plot.BootCanonAnalysis: Plots the principal coordinates of the group centers and the...

In PERMANOVA: Multivariate Analysis of Variance Based on Distances and Permutations

Description

Plots the principal coordinates of the group centers and the bootstrap confidence regions.

Usage

## S3 method for class 'BootCanonAnalysis'
plot(x, A1 = 1, A2 = 2, centred = FALSE, confidence = 0.9,
PlotReplicates = TRUE, MeanCex = 1.5, MeanPch = 16, 
Title = "Bootstrap Canonical Analysis based on Distances", 
LabelMeans = TRUE, MeanLabels = NULL, MeanColors = NULL, SmartLabels = TRUE, 
BootstrapPlot = "el", PlotIndiv = FALSE, LabelInd = FALSE, IndLabels = NULL, 
IndColors = NULL, CexInd = 0.5, PchInd = 1, ConvexHullsInd = FALSE, ...)

Arguments

x	The object to plot.
A1	Dimension to plot on the X axis.
A2	Dimension to plot on the Y axis.
centred	Plot centers of the bootstrap regions.
confidence	Confidence for the bootstrap regions.
PlotReplicates	Should all the bootstrap replicates be plotted.
MeanCex	Size of the points and text representing the centroids of the groups.
MeanPch	Marks of the points and text representing the centroids of the groups.
Title	Main title of the graph.
LabelMeans	Should the groups be labelled?
MeanLabels	Labels for the group means.
MeanColors	Colors for the group means.
SmartLabels	Should the labels be placed in a smart way?
BootstrapPlot	Should the bootstrap regions be plotted?
PlotIndiv	Should the individuals be plotted?
LabelInd	Should individuals be labelled?
IndLabels	Labels for the individuals.
IndColors	Colors for the rows (individuals).
CexInd	Sizes for the rows (individuals).
PchInd	Marks for the rows (individuals).
ConvexHullsInd	Convex hulls containing the individuals of each group.
...	Any other graphical parameters.

Details

Plots the principal coordinates of the means of the groups with the confidence bootstrap region.

Value

The plot.

Author(s)

Laura Vicente-Gonzalez, Jose Luis Vicente-Villardon

PERMANOVA documentation built on Sept. 6, 2021, 5:07 p.m.