manhattan_plot: Manhattan Plot

In pcadapt: Fast Principal Component Analysis for Outlier Detection

Manhattan Plot

Description

manhattan_plot displays a Manhattan plot which represents the p-values for each SNP for a particular test statistic.

Usage

manhattan_plot(x, chr.info, snp.info, plt.pkg = "ggplot", K = 1)

Arguments

x	an object of class "pcadapt" generated with pcadapt containing the p-values of interest.
chr.info	a list containing the chromosome information for each marker.
snp.info	a list containing the names of all genetic markers present in the input.
plt.pkg	a character string specifying the package to be used to display the graphical outputs. Use "plotly" for interactive plots, or "ggplot" for static plots.
K	an integer specifying which principal component to display when method="componentwise".

pcadapt documentation built on Aug. 29, 2023, 5:07 p.m.