pca_score: Functions for plotting pca results in score plot

In schyen/somefxns: Generic Tools to Help with Analysis

Description

Functions for plotting pca results in score plot

Usage

pca_score(pca_data, PCs = 1:2, colour = NULL, shape = NULL,
  size = NULL, label = NULL, title = NULL, legend.ori = "vertical",
  pt.size = 3, outline = FALSE, CIgroup = NULL)

Arguments

pca_data	the PCA model output of prcomp()
PCs	numeric; vector of Principal Components to consider
colour	string; name of column to be used as the colour aesthetic
shape	string; name of column to be used as the shape aesthetic
size	string; name of column to be used as the size aesthetic
label	string; name of column to be used as the point labels
title	string; title of pca plot
legend.ori	string. c('vertical','horizontal'). Default 'vertical'
pt.size	numeric; default 3; size of points
outline	logic. Default TRUE. outline points
CIgroup	draws an ellipse based on covariance matrix at the 95 (one of the metadata columns) specifies the groupings around which ellipses should be drawn

Value

list of: p ggplot object with generated plot collected_data all the data used to plot pca data using ggplot2. can use collected_data for further customization using ggplot

schyen/somefxns documentation built on Aug. 6, 2019, 2:26 p.m.