LAPP.plot.PCA: Plot LAPP PCA

In ash129/LAPP: Ligand Analysis with Physicochemical Properties

Description

LAPP.plot.PCA() takes in a modified PCA object returned by LAPP.PCA() and plots it. Uses ggplot2.

Usage

LAPP.plot.PCA(pca, dim1 = 1, dim2 = 2, type = "density",
  colors = c("#000000", "#E69F00", "#56B4E9", "#009E73", "#F0E442", "#0072B2",
  "#D55E00", "#CC79A7"))

Arguments

pca	modified PCA object returned by LAPP.PCA(). Can take up to 8 different HLA alleles.
dim1	Index of PC to plot along the x-axis. Defaults to 1
dim2	Index of PC to plot along the y-axis. Defaults to 2
type	Describes the type of plot to make. Either 'points' (default) for scatter plo,t or 'density' for a 2D KDE density graph.
type	How the PCA should be plotted. Either 'points' for scatterplot or 'density' for an automated 2D KDE plot (default).

ash129/LAPP documentation built on May 10, 2019, 1:52 p.m.