PCAplot.eset: Pairwise Principal Component Analysis Plots

In hbc/CHBUtils: "Useful utility functions used at the core"

Description

Pairwise Principal Component Analysis Plots

Usage

PCAplot.eset(eset = NULL, categories = NULL, secondary_categories = NULL,
  title = NULL, colorpalette = NULL, alpha = 1, numcomponents = 4)

Arguments

eset	ExpressionSet, required
categories	character vector column identifier containing different categories to highlight with colors, required
secondary_categories	character vector column identifier containing different categories to highlight by shape, optional
title	title for the plot, required
colorpalette	vector of RGB colors (long enough for a color per category), required
alpha	alpha shading from 0 (transparent) to 1 (opaque), defaults to 1
numcomponents	number of principal components to plot, defaults to 4

Value

pairwise plots of samples plotted by principal component

See Also

pair which this function uses to plot all pairwise combos

Examples

PCAplot.eset(eset=AffyNorm, categories="groups", title="PCAplot - groups", colorpalette=c("#FF0000", "#00FF00", "#0000FF", alpha=0.8, numcomponents=4)

hbc/CHBUtils documentation built on May 17, 2019, 3:07 p.m.