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Create a Manhattan plot from rTASSEL association output

Source: R/plot_manhattan.R
plotManhattan.Rd

This function allows for quick generation of a Manhattan plot from rTASSEL association statistical output data.

Usage

plotManhattan(
  assocRes,
  trait = NULL,
  threshold = NULL,
  colors = c("#91baff", "#3e619b"),
  interactive = FALSE,
  pltTheme = c("default", "classic")
)

Arguments

assocRes

An object of type AssociationResults

trait

Which phenotypic trait do you want to plot? If set to NULL, this will generate a faceted plot with all mapped traits

threshold

User-defined \(-log_{10}(p)\)-value threshold for significant marker determination. Once specified any marker points higher than this line will be highlighted.

colors

A vector of character colors used for differentiating multiple chromosomes. Defaults to 2 shades of blue.

interactive

Do you want to produce an interactive visualization? Defaults to FALSE.

pltTheme

What theme would like to display for the plot? Only supports one theme currently.

Value

Returns a ggplot2 object