPlot: Manhattan plot for SNP effects

In synbreed: Framework for the Analysis of Genomic Prediction Data using R

Description

Plot of SNP effects along the chromosome, e.g. for the visualization of marker effects generated by function gpMod.

Usage

manhattanPlot(b, gpData = NULL, colored = FALSE, add = FALSE,
              pch = 19, ylab = NULL, colP = NULL, ...)

Arguments

b	object of class gpMod with marker effects or numeric vector of marker effects to plot
gpData	object of class gpData with map position
colored	logical. Color the chromosomes?. The default is FALSE with chromosomes distinguished by grey tones.
add	If TRUE, the plot is added to an existing plot. The default is FALSE.
pch	a vector of plotting characters or symbols: see points. The default is an open circle.
ylab	a title for the y axis: see title.
colP	color for the different chromosomes and points.
...	further arguments for function plot

Author(s)

Valentin Wimmer and Hans-Juergen Auinger

Examples

## Not run: 
library(synbreedData)
data(mice)
# plot only random noise
b <- rexp(ncol(mice$geno),3)
manhattanPlot(b,mice)

## End(Not run)

synbreed documentation built on May 2, 2019, 3:23 a.m.