pca_plot: PCA Plot

In gwaRs: Manhattan, Q-Q, and PCA Plots using 'ggplot2'

Description

Creates a PCA plot

Usage

pca_plot(
  data,
  xComponent = "PC1",
  yComponent = "PC2",
  legendPos = "right",
  soft = "PLINK",
  colPalette = "Accent",
  title = NULL
)

Arguments

data	PLINK pca or EIGENSTRAT smartpca output, (or any tab-delimited file or data.frame with the same format as PLINK pca or EIGENSTRAT smartpca output)
xComponent	A character vector indicating the principal component value to use for the x-axis. Default is "PC1"
yComponent	A character vector indicating the principal component value to use for the x-axis. Default is "PC2"
legendPos	A character vector indicating the legend position. Default is "right".
soft	A character vector indicating the software output format. Default is "PLINK". If you have a tab-delimited file or data.frame with the same format as EIGENSTRAT output, use "EIGENSTRAT"
colPalette	A character vector indicating the color palette to use. Default is "Accent".
title	A string denoting the title to use for the plot. Default is 'PCA Plot'

Details

Creates a PCA plot from PLINK pca output, EIGENSTRAT smartpca, (or any tab-delimited file or data.frame with the same format as PLINK pca or EIGENSTRAT smartpca output).

Value

A PCA plot.

Author(s)

Lindokuhle Nkambule

Examples

pca_plot(pcaData)

gwaRs documentation built on April 20, 2021, 1:07 a.m.